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Gene: Ncbp1 (nuclear cap binding protein subunit 1) Rattus norvegicus

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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

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	NCBP1 (nuclear cap binding protein subunit 1)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Ncbp1 (nuclear cap binding protein subunit 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ncbp1 (nuclear cap binding protein subunit 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	NCBP1 (nuclear cap binding protein subunit 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	NCBP1 (nuclear cap binding protein subunit 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ncbp1 (nuclear cap binding protein subunit 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	NCBP1 (nuclear cap binding protein subunit 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	NCBP1 (nuclear cap binding protein subunit 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ncbp1 (nuclear cap binding protein subunit 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Ncbp1 (nuclear cap binding protein subunit 1)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	NCBP1 (nuclear cap binding protein subunit 1)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ncbp1 (nuclear cap binding protein subunit 1)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	ncbp-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	CG7907	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	Cbp80	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	STO1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	ncbp1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	65,211,632 - 65,244,532 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	65,211,358 - 65,244,665 (+)	Ensembl				GRCr8
mRatBN7.2	5	60,416,023 - 60,449,004 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	60,415,982 - 60,449,089 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	62,388,411 - 62,420,896 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	64,207,914 - 64,240,399 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	64,177,167 - 64,209,652 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	61,734,118 - 61,767,098 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	61,734,118 - 61,766,481 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	66,250,579 - 66,283,560 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	62,691,068 - 62,723,436 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	58,976,747 - 59,009,113 (+)	NCBI		Celera
RGSC_v3.1	5	62,691,246 - 62,723,612 (+)	NCBI
Cytogenetic Map	5	q22	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

intracranial aneurysm (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-demecolcine (ISO)

1,2-dimethylhydrazine (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP)

2,6-dinitrotoluene (EXP)

2-hydroxypropanoic acid (ISO)

2-methylcholine (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

actinomycin D (ISO)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

amitrole (EXP)

aristolochic acid A (ISO)

benzatropine (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol AF (ISO)

Bisphenol B (ISO)

bisphenol F (ISO)

carbon nanotube (ISO)

chlorpyrifos (ISO)

chromium(6+) (ISO)

clozapine (ISO)

cocaine (EXP)

coumestrol (ISO)

Cuprizon (ISO)

DDE (ISO)

dibenzo[a,l]pyrene (ISO)

dibutyl phthalate (ISO)

enzyme inhibitor (ISO)

ethanol (ISO)

ethyl methanesulfonate (ISO)

flutamide (EXP)

formaldehyde (ISO)

FR900359 (ISO)

fulvestrant (ISO)

gemcitabine (ISO)

gentamycin (EXP)

hydrogen peroxide (ISO)

inulin (ISO)

ivermectin (ISO)

lead(0) (ISO)

mercury dichloride (EXP)

methapyrilene (ISO)

methimazole (EXP)

methyl methanesulfonate (ISO)

nefazodone (EXP)

nitrates (ISO)

Nutlin-3 (ISO)

ochratoxin A (EXP)

okadaic acid (ISO)

oxaliplatin (EXP,ISO)

perfluorooctane-1-sulfonic acid (ISO)

rac-lactic acid (ISO)

resveratrol (ISO)

sodium arsenite (ISO)

sulfadimethoxine (EXP)

tetrachloromethane (EXP,ISO)

thioacetamide (EXP)

topotecan (EXP)

Tributyltin oxide (ISO)

trichloroethene (EXP)

trimellitic anhydride (ISO)

triphenyl phosphate (ISO)

Triptolide (ISO)

urethane (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vincristine (ISO)

Yessotoxin (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

7-methylguanosine mRNA capping (IEA,ISO,ISS)

biological_process (ND)

defense response to virus (IEA,ISO)

histone mRNA metabolic process (IEA,ISO)

mRNA export from nucleus (IBA,IEA,ISO,ISS)

mRNA metabolic process (IEA,ISO,ISS)

mRNA processing (IEA)

mRNA transcription by RNA polymerase II (IEA,ISO)

mRNA transport (IEA)

nuclear-transcribed mRNA catabolic process, nonsense-mediated decay (IBA,IEA,ISO,ISS)

positive regulation of cell growth (IEA,ISO,ISS)

positive regulation of mRNA 3'-end processing (IEA,ISO,ISS)

positive regulation of mRNA splicing, via spliceosome (IEA,ISO)

regulation of mRNA processing (IBA)

regulation of translation (IEA)

regulation of translational initiation (IEA,ISO,ISS)

regulatory ncRNA-mediated gene silencing (IEA)

