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Fusion Gene Summary

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Fusion Gene ORF analysis

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Fusion Genomic Features

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Fusion Protein Features

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Fusion Gene Sequence

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Fusion Gene PPI analysis

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Related Drugs

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Related Diseases

Fusion gene:CRY2-C11orf49 (FusionGDB2 ID:HG1408TG79096)

Fusion Gene Summary for CRY2-C11orf49

check button Fusion gene summary
Fusion gene informationFusion gene name: CRY2-C11orf49
Fusion gene ID: hg1408tg79096
HgeneTgene
Gene symbol

CRY2

C11orf49

Gene ID

1408

79096

Gene namecryptochrome circadian regulator 2chromosome 11 open reading frame 49
SynonymsHCRY2|PHLL2-
Cytomap('CRY2')('C11orf49')

11p11.2

11p11.2

Type of geneprotein-codingprotein-coding
Descriptioncryptochrome-2cryptochrome 2 (photolyase-like)cryptochrome circadian clock 2growth-inhibiting protein 37UPF0705 protein C11orf49
Modification date2020032920200313
UniProtAcc.

Q9H6J7

Ensembl transtripts involved in fusion geneENST00000473199, ENST00000417225, 
ENST00000443527, 
Fusion gene scores* DoF score3 X 5 X 2=3017 X 14 X 6=1428
# samples 518
** MAII scorelog2(5/30*10)=0.736965594166206
effective Gene in Pan-Cancer Fusion Genes (eGinPCFGs).
DoF>8 and MAII>0		log2(18/1428*10)=-2.98792716769943
possibly effective Gene in Pan-Cancer Fusion Genes (peGinPCFGs).
DoF>8 and MAII<0
Context

PubMed: CRY2 [Title/Abstract] AND C11orf49 [Title/Abstract] AND fusion [Title/Abstract]

Most frequent breakpointCRY2(45880424)-C11orf49(47073939), # samples:2
Anticipated loss of major functional domain due to fusion event.CRY2-C11orf49 seems lost the major protein functional domain in Hgene partner, which is a CGC by not retaining the major functional domain in the partially deleted in-frame ORF.
CRY2-C11orf49 seems lost the major protein functional domain in Hgene partner, which is a essential gene by not retaining the major functional domain in the partially deleted in-frame ORF.
* DoF score (Degree of Frequency) = # partners X # break points X # cancer types
** MAII score (Major Active Isofusion Index) = log2(# samples/DoF score*10)

check button Gene ontology of each fusion partner gene with evidence of Inferred from Direct Assay (IDA) from Entrez
PartnerGeneGO IDGO termPubMed ID
HgeneCRY2

GO:0000122

negative regulation of transcription by RNA polymerase II

12397359|14672706|15147242

HgeneCRY2

GO:0000719

photoreactive repair

12627958

HgeneCRY2

GO:0032515

negative regulation of phosphoprotein phosphatase activity

9383998

HgeneCRY2

GO:0045892

negative regulation of transcription, DNA-templated

12397359

HgeneCRY2

GO:2000118

regulation of sodium-dependent phosphate transport

9753616


check buttonFusion gene breakpoints across CRY2 (5'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure
check buttonFusion gene breakpoints across C11orf49 (3'-gene)
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
all structure

check button Fusion gene information
* All genome coordinats were lifted-over on hg19.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
SourceDiseaseSampleHgeneHchrHbpHstrandTgeneTchrTbpTstrand
ChimerDB4UCSTCGA-N8-A4PP-01ACRY2chr11

45880424

+C11orf49chr11

47073939

+
ChimerDB4UCSTCGA-N8-A4PPCRY2chr11

45880424

+C11orf49chr11

47073939

+


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Fusion Gene ORF analysis for CRY2-C11orf49

check button Open reading frame (ORF) analsis of fusion genes based on Ensembl gene isoform structure.
* Click on the break point to see the gene structure around the break point region using the UCSC Genome Browser.
ORFHenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrand
3UTR-3CDSENST00000473199ENST00000378618CRY2chr11

