Ncbp1 (nuclear cap binding protein subunit 1) - Rat Genome Database

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Gene: Ncbp1 (nuclear cap binding protein subunit 1) Rattus norvegicus
Analyze
Symbol: Ncbp1
Name: nuclear cap binding protein subunit 1
RGD ID: 1308973
Description: Predicted to enable RNA 7-methylguanosine cap binding activity; mRNA binding activity; and molecular adaptor activity. Predicted to be involved in several processes, including RNA export from nucleus; mRNA metabolic process; and positive regulation of mRNA processing. Part of nuclear cap binding activity complex. Orthologous to human NCBP1 (nuclear cap binding protein subunit 1); PARTICIPATES IN 5'-end pre-mRNA capping pathway; RNA polymerase II transcription elongation pathway; mRNA decay pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: 80 kDa nuclear cap-binding protein; CBP80; LOC298075; MGC105807; NCBP 80 kDa subunit; nuclear cap binding protein subunit 1, 80kDa; nuclear cap-binding protein subunit 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8565,211,632 - 65,244,532 (+)NCBIGRCr8
mRatBN7.2560,416,023 - 60,449,004 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl560,415,982 - 60,449,089 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx562,388,411 - 62,420,896 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0564,207,914 - 64,240,399 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0564,177,167 - 64,209,652 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0561,734,118 - 61,767,098 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl561,734,118 - 61,766,481 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0566,250,579 - 66,283,560 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4562,691,068 - 62,723,436 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1562,691,246 - 62,723,612 (+)NCBI
Celera558,976,747 - 59,009,113 (+)NCBICelera
Cytogenetic Map5q22NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ncbp1Ratcongenital disorder of glycosylation Ii  ISONCBP1 (Homo sapiens)8554872ClinVar Annotator: match by term: Congenital disorder of glycosylation type 1IClinVarPMID:20813212 and PMID:28492532
Ncbp1Ratcongenital disorder of glycosylation type II  ISONCBP1 (Homo sapiens)8554872ClinVar Annotator: match by term: CDG IiClinVarPMID:20813212 and PMID:28492532
Ncbp1Ratcongenital myasthenic syndrome 14  ISONCBP1 (Homo sapiens)8554872ClinVar Annotator: match by term: Myasthenic syndrome more ...ClinVarPMID:20813212 and PMID:28492532
Ncbp1Ratgeneralized epilepsy  ISONCBP1 (Homo sapiens)8554872ClinVar Annotator: match by term: Epileptic encephalopathyClinVarPMID:28492532
Ncbp1Ratintellectual disability  ISONCBP1 (Homo sapiens)8554872ClinVar Annotator: match by term: Intellectual disabilityClinVar 
Ncbp1Ratintracranial aneurysm  ISONCBP1 (Homo sapiens)8554872ClinVar Annotator: match by term: Mycotic Aneurysm and IntracranialClinVarPMID:25741868
Ncbp1Ratnephronophthisis  ISONCBP1 (Homo sapiens)8554872ClinVar Annotator: match by term: NephronophthisisClinVarPMID:12872123 and PMID:28492532
Ncbp1Ratthoracic aortic aneurysm  ISONCBP1 (Homo sapiens)8554872ClinVar Annotator: match by term: Thoracic aortic aneurysms and dissectionsClinVarPMID:20813212 and PMID:28492532