RNA catabolic process (IEA,ISO)

RNA metabolic process (IEA)

RNA splicing (IEA)

snRNA export from nucleus (IEA,ISO)

spliceosomal complex assembly (IEA,ISO)

Cellular Component

cytoplasm (IEA,ISO)

cytosol (IEA,ISO)

nuclear cap binding complex (IBA,IDA,IEA,ISO,ISS)

nucleoplasm (IEA,ISO)

nucleus (IBA,IEA,ISO,ISS)

ribonucleoprotein complex (IEA,ISO,ISS)

RNA cap binding complex (IEA,ISO)

Molecular Function

molecular adaptor activity (ISO)

mRNA binding (IBA)

protein binding (ISO)

RNA 7-methylguanosine cap binding (IC,IEA,ISO)

RNA binding (IEA)

RNA cap binding (IBA,IEA)

Molecular Pathway Annotations Click to see Annotation Detail View

5'-end pre-mRNA capping pathway (ISO)

mRNA decay pathway (IEA)

RNA polymerase II transcription elongation pathway (ISO)

RNA transport pathway (IEA)

spliceosome pathway (IEA)

References

References - curated

#	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.

Additional References at PubMed

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

Genomics

Comparative Map Data

Ncbp1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	65,211,632 - 65,244,532 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	5	65,211,358 - 65,244,665 (+)	Ensembl				GRCr8
mRatBN7.2	5	60,416,023 - 60,449,004 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	60,415,982 - 60,449,089 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	5	62,388,411 - 62,420,896 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	64,207,914 - 64,240,399 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	64,177,167 - 64,209,652 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	61,734,118 - 61,767,098 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	61,734,118 - 61,766,481 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	5	66,250,579 - 66,283,560 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	5	62,691,068 - 62,723,436 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	5	58,976,747 - 59,009,113 (+)	NCBI		Celera
RGSC_v3.1	5	62,691,246 - 62,723,612 (+)	NCBI
Cytogenetic Map	5	q22	NCBI

NCBP1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	97,633,821 - 97,673,748 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	97,633,448 - 97,673,748 (+)	Ensembl			hg38	GRCh38
GRCh37	9	100,396,103 - 100,436,030 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	99,435,526 - 99,475,851 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	9	97,475,462 - 97,513,466	NCBI
Celera	9	70,909,962 - 70,950,264 (+)	NCBI		Celera
Cytogenetic Map	9	q22.33	NCBI
HuRef	9	69,996,714 - 70,037,070 (+)	NCBI		HuRef
CHM1_1	9	100,542,138 - 100,582,465 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	9	109,805,762 - 109,845,689 (+)	NCBI		T2T-CHM13v2.0

Ncbp1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	46,138,732 - 46,172,403 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	46,138,613 - 46,172,403 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	4	46,138,511 - 46,172,403 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	46,138,613 - 46,172,403 (+)	Ensembl			mm10	GRCm38
MGSCv37	4	46,151,383 - 46,185,275 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	4	46,159,622 - 46,193,157 (+)	NCBI		MGSCv36	mm8
Celera	4	46,160,651 - 46,194,542 (+)	NCBI		Celera
Cytogenetic Map	4	B1	NCBI
cM Map	4	24.49	NCBI

Ncbp1
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955419	27,778,300 - 27,819,878 (-)	Ensembl
ChiLan1.0	NW_004955419	27,778,300 - 27,819,878 (-)	NCBI	ChiLan1.0	ChiLan1.0

NCBP1
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	11	41,783,460 - 41,823,887 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	41,785,715 - 41,826,532 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	68,724,176 - 68,764,423 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	96,845,422 - 96,885,624 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	96,845,422 - 96,885,624 (+)	Ensembl			panPan2	panpan1.1