45880424

+C11orf49chr11

47073939

+
3UTR-3UTRENST00000473199ENST00000527268CRY2chr11

45880424

+C11orf49chr11

47073939

+
3UTR-5UTRENST00000473199ENST00000278460CRY2chr11

45880424

+C11orf49chr11

47073939

+
3UTR-5UTRENST00000473199ENST00000378615CRY2chr11

45880424

+C11orf49chr11

47073939

+
3UTR-5UTRENST00000473199ENST00000395460CRY2chr11

45880424

+C11orf49chr11

47073939

+
3UTR-5UTRENST00000473199ENST00000536126CRY2chr11

45880424

+C11orf49chr11

47073939

+
3UTR-intronENST00000473199ENST00000543718CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-3UTRENST00000417225ENST00000527268CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-3UTRENST00000443527ENST00000527268CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-5UTRENST00000417225ENST00000278460CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-5UTRENST00000417225ENST00000378615CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-5UTRENST00000417225ENST00000395460CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-5UTRENST00000417225ENST00000536126CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-5UTRENST00000443527ENST00000278460CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-5UTRENST00000443527ENST00000378615CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-5UTRENST00000443527ENST00000395460CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-5UTRENST00000443527ENST00000536126CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-intronENST00000417225ENST00000543718CRY2chr11

45880424

+C11orf49chr11

47073939

+
5CDS-intronENST00000443527ENST00000543718CRY2chr11

45880424

+C11orf49chr11

47073939

+
In-frameENST00000417225ENST00000378618CRY2chr11

45880424

+C11orf49chr11

47073939

+
In-frameENST00000443527ENST00000378618CRY2chr11

45880424

+C11orf49chr11

47073939

+

check buttonORFfinder result based on the fusion transcript sequence of in-frame fusion genes.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandSeq length
(transcript)		BP loci
(transcript)		Predicted start
(transcript)		Predicted stop
(transcript)		Seq length
(amino acids)
ENST00000417225CRY2chr1145880424+ENST00000378618C11orf49chr1147073939+1381416211247408
ENST00000443527CRY2chr1145880424+ENST00000378618C11orf49chr1147073939+1517552221383453

check buttonDeepORF prediction of the coding potential based on the fusion transcript sequence of in-frame fusion genes. DeepORF is a coding potential classifier based on convolutional neural network by comparing the real Ribo-seq data. If the no-coding score < 0.5 and coding score > 0.5, then the in-frame fusion transcript is predicted as being likely translated.
HenstTenstHgeneHchrHbpHstrandTgeneTchrTbpTstrandNo-coding scoreCoding score
ENST00000417225ENST00000378618CRY2chr1145880424+C11orf49chr1147073939+0.0030606310.9969394
ENST00000443527ENST00000378618CRY2chr1145880424+C11orf49chr1147073939+0.0137382630.9862618

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Fusion Genomic Features for CRY2-C11orf49


check buttonFusionAI prediction of the potential fusion gene breakpoint based on the pre-mature RNA sequence context (+/- 5kb of individual partner genes, total 20kb length sequence). FusionAI is a fusion gene breakpoint classifier based on convolutional neural network by comparing the fusion positive and negative sequence context of ~ 20K fusion gene data. From here, we can have the relative potentency of the 20K genomic sequence how individual sequnce will be likely used as the gene fusion breakpoints.
HgeneHchrHbpHstrandTgeneTchrTbpTstrand1-pp (fusion gene breakpoint)
CRY2chr1145880424+C11orf49chr1147073938+0.0111731930.98882675
CRY2chr1145880424+C11orf49chr1147073938+0.0111731930.98882675
CRY2chr1145880424+C11orf49chr1147073938+0.0111731930.98882675
CRY2chr1145880424+C11orf49chr1147073938+0.0111731930.98882675

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions. We integrated a total of 44 different types of human genomic feature loci information across five big categories including virus integration sites, repeats, structural variants, chromatin states, and gene expression regulation. More details are in help page.
genomic feature

check buttonDistribution of 44 human genomic features loci across 20kb length fusion breakpoint regions that are ovelapped with the top 1% feature importance score regions. More details are in help page.
genomic feature of top 1%

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Fusion Protein Features for CRY2-C11orf49


check button Four levels of functional features of fusion genes
Go to FGviewer search page for the most frequent breakpoint (https://ccsmweb.uth.edu/FGviewer/chr11:45880424/chr11:47073939)
- FGviewer provides the online visualization of the retention search of the protein functional features across DNA, RNA, protein, and pathological levels.
- How to search
1. Put your fusion gene symbol.
2. Press the tab key until there will be shown the breakpoint information filled.
4. Go down and press 'Search' tab twice.
4. Go down to have the hyperlink of the search result.
5. Click the hyperlink.
6. See the FGviewer result for your fusion gene.
FGviewer

check buttonMain function of each fusion partner protein. (from UniProt)
HgeneTgene
.C11orf49