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Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ncbp1Rat(-)-demecolcine decreases expressionISONCBP1 (Homo sapiens)6480464Demecolcine results in decreased expression of NCBP1 mRNACTDPMID:23649840
Ncbp1Rat1,2-dimethylhydrazine increases expressionISONcbp1 (Mus musculus)64804641 and 2-Dimethylhydrazine results in increased expression of NCBP1 mRNACTDPMID:22206623
Ncbp1Rat2,2',4,4'-Tetrabromodiphenyl ether affects expressionISONcbp1 (Mus musculus)64804642 more ...CTDPMID:30294300
Ncbp1Rat2,2',4,4'-Tetrabromodiphenyl ether decreases expressionISONCBP1 (Homo sapiens)64804642 more ...CTDPMID:31675489
Ncbp1Rat2,3,7,8-tetrachlorodibenzodioxine increases phosphorylationEXP 6480464Tetrachlorodibenzodioxin results in increased phosphorylation of NCBP1 proteinCTDPMID:23298284
Ncbp1Rat2,3,7,8-tetrachlorodibenzodioxine decreases expressionEXP 6480464Tetrachlorodibenzodioxin results in decreased expression of NCBP1 mRNACTDPMID:33387578
Ncbp1Rat2,6-dinitrotoluene affects expressionEXP 64804642 and 6-dinitrotoluene affects the expression of NCBP1 mRNACTDPMID:21346803
Ncbp1Rat2-hydroxypropanoic acid decreases expressionISONCBP1 (Homo sapiens)6480464Lactic Acid results in decreased expression of NCBP1 mRNACTDPMID:30851411
Ncbp1Rat2-methylcholine affects expressionISONCBP1 (Homo sapiens)6480464beta-methylcholine affects the expression of NCBP1 mRNACTDPMID:21179406
Ncbp1Rat6-propyl-2-thiouracil increases expressionEXP 6480464Propylthiouracil results in increased expression of NCBP1 mRNACTDPMID:30047161
Ncbp1Ratactinomycin D multiple interactionsISONCBP1 (Homo sapiens)6480464[Dactinomycin co-treated with nutlin 3] results in increased secretion of NCBP1 proteinCTDPMID:38460933
Ncbp1Rataflatoxin B1 decreases methylationISONCBP1 (Homo sapiens)6480464Aflatoxin B1 results in decreased methylation of NCBP1 geneCTDPMID:27153756
Ncbp1Ratall-trans-retinoic acid decreases expressionISONCBP1 (Homo sapiens)6480464Tretinoin results in decreased expression of NCBP1 mRNACTDPMID:23724009
Ncbp1Ratamitrole increases expressionEXP 6480464Amitrole results in increased expression of NCBP1 mRNACTDPMID:30047161
Ncbp1Rataristolochic acid A decreases expressionISONCBP1 (Homo sapiens)6480464aristolochic acid I results in decreased expression of NCBP1 mRNACTDPMID:33212167
Ncbp1Ratbenzatropine decreases expressionISONCBP1 (Homo sapiens)6480464Benztropine results in decreased expression of NCBP1 proteinCTDPMID:34122009
Ncbp1Ratbenzo[a]pyrene affects methylationISONCBP1 (Homo sapiens)6480464Benzo(a)pyrene affects the methylation of NCBP1 intronCTDPMID:30157460
Ncbp1Ratbenzo[e]pyrene increases methylationISONCBP1 (Homo sapiens)6480464benzo(e)pyrene results in increased methylation of NCBP1 intronCTDPMID:30157460
Ncbp1Ratbisphenol A increases expressionEXP 6480464bisphenol A results in increased expression of NCBP1 mRNACTDPMID:25181051
Ncbp1Ratbisphenol A multiple interactionsISONCBP1 (Homo sapiens)6480464[bisphenol A co-treated with Fulvestrant] results in increased methylation of NCBP1 geneCTDPMID:31601247