NCBP1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	11	54,938,250 - 54,974,536 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	11	54,938,372 - 54,974,547 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	11	53,372,453 - 53,408,740 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	11	56,050,831 - 56,087,132 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	11	56,050,630 - 56,087,132 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	11	54,547,195 - 54,583,482 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	11	54,577,067 - 54,613,371 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	11	55,273,732 - 55,310,040 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Ncbp1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404947	169,882,087 - 169,917,455 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936524	6,429,185 - 6,465,035 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936524	6,429,735 - 6,465,035 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

NCBP1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	239,492,721 - 239,535,825 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	1	239,492,573 - 239,543,925 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	267,580,587 - 267,659,128 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

NCBP1
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	12	41,736,063 - 41,776,178 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	12	41,738,579 - 41,776,509 (-)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666038	38,789,120 - 38,829,181 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ncbp1
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624825	3,164,700 - 3,206,241 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624825	3,166,895 - 3,206,444 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Ncbp1
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	1	344,368 - 377,262 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Ncbp1
317 total Variants

miRNA Target Status (No longer updated)

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.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1578776	Stresp18	Stress response QTL 18	2.9		thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	5	32751649	77751649	Rat
1298067	Scl15	Serum cholesterol level QTL 15	4.8	0.001	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	38011670	83011670	Rat
1300115	Hrtrt7	Heart rate QTL 7	2.76		heart pumping trait (VT:2000009)	heart rate (CMO:0000002)	5	52665372	94894052	Rat
6907115	Mcs29	Mammary carcinoma susceptibility QTL 29			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	38004331	83004331	Rat
1549845	Scl44	Serum cholesterol level QTL 44	6		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	44924861	153890773	Rat
1358353	Srcrtb2	Stress Responsive Cort Basal QTL 2	3.48	0.003	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	5	23671493	79046465	Rat
70212	Niddm25	Non-insulin dependent diabetes mellitus QTL 25	3.54		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	38207390	136631402	Rat
61386	Bp49	Blood pressure QTL 49	16.6		cerebrum integrity trait (VT:0010549)	brain infarction volume (CMO:0001013)	5	65089051	103648916	Rat
1331801	Rf33	Renal function QTL 33	4.149		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal vascular resistance (CMO:0001900)	5	48523123	134369373	Rat
1598807	Glom12	Glomerulus QTL 12	2.7		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	5	38011670	83011670	Rat
1302786	Kidm8	Kidney mass QTL 8	28.15		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	5	38011670	83011670	Rat
61393	Bp7	Blood pressure QTL 7	4.5	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	5	65089051	166764498	Rat
1331782	Rf36	Renal function QTL 36	3.296		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	39019942	102105896	Rat
6903292	Stl28	Serum triglyceride level QTL 28	2.6	0.0073	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	5	33311673	78311673	Rat
1578766	Tcas11	Tongue tumor susceptibility QTL 11	4.12		tongue integrity trait (VT:0010553)	number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)	5	51657967	166600247	Rat
1578767	Stresp17	Stress response QTL 17	4.3	0.01	blood aldosterone amount (VT:0005346)	plasma aldosterone level (CMO:0000551)	5	32751649	77751649	Rat
1576312	Emca8	Estrogen-induced mammary cancer QTL 8	4.1		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	55124766	172190305	Rat
1641912	Alcrsp18	Alcohol response QTL 18			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	5	39985948	84985948	Rat
1576314	Eutr1	Estrogen induced uterine response QTL 1			uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	6922282	81330203	Rat
6903306	Scl35	Serum cholesterol QTL 35	2.6	0.0073	blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	33311673	78311673	Rat
1576317	Eutr2	Estrogen induced uterine response QTL 2		0.01	uterus integrity trait (VT:0010575)	pyometritis severity score (CMO:0002009)	5	39526924	84526924	Rat
1331773	Scl26	Serum cholesterol level QTL 26	3.065		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	48523123	91770353	Rat
70189	Mcs5	Mammary carcinoma susceptibility QTL 5	10.51		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	60601597	137492949	Rat
1331771	Rf35	Renal function QTL 35	4.36965		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	10019064	91770353	Rat
61359	Eaex	Experimental allergic encephalomyelitis QTL x	3		nervous system integrity trait (VT:0010566)	post-insult time to onset of experimental autoimmune encephalomyelitis (CMO:0001422)	5	60511627	105511627	Rat
8662454	Vetf3	Vascular elastic tissue fragility QTL 3	27.4		artery integrity trait (VT:0010639)	number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)	5	7065535	74335773	Rat
2290448	Scl54	Serum cholesterol level QTL 54	2.93		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	5	36460764	136631402	Rat
61426	Scl2	Serum cholesterol level QTL 2	7.3	0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	5	64589016	109589016	Rat
1331756	Rf34	Renal function QTL 34	4.16275		kidney blood vessel physiology trait (VT:0100012)	absolute change in renal blood flow rate (CMO:0001168)	5	10019064	87027358	Rat
8552954	Pigfal14	Plasma insulin-like growth factor 1 level QTL 14	9		blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	5	26023211	71023211	Rat
2316954	Rf57	Renal function QTL 57	0		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	5	64589016	93503770	Rat
2316959	Gluco59	Glucose level QTL 59	4.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	5	56546393	101546393	Rat
1600358	Mamtr5	Mammary tumor resistance QTL 5			mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	5	23671493	68671493	Rat
2316957	Pur21	Proteinuria QTL 21	6.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	5	64589016	91762830	Rat

