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	Gene Summary
	Translation studies in PubMed
	Exon Skipping Events
	Expression
	Expression Regulation
	Associated Genes
	Protein 3D Structure
	Protein-Protein Interaction
	Mutations
	Prognostic Analysis
	Gender Association
	Age Association
	Related Drugs
	Related Diseases

Translation Factor: CIRBP (NCBI Gene ID:1153)

Gene Summary

Gene Summary

Gene Information	Gene Name: CIRBP
	Gene ID: 1153
	Gene Symbol	CIRBP
	Gene ID	1153
	Gene Name	cold inducible RNA binding protein
	Synonyms	CIRP
	Cytomap	19p13.3
	Type of Gene	protein-coding
	Description	cold-inducible RNA-binding proteinA18 hnRNPglycine-rich RNA binding proteintesticular tissue protein Li 39
	Modification date	20200327
	UniProtAcc	Q14011

Child GO biological process term(s) under GO:0006412

GO ID	GO term
GO:0017148	Negative regulation of translation
GO:0006417	Regulation of translation
GO:0045727	Positive regulation of translation
GO:0006412	Translation

Gene ontology of translaction factor with evidence of Inferred from Direct Assay (IDA) from Entrez

Partner	Gene	GO ID	GO term	PubMed ID
Hgene	CIRBP	GO:0009411	response to UV	11574538
Hgene	CIRBP	GO:0045727	positive regulation of translation	11574538
Hgene	CIRBP	GO:0048255	mRNA stabilization	11574538

Inferred gene age of translation factor.

Gene	Inferred gene age group among (0 - 67.6], (67.6 - 355.7], (355.7 - 733], (733 - 1119.25], >1119.25
CIRBP	(0 - 67.6]

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Translation Studies in PubMed

We searched PubMed using 'CIRBP[title] AND translation [title] AND human.'

Gene	Title	PMID
CIRBP	.	.

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Exon Skipping Events

Skipped exons in TCGA and GTEx based on Ensembl gene isoform structure.
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.
For more annotations, please visit our ExonSkipDB.

Open reading frame (ORF) analsis of exon skipping events 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.

ENST	Exon skip start (DNA)	Exon Skip end (DNA)	ORF
ENST00000586472	1270878	1270881	5UTR-5UTR
ENST00000320936	1270926	1271035	5CDS-5UTR
ENST00000320936	1271138	1271245	Frame-shift
ENST00000585630	1271138	1271245	Frame-shift
ENST00000586472	1271138	1271245	Frame-shift
ENST00000588030	1271138	1271245	Frame-shift
ENST00000588090	1271138	1271245	Frame-shift
ENST00000320936	1271327	1271466	Frame-shift
ENST00000585630	1271327	1271466	Frame-shift
ENST00000586472	1271327	1271466	Frame-shift
ENST00000588030	1271327	1271466	Frame-shift
ENST00000588090	1271327	1271466	Frame-shift
ENST00000320936	1271549	1271631	Frame-shift
ENST00000585630	1271549	1271631	Frame-shift
ENST00000586472	1271549	1271631	Frame-shift
ENST00000588030	1271549	1271631	Frame-shift
ENST00000588090	1271549	1271631	Frame-shift

Exon skipping position in the amino acid sequence.

ENST

Exon skip start (DNA)

Exon Skip end (DNA)

Len(transcript seq)

Exon skip start (mRNA)

Exon Skip end (mRNA)

Len(amino acid seq)

Exon skip start (AA)

Exon Skip end (AA)

Potentially (partially) lost protein functional features of UniProt.

UniProtAcc

Exon skip start (AA)

Exon Skip end (AA)

Function feature start (AA)

Function feature end (AA)

Functional feature type

Functional feature desc.

