Gene Report

Basic information

Related studies

Functional annotation

Related other genetic factors

Overlap with SZ and MDD

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Basic Info

Approved Symbol	NCBP2
Symbol Alias	NIP1, CBP20, Cbc2
Approved Name	nuclear cap binding protein subunit 2, 20kDa
Previous Name	nuclear cap binding protein subunit 2, 20kD
Location	3q29
Position	chr3:196935402-196942597, -1
External Links	HGNC: 7659 Entrez Gene: 22916 Ensembl: ENSG00000114503 UCSC: uc003fxd.1
No. of Studies	1 (Positive: 0; Negative: 1; trend: 0)
Overlap with SZ?	NO
Overlap with MDD?	NO

Gene related studies (count: 1)

Reference	Tested Markers	Statistical Values/Author Comments	Result Category	Comment on Study
Schosser, A.,2011	SNP: rs6734	No significant association was observed.	Negative	Comment on Study

Gene functional annotation

Gene related GO terms (count: 32)

GO terms by PBA (count: 4)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0008380	RNA splicing	biological process	ISS; TAS	8
GO:0005634	nucleus	cellular component	IDA[9342333]; NAS[7651522]	283
GO:0006446	regulation of translational initiation	biological process	IDA[11551508]	2
GO:0000398	mRNA splicing, via spliceosome	biological process	TAS	6

GO terms by database search (count: 28)

ID	Name	Type	Evidence[PMID]	No. of Genes in BDgene
GO:0046833	positive regulation of RNA export from nucleus	biological process	ISS	1
GO:0005829	cytosol	cellular component	TAS	223
GO:0005515	protein binding	molecular function	IPI[12374755]	563
GO:0006370	7-methylguanosine mRNA capping	biological process	IDA[12434151]; TAS	1
GO:0005737	cytoplasm	cellular component	IDA[8601613]	322
GO:0050434	positive regulation of viral transcription	biological process	TAS	1
GO:0005846	nuclear cap binding complex	cellular component	IBA	1
GO:0034660	ncRNA metabolic process	biological process	TAS	2
GO:0000387	spliceosomal snRNP assembly	biological process	TAS	2
GO:0031124	mRNA 3'-end processing	biological process	TAS	2
GO:0008334	histone mRNA metabolic process	biological process	TAS	2
GO:0006406	mRNA export from nucleus	biological process	TAS	4
GO:0006366	transcription from RNA polymerase II promoter	biological process	TAS	31
GO:0031047	gene silencing by RNA	biological process	IEA	3
GO:0006368	transcription elongation from RNA polymerase II promoter	biological process	TAS	2
GO:0006369	termination of RNA polymerase II transcription	biological process	TAS	2
GO:0003723	RNA binding	molecular function	IDA[7478990]	14
GO:0006408	snRNA export from nucleus	biological process	ISS; NAS[7651522]	1
GO:0005654	nucleoplasm	cellular component	IDA; TAS	163
GO:0000340	RNA 7-methylguanosine cap binding	molecular function	IDA[12434151]	1
GO:0010467	gene expression	biological process	TAS	41
GO:0000184	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	biological process	IDA[11551508]; IMP[17873884]; TAS	3
GO:0005845	mRNA cap binding complex	cellular component	IDA[12434151]	1
GO:0016032	viral process	biological process	TAS	26
GO:0044822	poly(A) RNA binding	molecular function	IDA[22658674]	44
GO:0045292	mRNA cis splicing, via spliceosome	biological process	IDA[18426921]	1
GO:0000339	RNA cap binding	molecular function	NAS[7651522]	1
GO:0000166	nucleotide binding	molecular function	IEA	17

Gene related KEGG pathways (count: 0)

Gene related BioCarta pathways (count: 0)

Gene related interactors from protein-protein interactions data in HPRD (count: 5)

Gene	Interactor	Interactor in BDgene?	Experiment Type	PMID
NCBP2	NCBP1	NO	in vitro;in vivo;yeast 2-hybrid	12434151 , 11545740 , 7478990 , 9933612
NCBP2	EIF5	NO	in vitro	11331597
NCBP2	HNRNPH1	NO	in vitro	9111328
NCBP2	HNRNPF	NO	in vitro	9111328
NCBP2	EIF4G1	NO	in vivo	15361857

Related other genetic factors

Gene related SNPs (count: 4)

Literature-origin SNPs (count: 1)

rs_ID	Location	Functional Annotation	No. of Studies (Positive/Negative/Trend)
rs6734	chr3:196935650 - 196935650(1)	3_prime_UTR_variant; downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant	1(0/1/0)

LD-proxies (count: 3)

rs_ID	Location	Functional Annotation
rs335824	chr3:196943041 - 196943041(1)	3_prime_UTR_variant; downstream_gene_variant; upstream_gene_variant
rs335825	chr3:196945969 - 196945969(1)	downstream_gene_variant; upstream_gene_variant
rs516461	chr3:196938019 - 196938019(1)	downstream_gene_variant; intron_variant; NMD_transcript_variant; non_coding_transcript_exon_variant; non_coding_transcript_variant; upstream_gene_variant

Gene related CNVs (count: 1)

ID	Location	Size	Band	Type	Inheritance
CNV_Malhotra[2011]_2	chr3:197417247-198249463 (NCBI Build 36 (hg18))	832217	3q29	deletion	De Novo

Gene related other variants (count: 0)

Gene related regions (count: 2)

Region Name	Position	No. of Studies (Positive/Negative/Trend)
Chr 3	chr3:0-198295559	2 (0/2/0)
3q29	chr3:192600000-198295559	2 (1/0/1)

Overlap with schizophrenia (SZ) and major depressive disorder (MDD)

Gene relationship with SZ

Gene relationship with MDD

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Region: chr3:196935402..196942597 View in gBrowse