Q9H6J7

FUNCTION: Transcriptional activator which is required for calcium-dependent dendritic growth and branching in cortical neurons. Recruits CREB-binding protein (CREBBP) to nuclear bodies. Component of the CREST-BRG1 complex, a multiprotein complex that regulates promoter activation by orchestrating a calcium-dependent release of a repressor complex and a recruitment of an activator complex. In resting neurons, transcription of the c-FOS promoter is inhibited by BRG1-dependent recruitment of a phospho-RB1-HDAC1 repressor complex. Upon calcium influx, RB1 is dephosphorylated by calcineurin, which leads to release of the repressor complex. At the same time, there is increased recruitment of CREBBP to the promoter by a CREST-dependent mechanism, which leads to transcriptional activation. The CREST-BRG1 complex also binds to the NR2B promoter, and activity-dependent induction of NR2B expression involves a release of HDAC1 and recruitment of CREBBP (By similarity). {ECO:0000250}.

check buttonRetention analysis result of each fusion partner protein across 39 protein features of UniProt such as six molecule processing features, 13 region features, four site features, six amino acid modification features, two natural variation features, five experimental info features, and 3 secondary structure features. Here, because of limited space for viewing, we only show the protein feature retention information belong to the 13 regional features. All retention annotation result can be downloaded at

download page


* Minus value of BPloci means that the break pointn is located before the CDS.
- In-frame and retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note

- In-frame and not-retained protein feature among the 13 regional features.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenProtein featureProtein feature note
HgeneCRY2chr11:45880424chr11:47073939ENST00000417225+31222_15194585.0DomainNote=Photolyase/cryptochrome alpha/beta
HgeneCRY2chr11:45880424chr11:47073939ENST00000417225+312406_40894585.0Nucleotide bindingFAD
HgeneCRY2chr11:45880424chr11:47073939ENST00000417225+312390_48994585.0RegionRequired for inhibition of CLOCK-ARNTL-mediated transcription


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Fusion Gene Sequence for CRY2-C11orf49


check button For in-frame fusion transcripts, we provide the fusion transcript sequences and fusion amino acid sequences. To have fusion amino acid sequence, we ran ORFfinder and chose the longest ORF among the all predicted ones.
>19581_19581_1_CRY2-C11orf49_CRY2_chr11_45880424_ENST00000417225_C11orf49_chr11_47073939_ENST00000378618_length(transcript)=1381nt_BP=416nt
AGCTTCTTCTAGAAGCAGGCCCTGAACAGGACGTGGGTAAGAGATCCGCTGTCCCTTGAGACTTGGCCTACTCCCGGCACTCCGCGGACA
GCCCCAGCCTGCGGACAGCCCCAGCCTGCGTCACTTGTCCGCATGCCAGCTCCACCCGGGCGGACCCACACATGGTTCCTACTTCAGTCT
CTGGAAGATTTGGACACAAGTTTAAGGAAACTGAACTCCCGCCTGTTTGTAGTCCGGGGACAGCCAGCCGACGTGTTCCCAAGGCTGTTC
AAGGAATGGGGAGTGACCCGCTTGACCTTTGAATATGACTCTGAACCCTTTGGGAAAGAACGGGATGCAGCCATCATGAAGATGGCCAAG
GAGGCTGGTGTGGAAGTAGTGACGGAGAATTCTCATACCCTCTATGACCTGGACAGTTTTAACAGTGTATGCCAGGGAACACACATTCTC
TTTCGAGAATTCAGCTTCGTCCAAGCCACCCCCCACAATAGGGTATCATTTTTACGGGCCTTCTGGAGATGCTTCCGAACTGTGGGCAAA
AATGGCGATTTGCTGACCATGAAAGAATATCACTGTTTGCTGCAATTACTGTGTCCTGATTTCCCGCTGGAGCTCACTCAGAAAGCAGCC
AGGATTGTGCTCATGGACGATGCCATGGACTGCTTGATGTCTTTTTCAGATTTCCTCTTTGCCTTCCAGATCCAGTTTTACTACTCAGAA
TTCCTGGACAGTGTGGCTGCCATCTATGAGGACCTGCTGTCAGGCAAGAACCCCAACACAGTGATTGTGCCGACGTCGTCCAGTGGGCAG
CACCGCCAACGACCTGCCTTGGGCGGGGCCGGCACGCTGGAGGGCGTGGAGGCGTCGCTGTTCTACCAGTGTCTGGAAAACCTGTGTGAT
CGGCACAAGTACAGCTGCCCACCCCCAGCACTTGTCAAAGAGGCCCTCAGCAATGTTCAGAGACTGACCTTCTATGGATTCCTCATGGCT
CTCTCAAAGCACCGTGGAATCAACCAAGCCCTCGGAGCTTTGCCTGACAAGGGGGATCTGATGCACGACCCAGCAATGGATGAAGAGCTG
GAACGGCTGGTGGTGAGGTCGAAGCTGCACCGGACCTCACGGCAGCACAGAGCCAAGGAGCCAGGGGCCTTTGGCTTTCAGAGAAGAGAG
AAGCAGGAGGCCCTGGAGAGAGTGTCCTCAGCTTCGGTACCGACGCCCTACCATTACCGGTGGGAGCCCAGAGAGTGAGGCCAGGGGCCG
GCACTGGGCAGGGAGGCAGGATCCAGAGGACACTGCTTCACTCAGACCAACAGGGAGCCAGGCCCTGCAGGGGCTTTATTTTGACACCAC
TTTGTTTCAATACAAACAGTCCAGAAAGAAA