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Expression

Gene expression level across TCGA pancancer

Gene expression level across GTEx pantissue

Expression level of gene isoforms across TCGA pancancer

Expression level of gene isoforms across GTEx pantissue

Cancer(tissue) type-specific expression level of Translation factor using z-score distriution

Differential expression between tumor and matched normal (in the cancer types with more than 10 matched samples)

Cancer type	Translation factor	FC	adj.pval
ESCA	CIRBP	1.73045008166292	0.001953125
UCEC	CIRBP	-3.75329590281869	0.015625
HNSC	CIRBP	2.17717956644096	1.15819602797274e-08
STAD	CIRBP	1.13528511805511	4.5965425670147e-06

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Expression Regulation

Translation factor expression regulation through miRNA binding

Cancer type

Gene

miRNA

TargetScan binding score (Context++ score percentile)

Coefficient

Pvalue

Translation factor expression regulation through methylation in the promoter of Translation factor

Cancer type	Gene	methyl group b	methyl group a	DEG pval	avg methyl in b	avg methyl in a	avg exp in b	avg exp in a
PRAD	CIRBP	2	1	0.0241696794267355	0.254677823829477	0.185391800356506	-0.206959760660595	-0.109029075761373

Translation factor expression regulation through methylation in the gene body of Translation factor (positive regulation)

Cancer type

Gene

methyl group b

methyl group a

DEG pval

avg methyl in b

avg methyl in a

avg exp in b

avg exp in a

Translation factor expression regulation through copy number variation of Translation factor

Cancer type	Gene	Coefficient	Pvalue
BRCA	CIRBP	-0.092325091	0.000573614
ESCA	CIRBP	0.022738975	0.046083447

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Associated Genes

Strongly correlated genes belong to cellular important gene groups with CIRBP (coefficient>0.8, pval<0.05, node color based on FC between tumor and matched normal). Significantly associated important genes in the individual cancer types. * Cell metabolism gene: cell metabolism genes from REACTOME (black edge), IUPHAR: drug target genes from IUPHAR (blue edge), Kinase: human kinase genes (brown edge), CGC: cancer gene census genes (orange edge), TSG: tumor suppresor genes (purple edge), Epifactor: epigenetic factors (light blue edge), TF: transcription factors (green)

Cancer type	Gene group	Translation factor	Correlated gene	Coefficient	Pvalue
CHOL	TF	CIRBP	AKAP8L	0.819088849	6.12E-12
PAAD	CGC	CIRBP	CRTC1	0.816672831	4.42E-45

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Protein structure

Protein 3D structure
Visit iCn3D.

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Protein-Protein Interaction

Protein-protein interaction networks
* Overlap between up-regulated DEGs (log2FC<-1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))

Overlap between down-regulated DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network (center: Translation factor, node: DEGs, edges: weighted by -log2(adj.P))

* Edge colors based on TCGA cancer types.

* Overlap between DEGs (log2FC>1 and adj.P<0.05) and STRING PPI network per cancer (center: Translation factor, node: DEGs, node color: log2FC, edges: weighted by -log2(adj.P))

Cancer type	Translation factor	Interacting protein coding gene	FC	adj.pval
KICH	CIRBP	KHDRBS1	1.17772583331594	0.000329077243804932
THCA	CIRBP	SF3A2	-1.93870887642027	0.000619324585728192
ESCA	CIRBP	TREM1	-4.33904642768857	0.0009765625
BLCA	CIRBP	KHDRBS2	3.42430670691912	0.00123013955537317
ESCA	CIRBP	KHDRBS1	-2.75522662903328	0.001953125
ESCA	CIRBP	SNRPA	-3.71939307836743	0.001953125
STAD	CIRBP	TREM1	-4.53649697763694	0.00361521635204554
CHOL	CIRBP	KHDRBS1	-7.55107648665827	0.00390625
KICH	CIRBP	EIF4G1	-1.46656081150743	0.00612920522689819
HNSC	CIRBP	TLR4	1.08212729615449	0.00633394569399571
THCA	CIRBP	HNRNPK	-8.73422542563389	0.00797530353045887
BLCA	CIRBP	KHDRBS1	1.32581860517507	0.0159721374511719
PRAD	CIRBP	SNRPA	-2.99222999291193	0.0219987445973693
UCEC	CIRBP	HNRNPK	1.64532744504864	0.03125
UCEC	CIRBP	SNRPA	1.4162366960911	0.046875
STAD	CIRBP	KHDRBS1	-1.78849439102141	1.10594555735588e-06
KICH	CIRBP	SF3A2	-1.42006978796939	1.23381614685059e-05
LIHC	CIRBP	SF3A2	-1.60389783851862	1.52957264107439e-06
KIRC	CIRBP	TREM1	-2.98926135232614	1.67069036077484e-10
BRCA	CIRBP	TLR4	-2.36756332054809	1.98933887545542e-21
BRCA	CIRBP	TREM1	-2.57843077227413	2.72905504735239e-10
KIRP	CIRBP	SF3A2	-1.22971580768579	3.17529775202275e-05
LUAD	CIRBP	TLR4	-1.79787693841954	3.64231156321954e-09
LUAD	CIRBP	KHDRBS2	-1.77012295492985	3.79251210274868e-11
LIHC	CIRBP	SNRPA	-1.48880962162522	4.13231748257069e-06
LUAD	CIRBP	SNRPA	-1.36395233835103	4.39225939988757e-09
KIRP	CIRBP	SNRPA	-1.04126636141457	6.79492950439454e-06
LUSC	CIRBP	TREM1	-1.38766938769506	7.13549502039471e-10
THCA	CIRBP	KHDRBS2	-1.21153859817019	7.50861561019654e-11