Markers in Region

RH130418

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	60,448,117 - 60,448,322 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	61,766,212 - 61,766,416	NCBI	Rnor6.0
Rnor_5.0	5	66,282,674 - 66,282,878	UniSTS	Rnor5.0
RGSC_v3.4	5	62,723,164 - 62,723,368	UniSTS	RGSC3.4
Celera	5	59,008,841 - 59,009,045	UniSTS
RH 3.4 Map	5	381.7	UniSTS
Cytogenetic Map	5	q22	UniSTS

RH132739

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	60,448,546 - 60,448,738 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	61,766,641 - 61,766,832	NCBI	Rnor6.0
Rnor_5.0	5	66,283,103 - 66,283,294	UniSTS	Rnor5.0
RGSC_v3.4	5	62,723,593 - 62,723,784	UniSTS	RGSC3.4
Celera	5	59,009,270 - 59,009,461	UniSTS
RH 3.4 Map	5	379.2	UniSTS
Cytogenetic Map	5	q22	UniSTS

BE108357

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	5	60,448,117 - 60,448,273 (+)	MAPPER	mRatBN7.2
Rnor_6.0	5	61,766,212 - 61,766,367	NCBI	Rnor6.0
Rnor_5.0	5	66,282,674 - 66,282,829	UniSTS	Rnor5.0
RGSC_v3.4	5	62,723,164 - 62,723,319	UniSTS	RGSC3.4
Celera	5	59,008,841 - 59,008,996	UniSTS
RH 3.4 Map	5	389.2	UniSTS
Cytogenetic Map	5	q22	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	164	91	90	59	92	59	6	356	192	11	143	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001014785	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006238037	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC126894	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC092199	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473962	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ220875	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000030825 ⟹ ENSRNOP00000038713

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	65,211,358 - 65,244,665 (+)	Ensembl
mRatBN7.2 Ensembl	5	60,415,982 - 60,448,386 (+)	Ensembl
Rnor_6.0 Ensembl	5	61,734,118 - 61,766,481 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000094126 ⟹ ENSRNOP00000086621

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	65,217,385 - 65,244,665 (+)	Ensembl
mRatBN7.2 Ensembl	5	60,421,777 - 60,449,089 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000109965 ⟹ ENSRNOP00000077595

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	5	65,211,358 - 65,244,665 (+)	Ensembl
mRatBN7.2 Ensembl	5	60,415,987 - 60,449,089 (+)	Ensembl

RefSeq Acc Id:

NM_001014785 ⟹ NP_001014785

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	65,211,632 - 65,243,998 (+)	NCBI
mRatBN7.2	5	60,416,023 - 60,448,390 (+)	NCBI
Rnor_6.0	5	61,734,118 - 61,766,484 (+)	NCBI
Rnor_5.0	5	66,250,579 - 66,283,560 (+)	NCBI
RGSC_v3.4	5	62,691,068 - 62,723,436 (+)	RGD
Celera	5	58,976,747 - 59,009,113 (+)	RGD