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Biological Process
1 to 20 of 31 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ncbp1Rat7-methylguanosine mRNA capping involved_inISSUniProtKB:Q091611600115GO_REF:0000024UniProtGO_REF:0000024
Ncbp1Rat7-methylguanosine mRNA capping involved_inISONCBP1 (Homo sapiens)1624291 PMID:12434151RGDPMID:12434151
Ncbp1Rat7-methylguanosine mRNA capping involved_inIEAUniProtKB-KW:KW-05061600115GO_REF:0000043UniProtGO_REF:0000043
Ncbp1Ratbiological_process  ND 159840712/2014: no relevant rat dataRGD 
Ncbp1Ratdefense response to virus involved_inISONCBP1 (Homo sapiens)1624291 PMID:26382858RGDPMID:26382858
Ncbp1Rathistone mRNA metabolic process involved_inISONCBP1 (Homo sapiens)1624291 PMID:17499042RGDPMID:17499042
Ncbp1Rathistone mRNA metabolic process involved_inISONcbp1 (Mus musculus)1624291 PMID:17499042RGDPMID:17499042
Ncbp1RatmRNA export from nucleus involved_inISSUniProtKB:Q091611600115GO_REF:0000024UniProtGO_REF:0000024
Ncbp1RatmRNA export from nucleus involved_inIBAPANTHER:PTN000275638 and UniProtKB:Q091611600115GO_REF:0000033GO_CentralGO_REF:0000033
Ncbp1RatmRNA export from nucleus involved_inISONCBP1 (Homo sapiens)1624291 PMID:17190602 more ...RGDPMID:17190602 more ...
Ncbp1RatmRNA export from nucleus involved_inIEAInterPro:IPR0271591600115GO_REF:0000002InterProGO_REF:0000002
Ncbp1RatmRNA metabolic process involved_inISSUniProtKB:Q091611600115GO_REF:0000024UniProtGO_REF:0000024
Ncbp1RatmRNA metabolic process involved_inISONCBP1 (Homo sapiens)1624291 PMID:9342333RGDPMID:9342333
Ncbp1RatmRNA transcription by RNA polymerase II involved_inISONCBP1 (Homo sapiens)1624291 PMID:21326824RGDPMID:21326824
Ncbp1Ratnuclear-transcribed mRNA catabolic process, nonsense-mediated decay involved_inISONCBP1 (Homo sapiens)1624291 PMID:11551508 more ...RGDPMID:11551508 more ...
Ncbp1Ratnuclear-transcribed mRNA catabolic process, nonsense-mediated decay involved_inIBAPANTHER:PTN000275634 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Ncbp1Ratnuclear-transcribed mRNA catabolic process, nonsense-mediated decay involved_inISSUniProtKB:Q091611600115GO_REF:0000024UniProtGO_REF:0000024
Ncbp1Ratpositive regulation of cell growth involved_inISSUniProtKB:Q091611600115GO_REF:0000024UniProtGO_REF:0000024
Ncbp1Ratpositive regulation of cell growth involved_inISONCBP1 (Homo sapiens)1624291 PMID:26382858RGDPMID:26382858
Ncbp1Ratpositive regulation of mRNA 3'-end processing involved_inISSUniProtKB:Q091611600115GO_REF:0000024UniProtGO_REF:0000024
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Cellular Component
1 to 19 of 19 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ncbp1Ratcytoplasm located_inISONCBP1 (Homo sapiens)1624291 PMID:26382858RGDPMID:26382858
Ncbp1Ratcytosol located_inISONCBP1 (Homo sapiens)1624291 RGDGO_REF:0000052
Ncbp1Ratcytosol located_inIEAUniProtKB:Q09161 and ensembl:ENSP000003642891600115GO_REF:0000107EnsemblGO_REF:0000107
Ncbp1Ratmitochondrion located_inIEAUniProtKB:Q09161 and ensembl:ENSP000003642891600115GO_REF:0000107EnsemblGO_REF:0000107
Ncbp1Ratmitochondrion located_inISONCBP1 (Homo sapiens)1624291 RGDGO_REF:0000052
Ncbp1Ratnuclear cap binding complex  IDA 9684949 RGD 
Ncbp1Ratnuclear cap binding complex part_ofISSUniProtKB:Q091611600115GO_REF:0000024UniProtGO_REF:0000024
Ncbp1Ratnuclear cap binding complex part_ofIBAPANTHER:PTN000275634 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Ncbp1Ratnuclear cap binding complex part_ofIEAInterPro:IPR0271591600115GO_REF:0000002InterProGO_REF:0000002
Ncbp1Ratnuclear cap binding complex part_ofISONCBP1 (Homo sapiens)1624291 PMID:12434151 more ...RGDPMID:12434151 more ...
Ncbp1Ratnucleoplasm located_inISONCBP1 (Homo sapiens)1624291 RGDGO_REF:0000052
Ncbp1Ratnucleoplasm located_inIEAUniProtKB:Q09161 and ensembl:ENSP000003642891600115GO_REF:0000107EnsemblGO_REF:0000107
Ncbp1Ratnucleus located_inIEAUniProtKB-SubCell:SL-01911600115GO_REF:0000044UniProtGO_REF:0000044
Ncbp1Ratnucleus is_active_inIBAPANTHER:PTN000275634 more ...1600115GO_REF:0000033GO_CentralGO_REF:0000033
Ncbp1Ratnucleus located_inISONCBP1 (Homo sapiens)1624291 PMID:19648179 more ...RGDPMID:19648179 more ...
Ncbp1Ratnucleus located_inISSUniProtKB:Q091611600115GO_REF:0000024UniProtGO_REF:0000024
Ncbp1Ratribonucleoprotein complex part_ofISSUniProtKB:Q091611600115GO_REF:0000024UniProtGO_REF:0000024
Ncbp1Ratribonucleoprotein complex part_ofISONCBP1 (Homo sapiens)1624291 PMID:17289661RGDPMID:17289661
Ncbp1RatRNA cap binding complex part_ofISONCBP1 (Homo sapiens)1624291 PMID:23793891RGDPMID:23793891
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Molecular Function