Protein-protein interactors with this translation factor (BIOGRID-3.4.160)

PPI interactors with CIRBP

RBMX, LXN, PRMT1, ELAVL1, SF3A2, CUL3, CUL5, CUL2, CUL1, COPS5, CAND1, NEDD8, PRNP, ATXN1, APP, SF1, RTN4, CNOT3, PRKAR2A, LSM14A, TPR, KHSRP, GTF2F1, NUP88, CAPRIN1, TMPO, HNRNPH2, POLR1C, LOC100132057, BARD1, PAXIP1, SMURF1, FN1, HNRNPA0, HNRNPK, KHDRBS1, CSNK2A1, IL7R, SRF, BAG5, PARK2, RBMY1A1, SNRPA, LNX1, RBMY1F, KHDRBS2, MOV10, NXF1, RNF2, BMI1, ESR1, CCNB2, ZFAND6, NAA20, NARS, AHSA1, HNRNPA1, ORC1, PLK1, NOP56, PAPOLA, Cbx4, Junb, Rad54l, Rpl35, Trappc8, Nrip3, Bag2, NANOG, RC3H1, EGFR, CDC14B, DUSP23, PRMT5, COPRS, RIOK1, YARS2, NGRN, PAIP2B, PRMT6, MRPL1, WDR77, MALSU1, FOXA1, FBXO7, PTCH1, CUL4B, EFTUD2, ESR2, HEXIM1, MEPCE, LARP7, DPF2, RECQL4, TP53BP1, KIAA1429, PHB, APEX1, SNRNP70, NFX1, CMTR1, SRSF3, ARIH2, OBSL1, ZC3H18, BRIX1, CHMP4C, ARHGAP22, ARHGAP19, ARHGAP35, DOCK3, DOCK9, MCF2L2, NGEF, PLEKHG3, PLEKHG7, INS, MAFB, PTEN, Apc2, FBP1, KDM4D, WDR48, BRD1, TDRD7, WDR20, USP1, USP46, DDX58, UFL1, DDRGK1, FZR1, WDR5, MAP4K2, TNPO3, MCAT, ANGEL2, FASTKD2, MTERF3, PRMT8, CLNS1A, BCL2L12, SOX6,

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Mutations

Clinically associated variants from ClinVar.

Gene	Chr	Position	RefSeq	VarSeq	RefSeeq	VarType	Pathogenic	Disease	VarInfo
CIRBP	chr19	1271129	C	T	single_nucleotide_variant	Benign	not_provided	SO:0001627\|intron_variant	SO:0001627\|intron_variant
CIRBP	chr19	1272187	C	G	single_nucleotide_variant	Benign	not_provided	SO:0001619\|non-coding_transcript_variant,SO:0001819\|synonymous_variant,SO:0001627\|intron_variant	SO:0001619\|non-coding_transcript_variant,SO:0001819\|synonymous_variant,SO:0001627\|intron_variant

nsSNVs with sample frequency (size of circle) from TCGA 33 cancers.