Sequence:

show sequence

CCGGCAGCCCGACGGTTCTGGTGTTGCAGGCGACCCGCAACTCAGATCCGCTGCGCATCAGCAA
GCAGCATGTCGCGGAGGCGGCACAGCTACGAGAACGATGGTGGACAACCTCACAAAAGGAGGAA
GACATCAGATGCAAATGAAACGGAAGATCATTTGGAATCTTTAATATGCAAAGTAGGGGAAAAG
AGCGCTTGCTCTTTAGAGAGCAATCTCGAAGGCCTGGCTGGTGTTTTAGAAGCTGATCTTCCTA
ACTACAAGAGCAAGATCTTAAGGCTCCTTTGTACAGTTGCACGTCTGTTACCTGAGAAGCTAAC
AATTTATACAACATTAGTTGGACTGCTGAATGCCAGAAATTATAACTTTGGAGGAGAATTTGTA
GAAGCTATGATTCGTCAACTTAAAGAATCGCTAAAAGCAAACAACTATAATGAAGCTGTATATT
TGGTCCGTTTTCTGTCTGATCTTGTGAACTGTCATGTGATTGCTGCCCCATCTATGGTTGCTAT
GTTTGAGAATTTTGTAAGTGTAACTCAGGAAGAAGATGTGCCTCAAGTGCGACGGGATTGGTAT
GTGTACGCGTTTCTGTCATCCTTGCCCTGGGTTGGGAAGGAGTTGTATGAAAAGAAAGATGCAG
AAATGGACCGCATCTTCTCCAGCACCGAAAGCTATCTCAAAAGACGCCAGAAGACTCATGTGCC
CATGTTACAAGTATGGACTGCCGATAAGCCACACCCCCAAGAAGAGTATTTAGATTGCCTGTGG
GCCCAGATTCAGAAATTGAAAAAGGACCGGTGGCAGGAAAGGCACATCCTAAGACCCTACCTTG
CCTTTGACAGCATCCTCTGTGAAGCACTACAGCACAACCTGCCTCCTTTCACACCACCGCCTCA
CACCGAAGACTCCGTGTACCCAATGCCCAGGGTCATCTTCAGGATGTTTGACTACACAGACGAC
CCAGAGGGTCCTGTTATGCCAGGGAGCCATTCAGTAGAGAGGTTTGTCATAGAGGAGAATCTTC
ATTGCATCATAAAATCCTACTGGAAGGAAAGGAAAACTTGTGCTGCCCAGTTGGTGAGTTATCC
AGGCAAGAACAAGATCCCATTGAACTACCACATAGTGGAGGTGATCTTTGCAGAGCTGTTTCAG
CTTCCAGCGCCTCCGCACATTGATGTGATGTACACGACACTGCTGATCGAACTGTGCAAACTTC
AGCCGGGCTCTCTGCCCCAAGTGCTTGCACAGGCCACTGAGATGCTGTACATGCGTCTGGACAC
CATGAGTACCACGTGTGTTGACAGGTTTATTAATTGGTTTTCTCATCATCTAAGTAATTTTCAA
TTCCGCTGGAGCTGGGAAGATTGGTCAGATTGTCTTACTCAGGATCTTGAAAGTCCCAAACCAA
AGTTTGTAAGAGAAGTTCTAGAGAAATGTATGAGGTTGTCTTACCATCAGCATATATTAGATAT
CGTTCCTCCCACCTTCTCAGCTCTGTGTCCTGCAAACCCAACCTGCATTTACAAGTATGGAGAC
GAAAGTAGCAATTCTCTTCCTGGACATTCCGTGGCACTCTGTTTATCTGTTGCTTTTAAAAGTA
AGGCAACCAACGATGAAATCTTCAGCATTCTGAAGGACGTACCAAATCCTAACCAGGTTGATGA
TGACGATGAAGGGTTCAGATTTAATCCCTTGAAAATAGAAGTCTTTGTCCAGACTCTGCTGCAC
TTAGCTGCCAAGTCCTTCAGTCACTCCTTCAGTGCTCTTGCAAAGTTTCATGAAGTCTTCAAAA
CTCTAGCAGAAAGTGATAAGGGGAAGCTGCATGTGCTGAGAGTCATGTTTGAAGTCTGGAGGAA
TCACCCGCAGATGATTGCTGTACTGGTTGATAAGATGATTCGTACACAGATTGTTGACTGTGCT
GCAGTAGCAAACTGGATCTTCTCATCAGAGCTGTCTCGTGACTTTACGAGGTTGTTTGTGTGGG
AAATTTTGCACTCTACAATTCGTAAGATGAATAAGCATGTTCTGAAGATCCAGAAAGAGCTGGA
AGAAGCTAAAGAGAAACTAGCAAGGCAGCACAAACGACGCAGTGATGATGATGACCGGGGCAGC
GACAGGAAGGACGGTGCCCTGGAGGAGCAAATCGAAAGGCTGCAGGAGAAAGTGGAGTCTGCTC
AGAGCGAGCAAAAGAACCTTTTCCTCGTCATCTTCCAGCGTTTCATCATGATCTTGACTGAACA
CTTGGTGCGCTGTGAAACCGATGGGACCAGTATATTGACCCCGTGGTATAAGAACTGCATCGAG
AGGCTGCAGCAGATCTTCCTACAGCATCACCAGATAATCCAGCAGTACATGGTGACCCTGGAGA
ACCTGCTCTTCACGGCAGAGTTAGATCCTCACATCCTGGCTGTGTTCCAGCAGTTCTGTGCTCT
GCAGGCCTAACAGTCACGTTTTCCCCTTTTTATTATCTTGAAATAACTTGTCTGAATTTTGATG
GTTTGAATGTTTGCTTTCCTGTAGTAGCCTTTCACTTCCTAAAGGAAATGGGGGAGGAGTGTGA
GGAACATGAGCTGACCGACCTTTAGTTGCCCTGAAGGGCAAGTGTTACTCGATGACAGTGATGT
TATGGTGACTGTAGAGTTGTACATATGGGATAGATTTGATACTTTTTCTCCTTAGTGCACAGAA
CAAGAGGTTTGAGGTGTTCGAAATGCAAGGTCAGGCTTGCAAAATAGTAGATACAACCGACAGG
CTATCCCCGGGGAGCGTAGCTTTTCTCTGCTCCTGGGAAACATGGCTGGAATAAACTGCAGTTG
TGTTTTTTAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_006238037 ⟹ XP_006238099