  

RGD Manual Annotations


  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ncbp1Rat5'-end pre-mRNA capping pathway  ISONCBP1 (Homo sapiens)9684851 RGD 
Ncbp1RatRNA polymerase II transcription elongation pathway  ISONCBP1 (Homo sapiens)9684851 RGD 

Imported Annotations - KEGG (archival)

Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Ncbp1RatmRNA decay pathway  IEA 6907045 KEGGrno:03015
Ncbp1RatRNA transport pathway  IEA 6907045 KEGGrno:03013
Ncbp1Ratspliceosome pathway   IEA 6907045 KEGGrno:03040

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#
Reference Title
Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Cap-binding complex (CBC). Gonatopoulos-Pournatzis T and Cowling VH, Biochem J. 2014 Jan 15;457(2):231-42. doi: 10.1042/BJ20131214.
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
8. Comprehensive gene review and curation RGD comprehensive gene curation
9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
10. The nuclear cap-binding complex is a novel target of growth factor receptor-coupled signal transduction. Wilson KF, etal., J Biol Chem. 1999 Feb 12;274(7):4166-73.
1 to 10 of 10 rows
PMID:7651522   PMID:9342333   PMID:11551508   PMID:12434151   PMID:15489334   PMID:16641100   PMID:17190602   PMID:17289661   PMID:17873884   PMID:18369367   PMID:19188494   PMID:19648179  
PMID:22681889   PMID:23793891   PMID:25578728   PMID:26382858  



Ncbp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8565,211,632 - 65,244,532 (+)NCBIGRCr8
mRatBN7.2560,416,023 - 60,449,004 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl560,415,982 - 60,449,089 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx562,388,411 - 62,420,896 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0564,207,914 - 64,240,399 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0564,177,167 - 64,209,652 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0561,734,118 - 61,767,098 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl561,734,118 - 61,766,481 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0566,250,579 - 66,283,560 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4562,691,068 - 62,723,436 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1562,691,246 - 62,723,612 (+)NCBI
Celera558,976,747 - 59,009,113 (+)NCBICelera
Cytogenetic Map5q22NCBI
NCBP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38997,633,821 - 97,673,748 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl997,633,668 - 97,673,748 (+)EnsemblGRCh38hg38GRCh38
GRCh379100,396,103 - 100,436,030 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36999,435,526 - 99,475,851 (+)NCBINCBI36Build 36hg18NCBI36
Build 34997,475,462 - 97,513,466NCBI
Celera970,909,962 - 70,950,264 (+)NCBICelera
Cytogenetic Map9q22.33NCBI
HuRef969,996,714 - 70,037,070 (+)NCBIHuRef
CHM1_19100,542,138 - 100,582,465 (+)NCBICHM1_1
T2T-CHM13v2.09109,805,762 - 109,845,689 (+)NCBIT2T-CHM13v2.0
Ncbp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39446,138,732 - 46,172,403 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl446,138,613 - 46,172,403 (+)EnsemblGRCm39 Ensembl
GRCm38446,138,511 - 46,172,403 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl446,138,613 - 46,172,403 (+)EnsemblGRCm38mm10GRCm38
MGSCv37446,151,383 - 46,185,275 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36446,159,622 - 46,193,157 (+)NCBIMGSCv36mm8
Celera446,160,651 - 46,194,542 (+)NCBICelera
Cytogenetic Map4B1NCBI
cM Map424.49NCBI
Ncbp1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541927,778,300 - 27,819,878 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541927,778,300 - 27,819,878 (-)NCBIChiLan1.0ChiLan1.0
NCBP1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21141,783,460 - 41,823,887 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1941,785,715 - 41,826,532 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0968,724,176 - 68,764,423 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1996,845,422 - 96,885,624 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl996,845,422 - 96,885,624 (+)Ensemblpanpan1.1panPan2
NCBP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11154,938,250 - 54,974,536 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1154,938,372 - 54,974,547 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1153,372,453 - 53,408,740 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01156,050,831 - 56,087,132 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1156,050,630 - 56,087,132 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11154,547,195 - 54,583,482 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01154,577,067 - 54,613,371 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01155,273,732 - 55,310,040 (+)NCBIUU_Cfam_GSD_1.0
Ncbp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947169,882,087 - 169,917,455 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365246,429,185 - 6,465,035 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365246,429,735 - 6,465,035 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
NCBP1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1239,492,721 - 239,535,825 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11239,492,573 - 239,543,925 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21267,580,587 - 267,659,128 (+)NCBISscrofa10.2Sscrofa10.2susScr3
NCBP1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11241,736,063 - 41,776,178 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1241,738,579 - 41,776,509 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603838,789,120 - 38,829,181 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ncbp1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248253,164,700 - 3,206,241 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248253,166,895 - 3,206,444 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Ncbp1
209 total Variants