SNVs and Indels

Gene	Cancer type	Chromosome	Start	End	RefSeeq	MutSeq	Mutation type	AAchange	# samples
CIRBP	BRCA	chr19	1272368	1272368	G	A	Missense_Mutation	p.V240M	4
CIRBP	BRCA	chr19	1272041	1272041	G	A	Missense_Mutation	p.D165N	3
CIRBP	BRCA	chr19	1272339	1272339	G	A	Missense_Mutation	p.R230H	3
CIRBP	BRCA	chr19	1272581	1272581	A	C	RNA	NULL	3
CIRBP	UCEC	chr19	1271416	1271416	G	A	Missense_Mutation	p.G100D	3
CIRBP	CESC	chr19	1272191	1272191	C	G	Missense_Mutation	p.Q162E	2
CIRBP	UCEC	chr19	1270880	1270880	T	C	RNA	NULL	2
CIRBP	UCEC	chr19	1271392	1271392	G	A	Missense_Mutation	p.G92E	2
CIRBP	BRCA	chr19	1271007	1271007	C	G	Missense_Mutation	p.S8C	2
CIRBP	PRAD	chr19	1271165	1271165	C	T	Nonsense_Mutation	p.Q44*	2
CIRBP	UCEC	chr19	1272297	1272297	G	A	Missense_Mutation	p.R216K	2
CIRBP	LIHC	chr19	1271158	1271158	G	C	Missense_Mutation		2
CIRBP	BRCA	chr19	1272306	1272306	C	G	Missense_Mutation	p.S219C	2
CIRBP	LUAD	chr19	1270962	1270962	T	G	Silent	p.V10V	2
CIRBP	UCEC	chr19	1272432	1272434	ACA	-	In_Frame_Del	p.N171in_frame_del	2
CIRBP	BRCA	chr19	1272448	1272448	C	G	RNA	NULL	2
CIRBP	SKCM	chr19	1270987	1270987	G	A	Missense_Mutation	p.E19K	2
CIRBP	UCEC	chr19	1272472	1272472	A	G	RNA	NULL	2
CIRBP	LIHC	chr19	1271158	1271158	G	C	Missense_Mutation	p.R41S	2
CIRBP	CESC	chr19	1271030	1271030	C	T	Missense_Mutation		2
CIRBP	BLCA	chr19	1272166	1272166	C	T	Silent		1
CIRBP	KIRP	chr19	1272031	1272031	A	C	Missense_Mutation	p.R161S	1
CIRBP	UCEC	chr19	1272432	1272434	ACA	-	In_Frame_Del	p.N171del	1
CIRBP	BLCA	chr19	1271439	1271439	C	T	Nonsense_Mutation	p.R55*	1
CIRBP	LIHC	chr19	1272316	1272317	-	G	Frame_Shift_Ins	p.WG203fs	1
CIRBP	MESO	chr19	1271574	1271574	G	A	Missense_Mutation	p.G72E	1
CIRBP	UCEC	chr19	1271570	1271570	G	-	Frame_Shift_Del	p.G124fs	1
CIRBP	BLCA	chr19	1271019	1271019	C	T	Missense_Mutation		1
CIRBP	KIRP	chr19	1272265	1272266	-	G	Frame_Shift_Ins	p.A187fs	1
CIRBP	BLCA	chr19	1270999	1270999	G	A	Missense_Mutation	p.E23K	1
CIRBP	LIHC	chr19	1270955	1270955	T	-	Frame_Shift_Del	p.L8fs	1
CIRBP	CESC	chr19	1271012	1271012	C	T	Missense_Mutation		1
CIRBP	PAAD	chr19	1271535	1271535	T	G	Missense_Mutation		1
CIRBP	BLCA	chr19	1272363	1272363	C	A	Missense_Mutation		1
CIRBP	LIHC	chr19	1272372	1272372	A	G	Missense_Mutation		1
CIRBP	BLCA	chr19	1271019	1271019	C	T	Silent	p.Y29Y	1
CIRBP	LIHC	chr19	1272397	1272397	T	-	Frame_Shift_Del	p.P230fs	1