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	5	65,218,808 - 65,244,532 (+)	NCBI
mRatBN7.2	5	60,423,198 - 60,449,004 (+)	NCBI
Rnor_6.0	5	61,741,301 - 61,767,098 (+)	NCBI
Rnor_5.0	5	66,250,579 - 66,283,560 (+)	NCBI

Sequence:

show sequence

GCTCTTTAGAGAGCAATCTCGAAGGCCTGGCTGGTGTTTTAGAAGCTGATCTTCCTAACTACAA
GAGCAAGATCTTAAGGCTCCTTTGTACAGTGTATGTATGTAAAAGATTTGTGGATCCAGTGCAC
GTCTGTTACCTGAGAAGCTAACAATTTATACAACATTAGTTGGACTGCTGAATGCCAGAAATTA
TAACTTTGGAGGAGAATTTGTAGAAGCTATGATTCGTCAACTTAAAGAATCGCTAAAAGCAAAC
AACTATAATGAAGCTGTATATTTGGTCCGTTTTCTGTCTGATCTTGTGAACTGTCATGTGATTG
CTGCCCCATCTATGGTTGCTATGTTTGAGAATTTTGTAAGTGTAACTCAGGAAGAAGATGTGCC
TCAAGTGCGACGGGATTGGTATGTGTACGCGTTTCTGTCATCCTTGCCCTGGGTTGGGAAGGAG
TTGTATGAAAAGAAAGATGCAGAAATGGACCGCATCTTCTCCAGCACCGAAAGCTATCTCAAAA
GACGCCAGAAGACTCATGTGCCCATGTTACAAGTATGGACTGCCGATAAGCCACACCCCCAAGA
AGAGTATTTAGATTGCCTGTGGGCCCAGATTCAGAAATTGAAAAAGGACCGGTGGCAGGAAAGG
CACATCCTAAGACCCTACCTTGCCTTTGACAGCATCCTCTGTGAAGCACTACAGCACAACCTGC
CTCCTTTCACACCACCGCCTCACACCGAAGACTCCGTGTACCCAATGCCCAGGGTCATCTTCAG
GATGTTTGACTACACAGACGACCCAGAGGGTCCTGTTATGCCAGGGAGCCATTCAGTAGAGAGG
TTTGTCATAGAGGAGAATCTTCATTGCATCATAAAATCCTACTGGAAGGAAAGGAAAACTTGTG
CTGCCCAGTTGGTGAGTTATCCAGGCAAGAACAAGATCCCATTGAACTACCACATAGTGGAGGT
GATCTTTGCAGAGCTGTTTCAGCTTCCAGCGCCTCCGCACATTGATGTGATGTACACGACACTG
CTGATCGAACTGTGCAAACTTCAGCCGGGCTCTCTGCCCCAAGTGCTTGCACAGGCCACTGAGA
TGCTGTACATGCGTCTGGACACCATGAGTACCACGTGTGTTGACAGGTTTATTAATTGGTTTTC
TCATCATCTAAGTAATTTTCAATTCCGCTGGAGCTGGGAAGATTGGTCAGATTGTCTTACTCAG
GATCTTGAAAGTCCCAAACCAAAGTTTGTAAGAGAAGTTCTAGAGAAATGTATGAGGTTGTCTT
ACCATCAGCATATATTAGATATCGTTCCTCCCACCTTCTCAGCTCTGTGTCCTGCAAACCCAAC
CTGCATTTACAAGTATGGAGACGAAAGTAGCAATTCTCTTCCTGGACATTCCGTGGCACTCTGT
TTATCTGTTGCTTTTAAAAGTAAGGCAACCAACGATGAAATCTTCAGCATTCTGAAGGACGTAC
CAAATCCTAACCAGGTTGATGATGACGATGAAGGGTTCAGATTTAATCCCTTGAAAATAGAAGT