Predicted Target Of
Summary Value
Count of predictions:382
Count of miRNA genes:222
Interacting mature miRNAs:271
Transcripts:ENSRNOT00000030825
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


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The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52795544072955440Rat
1298067Scl15Serum cholesterol level QTL 154.80.001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)53321566578215665Rat
1300115Hrtrt7Heart rate QTL 72.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)54786906290099692Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)540128307148607290Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51887394774251464Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
61386Bp49Blood pressure QTL 4916.6cerebrum integrity trait (VT:0010549)brain infarction volume (CMO:0001013)56029343498603051Rat
1331801Rf33Renal function QTL 334.149kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)543726656129132602Rat
1598807Glom12Glomerulus QTL 122.7kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)53321566578215665Rat

1 to 10 of 40 rows
RH130418  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2560,448,117 - 60,448,322 (+)MAPPERmRatBN7.2
Rnor_6.0561,766,212 - 61,766,416NCBIRnor6.0
Rnor_5.0566,282,674 - 66,282,878UniSTSRnor5.0
RGSC_v3.4562,723,164 - 62,723,368UniSTSRGSC3.4
Celera559,008,841 - 59,009,045UniSTS
RH 3.4 Map5381.7UniSTS
Cytogenetic Map5q22UniSTS
RH132739  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2560,448,546 - 60,448,738 (+)MAPPERmRatBN7.2
Rnor_6.0561,766,641 - 61,766,832NCBIRnor6.0
Rnor_5.0566,283,103 - 66,283,294UniSTSRnor5.0
RGSC_v3.4562,723,593 - 62,723,784UniSTSRGSC3.4
Celera559,009,270 - 59,009,461UniSTS
RH 3.4 Map5379.2UniSTS
Cytogenetic Map5q22UniSTS
BE108357  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2560,448,117 - 60,448,273 (+)MAPPERmRatBN7.2
Rnor_6.0561,766,212 - 61,766,367NCBIRnor6.0
Rnor_5.0566,282,674 - 66,282,829UniSTSRnor5.0
RGSC_v3.4562,723,164 - 62,723,319UniSTSRGSC3.4
Celera559,008,841 - 59,008,996UniSTS
RH 3.4 Map5389.2UniSTS
Cytogenetic Map5q22UniSTS




alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
nervous system
renal system
reproductive system
respiratory system
9 11 49 113 91 90 59 25 59 6 218 97 93 45 60 31