CIRBP	CESC	chr19	1271012	1271012	C	T	Nonsense_Mutation	p.Q10*	1
CIRBP	PRAD	chr19	1271165	1271165	C	T	Nonsense_Mutation	p.Q44X	1
CIRBP	BLCA	chr19	1272370	1272370	G	T	Silent		1
CIRBP	LIHC	chr19	1272316	1272317	-	-	Frame_Shift_Ins		1
CIRBP	LIHC	chr19	1271998	1271998	C	-	Frame_Shift_Del	p.G97fs	1
CIRBP	CESC	chr19	1271030	1271030	C	T	Missense_Mutation	p.S33F	1
CIRBP	BLCA	chr19	1272373	1272373	G	T	Missense_Mutation		1
CIRBP	ESCA	chr19	1270889	1270889	A	T	Missense_Mutation		1
CIRBP	SARC	chr19	1271446	1271446	G	T	Missense_Mutation		1
CIRBP	STAD	chr19	1272159	1272159	G	A	Missense_Mutation	p.C151Y	1
CIRBP	BLCA	chr19	1272166	1272166	C	T	Silent	p.C153C	1
CIRBP	LIHC	chr19	1271184	1271184	G	T	Missense_Mutation		1
CIRBP	LUAD	chr19	1272346	1272346	G	A	Silent	p.P213P	1
CIRBP	HNSC	chr19	1271983	1271983	G	A	Silent		1
CIRBP	STAD	chr19	1271433	1271433	G	-	Frame_Shift_Del	p.G106fs	1
CIRBP	BLCA	chr19	1270999	1270999	G	A	Nonsense_Mutation	p.W5*	1
CIRBP	LIHC	chr19	1270937	1270937	C	T	Missense_Mutation		1
CIRBP	LUAD	chr19	1272009	1272009	G	A	Missense_Mutation	p.R101Q	1
CIRBP	HNSC	chr19	1271529	1271529	C	T	Missense_Mutation		1
CIRBP	SKCM	chr19	1272063	1272063	C	T	Missense_Mutation	p.S119F	1
CIRBP	THYM	chr19	1271392	1271392	G	T	Missense_Mutation	p.G92V	1
CIRBP	BLCA	chr19	1271019	1271019	C	T	Missense_Mutation	p.T12M	1
CIRBP	LIHC	chr19	1271998	1271998	C	-	Frame_Shift_Del		1
CIRBP	LUAD	chr19	1272339	1272339	G	T	Missense_Mutation	p.R211L	1
CIRBP	HNSC	chr19	1271989	1271989	G	C	Missense_Mutation		1
CIRBP	STAD	chr19	1271433	1271433	G	-	Frame_Shift_Del	p.R105fs	1
CIRBP	THYM	chr19	1270978	1270978	G	A	Missense_Mutation		1
CIRBP	BLCA	chr19	1272363	1272363	C	A	Missense_Mutation	p.S219Y	1
CIRBP	LIHC	chr19	1271998	1271998	C	-	Frame_Shift_Del	p.G150fs	1
CIRBP	LUSC	chr19	1271175	1271175	G	T	Missense_Mutation	p.R47L	1
CIRBP	HNSC	chr19	1271983	1271983	G	A	Silent	p.R92R	1
CIRBP	THYM	chr19	1270978	1270978	G	A	Missense_Mutation	p.D16N	1
CIRBP	LIHC	chr19	1271585	1271585	G	A	Missense_Mutation	p.E129K	1
CIRBP	BLCA	chr19	1272370	1272370	G	T	Silent	p.V221V	1
CIRBP	LUSC	chr19	1271623	1271623	C	A	Nonsense_Mutation	p.Y141*	1
CIRBP	HNSC	chr19	1271989	1271989	G	C	Missense_Mutation	p.Q94H	1
CIRBP	BLCA	chr19	1272373	1272373	G	T	Missense_Mutation	p.K222N	1
CIRBP	MESO	chr19	1271574	1271574	G	A	Missense_Mutation		1