CTTTGTCCAGACTCTGCTGCACTTAGCTGCCAAGTCCTTCAGTCACTCCTTCAGTGCTCTTGCA
AAGTTTCATGAAGTCTTCAAAACTCTAGCAGAAAGTGATAAGGGGAAGCTGCATGTGCTGAGAG
TCATGTTTGAAGTCTGGAGGAATCACCCGCAGATGATTGCTGTACTGGTTGATAAGATGATTCG
TACACAGATTGTTGACTGTGCTGCAGTAGCAAACTGGATCTTCTCATCAGAGCTGTCTCGTGAC
TTTACGAGGTTGTTTGTGTGGGAAATTTTGCACTCTACAATTCGTAAGATGAATAAGCATGTTC
TGAAGATCCAGAAAGAGCTGGAAGAAGCTAAAGAGAAACTAGCAAGGCAGCACAAACGACGCAG
TGATGATGATGACCGGGGCAGCGACAGGAAGGACGGTGCCCTGGAGGAGCAAATCGAAAGGCTG
CAGGAGAAAGTGGAGTCTGCTCAGAGCGAGCAAAAGAACCTTTTCCTCGTCATCTTCCAGCGTT
TCATCATGATCTTGACTGAACACTTGGTGCGCTGTGAAACCGATGGGACCAGTATATTGACCCC
GTGGTATAAGAACTGCATCGAGAGGCTGCAGCAGATCTTCCTACAGCATCACCAGATAATCCAG
CAGTACATGGTGACCCTGGAGAACCTGCTCTTCACGGCAGAGTTAGATCCTCACATCCTGGCTG
TGTTCCAGCAGTTCTGTGCTCTGCAGGCCTAACAGTCACGTTTTCCCCTTTTTATTATCTTGAA
ATAACTTGTCTGAATTTTGATGGTTTGAATGTTTGCTTTCCTGTAGTAGCCTTTCACTTCCTAA
AGGAAATGGGGGAGGAGTGTGAGGAACATGAGCTGACCGACCTTTAGTTGCCCTGAAGGGCAAG
TGTTACTCGATGACAGTGATGTTATGGTGACTGTAGAGTTGTACATATGGGATAGATTTGATAC
TTTTTCTCCTTAGTGCACAGAACAAGAGGTTTGAGGTGTTCGAAATGCAAGGTCAGGCTTGCAA
AATAGTAGATACAACCGACAGGCTATCCCCGGGGAGCGTAGCTTTTCTCTGCTCCTGGGAAACA
TGGCTGGAATAAACTGCAGTTGTGTTTTTTAAACGTTGGGAGTCATGATTTATCATCTTTTCTT
ACTGAAGGTGTACTTGGTCTCCACCGGAAGCTGTCTTCTGCAGATACTTTTCTTAAGTGGTATT
CTTATGATACCGCTTGTTAGTATAAAGGATTATTAGTACTAATTCCCAAATTTGTCTAAGTATA
AGCCACCCAGAAATCCTGAAAGGTATTTTAAACTGCGATCTCAAAGTATACTGAAGATGGCAGC
AGTTTTTCTACCTGATGGCAGGTTTGTCGGCCATTGTTGAAAAGCATCTATCTGGTCGTGCCTT
GCACCTCTAAAAACAGTTTGCCCAAGATCCCGGACTATCACAGACCGACATGGAGTGACTGATA
AATGAGCTGACGTGGACTTGGAATTCAGTGACTTGGGGCTCGTCTCTGTGATCCCTGAGTCTGT
TGAGGCTGAAGCGAAATGAGTGTTTTGTAAAATAATGCATAAGCAATTATCTGACATTCCAGCT
TTCTAGGATTTTTAAATTTCTTATTAAACCTTAGAGAAATCCACTAATAATATTATAATTACTG
GTAGTAATTTTGTGCATTTGCTATCTTTTTGTATGTGCTATACCCTATCAAGTATACATTGATT
GTCTGTA