>19581_19581_1_CRY2-C11orf49_CRY2_chr11_45880424_ENST00000417225_C11orf49_chr11_47073939_ENST00000378618_length(amino acids)=408AA_BP=129
MNRTWVRDPLSLETWPTPGTPRTAPACGQPQPASLVRMPAPPGRTHTWFLLQSLEDLDTSLRKLNSRLFVVRGQPADVFPRLFKEWGVTR
LTFEYDSEPFGKERDAAIMKMAKEAGVEVVTENSHTLYDLDSFNSVCQGTHILFREFSFVQATPHNRVSFLRAFWRCFRTVGKNGDLLTM
KEYHCLLQLLCPDFPLELTQKAARIVLMDDAMDCLMSFSDFLFAFQIQFYYSEFLDSVAAIYEDLLSGKNPNTVIVPTSSSGQHRQRPAL
GGAGTLEGVEASLFYQCLENLCDRHKYSCPPPALVKEALSNVQRLTFYGFLMALSKHRGINQALGALPDKGDLMHDPAMDEELERLVVRS
KLHRTSRQHRAKEPGAFGFQRREKQEALERVSSASVPTPYHYRWEPRE

--------------------------------------------------------------
>19581_19581_2_CRY2-C11orf49_CRY2_chr11_45880424_ENST00000443527_C11orf49_chr11_47073939_ENST00000378618_length(transcript)=1517nt_BP=552nt
GTCATAGGTCACTGGGCGGGCTATGGGCGGGGTCCACGTCGCCTACCGGGGCGGAGCGGGGGTGGCTGGAGCAGTCTGGACAGTCATGGC
GGCGACTGTGGCGACGGCGGCAGCTGTGGCCCCGGCGCCAGCGCCCGGCACGGACAGCGCCTCTTCGGTGCACTGGTTCCGCAAAGGGCT
GCGACTCCACGACAACCCGGCGTTGCTGGCGGCCGTGCGCGGGGCGCGCTGCGTGCGCTGCGTTTACATTCTCGACCCGTGGTTCGCGGC
CTCCTCCTCAGTCGGGATCAACCGATGGAGGTTCCTACTTCAGTCTCTGGAAGATTTGGACACAAGTTTAAGGAAACTGAACTCCCGCCT
GTTTGTAGTCCGGGGACAGCCAGCCGACGTGTTCCCAAGGCTGTTCAAGGAATGGGGAGTGACCCGCTTGACCTTTGAATATGACTCTGA
ACCCTTTGGGAAAGAACGGGATGCAGCCATCATGAAGATGGCCAAGGAGGCTGGTGTGGAAGTAGTGACGGAGAATTCTCATACCCTCTA
TGACCTGGACAGTTTTAACAGTGTATGCCAGGGAACACACATTCTCTTTCGAGAATTCAGCTTCGTCCAAGCCACCCCCCACAATAGGGT
ATCATTTTTACGGGCCTTCTGGAGATGCTTCCGAACTGTGGGCAAAAATGGCGATTTGCTGACCATGAAAGAATATCACTGTTTGCTGCA
ATTACTGTGTCCTGATTTCCCGCTGGAGCTCACTCAGAAAGCAGCCAGGATTGTGCTCATGGACGATGCCATGGACTGCTTGATGTCTTT
TTCAGATTTCCTCTTTGCCTTCCAGATCCAGTTTTACTACTCAGAATTCCTGGACAGTGTGGCTGCCATCTATGAGGACCTGCTGTCAGG
CAAGAACCCCAACACAGTGATTGTGCCGACGTCGTCCAGTGGGCAGCACCGCCAACGACCTGCCTTGGGCGGGGCCGGCACGCTGGAGGG
CGTGGAGGCGTCGCTGTTCTACCAGTGTCTGGAAAACCTGTGTGATCGGCACAAGTACAGCTGCCCACCCCCAGCACTTGTCAAAGAGGC
CCTCAGCAATGTTCAGAGACTGACCTTCTATGGATTCCTCATGGCTCTCTCAAAGCACCGTGGAATCAACCAAGCCCTCGGAGCTTTGCC
TGACAAGGGGGATCTGATGCACGACCCAGCAATGGATGAAGAGCTGGAACGGCTGGTGGTGAGGTCGAAGCTGCACCGGACCTCACGGCA
GCACAGAGCCAAGGAGCCAGGGGCCTTTGGCTTTCAGAGAAGAGAGAAGCAGGAGGCCCTGGAGAGAGTGTCCTCAGCTTCGGTACCGAC
GCCCTACCATTACCGGTGGGAGCCCAGAGAGTGAGGCCAGGGGCCGGCACTGGGCAGGGAGGCAGGATCCAGAGGACACTGCTTCACTCA
GACCAACAGGGAGCCAGGCCCTGCAGGGGCTTTATTTTGACACCACTTTGTTTCAATACAAACAGTCCAGAAAGAAA