Copy number variation (CNV) of CIRBP
* Click on the image to open the original image in a new window.

Fusion gene breakpoints (product of the structural variants (SVs)) across CIRBP
* Click on the image to open the UCSC genome browser with custom track showing this image in a new window.

Fusion genes with this translation factor from FusionGDB2.0.

FusionGDB2 ID	Disease	Sample	Hgene	Hchr	Hbp	Hstrand	Tgene	Tchr	Tbp	Tstrand
90505	BLCA	TCGA-FD-A3B6-01A	ABCA7	chr19	1049436	+	CIRBP	chr19	1264252	+
89761	PAAD	TCGA-FB-AAQ2-01A	CIRBP	chr19	1272050	+	APC2	chr19	1465154	+
90505	N/A	AW592560	CIRBP	chr19	1271377	+	CIRBP	chr19	1270937	+
90505	N/A	CN478954	CIRBP	chr19	1273098	-	CIRBP	chr19	1272962	+
92023	BLCA	TCGA-4Z-AA87-01A	CIRBP	chr19	1269409	-	CNN2	chr19	1031070	+
72743	STAD	TCGA-D7-A6EZ-01A	CIRBP	chr19	1269409	+	ERAS	chrX	48687491	+
68205	N/A	BI493512	CIRBP	chr19	1273171	+	KIDINS220	chr2	8927881	-
102996	STAD	TCGA-D7-8574-01A	CIRBP	chr19	1269409	+	MISP	chr19	756890	+
102709	N/A	BP228603	CIRBP	chr19	1271418	+	OBSCN	chr1	228493832	+
85745	N/A	DA500684	CIRBP	chr19	1271411	+	PKNOX1	chr21	44450156	+
75728	Non-Cancer	ERR315406	CIRBP	chr19	1269409	+	RNF166	chr16	88767826	-
79376	LUAD	TCGA-91-6831-01A	CIRBP	chr19	1269409	+	WDR18	chr19	994019	+
78099	STAD	TCGA-BR-A4QL	CIRBP	chr19	1272050	+	WNK2	chr9	96079801	+
92845	STAD	TCGA-D7-A4Z0-01A	CIRBP	chr19	1272050	+	ZC3HAV1	chr7	138774505	-
90505	GBM	TCGA-19-A6J5-01A	COL6A1	chr21	47401861	+	CIRBP	chr19	1270927	+
90505	N/A	AA570603	ESRRB	chr14	76778316	-	CIRBP	chr19	1273171	-
90505	STAD	TCGA-BR-8364-01A	KLHL24	chr3	183353581	+	CIRBP	chr19	1270927	+
90505	N/A	BG698664	PNLIPRP3	chr10	118202646	+	CIRBP	chr19	1271412	+
90510	THCA	TCGA-EM-A22K	TGIF2	chr20	35201927	+	CIRBP	chr19	1270926	+

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Prognostic Analysis

Kaplan-Meier plots with logrank tests of overall survival (OS)

Cancer type

Translation factor

Coefficent

Hazard ratio

Wald test pval

Likelihool ratio pval

Logrank test pval

# samples

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Translation factor and Gender

Differential gene expression between female and male. (Wilcoxon test, pval<0.05)

Cancer type	Translation factor	pval	adj.p
KIRP	CIRBP	0.000348950152397787	0.0098
LUAD	CIRBP	0.0167842595627881	0.45
LIHC	CIRBP	0.0182566113569019	0.47
TGCT	CIRBP	0.0343711046163315	0.86
LAML	CIRBP	0.045303963041518	1
THCA	CIRBP	0.0492148314085869	1

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Translation factor and Age

Differential gene expression between young and old age groups (Wilcoxon test, pval<0.05)

Cancer type	Translation factor	pval	adj.p
LGG	CIRBP	0.0313117410264964	0.94
BRCA	CIRBP	0.00279436673842149	0.092
ESCA	CIRBP	0.00947190834668049	0.29
SARC	CIRBP	0.00858797139069876	0.27

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Related Drugs

Drugs targeting genes involved in this translation factor.
(DrugBank Version 5.1.8 2021-05-08)

UniProtAcc

DrugBank ID

Drug name

Drug activity

Drug type

Drug status

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Related Diseases

Diseases associated with this translation factor.
(DisGeNet 4.0)

Disease ID	Disease Name	# PubMeds	Disease source
C0151744	Myocardial Ischemia	1	CTD_human
C0600467	Neurogenic Inflammation	1	CTD_human
C0751865	Alcohol-Induced Disorders, Nervous System	1	CTD_human
C1510586	Autism Spectrum Disorders	1	CTD_human