Ensembl Acc Id: ENSRNOT00000030825   ⟹   ENSRNOP00000038713
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl560,415,982 - 60,448,386 (+)Ensembl
Rnor_6.0 Ensembl561,734,118 - 61,766,481 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000094126   ⟹   ENSRNOP00000086621
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl560,421,777 - 60,449,089 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000109965   ⟹   ENSRNOP00000077595
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl560,415,987 - 60,449,089 (+)Ensembl
RefSeq Acc Id: NM_001014785   ⟹   NP_001014785
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8565,211,632 - 65,243,998 (+)NCBI
mRatBN7.2560,416,023 - 60,448,390 (+)NCBI
Rnor_6.0561,734,118 - 61,766,484 (+)NCBI
Rnor_5.0566,250,579 - 66,283,560 (+)NCBI
RGSC_v3.4562,691,068 - 62,723,436 (+)RGD
Celera558,976,747 - 59,009,113 (+)RGD
Sequence:
RefSeq Acc Id: XM_006238037   ⟹   XP_006238099
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8565,218,808 - 65,244,532 (+)NCBI
mRatBN7.2560,423,198 - 60,449,004 (+)NCBI
Rnor_6.0561,741,301 - 61,767,098 (+)NCBI
Rnor_5.0566,250,579 - 66,283,560 (+)NCBI
Sequence:
Protein RefSeqs NP_001014785 (Get FASTA)   NCBI Sequence Viewer  
  XP_006238099 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH92199 (Get FASTA)   NCBI Sequence Viewer  
  EDL98831 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000038713.5
  ENSRNOP00000077595.1
  ENSRNOP00000086621.1
GenBank Protein Q56A27 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001014785   ⟸   NM_001014785
- UniProtKB: Q56A27 (UniProtKB/Swiss-Prot),   A6IJB1 (UniProtKB/TrEMBL),   A0A8I6GF54 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006238099   ⟸   XM_006238037
- Peptide Label: isoform X1
- UniProtKB: A0A8I6GF54 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000038713   ⟸   ENSRNOT00000030825
Ensembl Acc Id: ENSRNOP00000086621   ⟸   ENSRNOT00000094126
Ensembl Acc Id: ENSRNOP00000077595   ⟸   ENSRNOT00000109965
MIF4G

Name Modeler Protein Id AA Range Protein Structure
AF-Q56A27-F1-model_v2 AlphaFold Q56A27 1-790 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

RGD ID:13693710
Promoter ID:EPDNEW_R4234
Type:multiple initiation site
Name:Ncbp1_1
Description:nuclear cap binding protein subunit 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0561,734,081 - 61,734,141EPDNEW


1 to 28 of 28 rows
Database
Acc Id
Source(s)
BioCyc Gene G2FUF-41415 BioCyc
Ensembl Genes ENSRNOG00000023605 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000030825.5 UniProtKB/TrEMBL
  ENSRNOT00000094126.1 UniProtKB/TrEMBL
  ENSRNOT00000109965.1 UniProtKB/Swiss-Prot
Gene3D-CATH 1.25.40.180 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7314745 IMAGE-MGC_LOAD
InterPro ARM-type_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CBP80 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MIF4G-like_typ-1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MIF4G-like_typ-2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MIF4G-like_typ-3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:298075 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:105807 IMAGE-MGC_LOAD
NCBI Gene 298075 ENTREZGENE
PANTHER NUCLEAR CAP-BINDING PROTEIN SUBUNIT 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12412 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam MIF4G UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MIF4G_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  MIF4G_like_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ncbp1 PhenoGen
RatGTEx ENSRNOG00000023605 RatGTEx
SMART MIF4G UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF48371 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I6GF54 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2QJC8_RAT UniProtKB/TrEMBL
  A6IJB1 ENTREZGENE, UniProtKB/TrEMBL
  NCBP1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
1 to 28 of 28 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-04-27 Ncbp1  nuclear cap binding protein subunit 1  Ncbp1  nuclear cap binding protein subunit 1, 80kDa  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-12-06 Ncbp1  nuclear cap binding protein subunit 1, 80kDa  Ncbp1_predicted  nuclear cap binding protein subunit 1, 80kDa (predicted)  Symbol and Name updated 1559027 APPROVED
2005-01-12 Ncbp1_predicted  nuclear cap binding protein subunit 1, 80kDa (predicted)      Symbol and Name status set to approved 70820 APPROVED