>19581_19581_2_CRY2-C11orf49_CRY2_chr11_45880424_ENST00000443527_C11orf49_chr11_47073939_ENST00000378618_length(amino acids)=453AA_BP=174
MGGVHVAYRGGAGVAGAVWTVMAATVATAAAVAPAPAPGTDSASSVHWFRKGLRLHDNPALLAAVRGARCVRCVYILDPWFAASSSVGIN
RWRFLLQSLEDLDTSLRKLNSRLFVVRGQPADVFPRLFKEWGVTRLTFEYDSEPFGKERDAAIMKMAKEAGVEVVTENSHTLYDLDSFNS
VCQGTHILFREFSFVQATPHNRVSFLRAFWRCFRTVGKNGDLLTMKEYHCLLQLLCPDFPLELTQKAARIVLMDDAMDCLMSFSDFLFAF
QIQFYYSEFLDSVAAIYEDLLSGKNPNTVIVPTSSSGQHRQRPALGGAGTLEGVEASLFYQCLENLCDRHKYSCPPPALVKEALSNVQRL
TFYGFLMALSKHRGINQALGALPDKGDLMHDPAMDEELERLVVRSKLHRTSRQHRAKEPGAFGFQRREKQEALERVSSASVPTPYHYRWE
PRE

--------------------------------------------------------------

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Fusion Gene PPI Analysis for CRY2-C11orf49


check button Go to ChiPPI (Chimeric Protein-Protein interactions) to see the chimeric PPI interaction in

ChiPPI page.


check button Protein-protein interactors with each fusion partner protein in wild-type (BIOGRID-3.4.160)
HgeneHgene's interactorsTgeneTgene's interactors


check button - Retained PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenStill interaction with


check button - Lost PPIs in in-frame fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


check button - Retained PPIs, but lost function due to frame-shift fusion.
PartnerGeneHbpTbpENSTStrandBPexonTotalExonProtein feature loci*BPlociTotalLenInteraction lost with


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Related Drugs for CRY2-C11orf49


check button Drugs targeting genes involved in this fusion gene.
(DrugBank Version 5.1.8 2021-05-08)
PartnerGeneUniProtAccDrugBank IDDrug nameDrug activityDrug typeDrug status

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Related Diseases for CRY2-C11orf49


check button Diseases associated with fusion partners.
(DisGeNet 4.0)
PartnerGeneDisease IDDisease name# pubmedsSource
HgeneCRY2C0005586Bipolar Disorder4PSYGENET
HgeneCRY2C0011581Depressive disorder4PSYGENET
HgeneCRY2C0011570Mental Depression3PSYGENET
HgeneCRY2C0023473Myeloid Leukemia, Chronic1CTD_human
HgeneCRY2C0085159Seasonal Affective Disorder1PSYGENET