hide sequence

Protein Sequences


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	ENSRNOP00000077595
	ENSRNOP00000077595.1
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:

show sequence

MSRRRHSYENDGGQPHKRRKTSDANETEDHLESLICKVGEKSACSLESNLEGLAGVLEADLPNY
KSKILRLLCTVARLLPEKLTIYTTLVGLLNARNYNFGGEFVEAMIRQLKESLKANNYNEAVYLV
RFLSDLVNCHVIAAPSMVAMFENFVSVTQEEDVPQVRRDWYVYAFLSSLPWVGKELYEKKDAEM
DRIFSSTESYLKRRQKTHVPMLQVWTADKPHPQEEYLDCLWAQIQKLKKDRWQERHILRPYLAF
DSILCEALQHNLPPFTPPPHTEDSVYPMPRVIFRMFDYTDDPEGPVMPGSHSVERFVIEENLHC
IIKSYWKERKTCAAQLVSYPGKNKIPLNYHIVEVIFAELFQLPAPPHIDVMYTTLLIELCKLQP
GSLPQVLAQATEMLYMRLDTMSTTCVDRFINWFSHHLSNFQFRWSWEDWSDCLTQDLESPKPKF
VREVLEKCMRLSYHQHILDIVPPTFSALCPANPTCIYKYGDESSNSLPGHSVALCLSVAFKSKA
TNDEIFSILKDVPNPNQVDDDDEGFRFNPLKIEVFVQTLLHLAAKSFSHSFSALAKFHEVFKTL
AESDKGKLHVLRVMFEVWRNHPQMIAVLVDKMIRTQIVDCAAVANWIFSSELSRDFTRLFVWEI
LHSTIRKMNKHVLKIQKELEEAKEKLARQHKRRSDDDDRGSDRKDGALEEQIERLQEKVESAQS
EQKNLFLVIFQRFIMILTEHLVRCETDGTSILTPWYKNCIERLQQIFLQHHQIIQQYMVTLENL
LFTAELDPHILAVFQQFCALQA

hide sequence

RefSeq Acc Id:	XP_006238099 ⟸ XM_006238037
- Peptide Label:	isoform X1
- UniProtKB:	A0A8I6GF54 (UniProtKB/TrEMBL)
- Sequence:	show sequence MIRQLKESLKANNYNEAVYLVRFLSDLVNCHVIAAPSMVAMFENFVSVTQEEDVPQVRRDWYVY AFLSSLPWVGKELYEKKDAEMDRIFSSTESYLKRRQKTHVPMLQVWTADKPHPQEEYLDCLWAQ IQKLKKDRWQERHILRPYLAFDSILCEALQHNLPPFTPPPHTEDSVYPMPRVIFRMFDYTDDPE GPVMPGSHSVERFVIEENLHCIIKSYWKERKTCAAQLVSYPGKNKIPLNYHIVEVIFAELFQLP APPHIDVMYTTLLIELCKLQPGSLPQVLAQATEMLYMRLDTMSTTCVDRFINWFSHHLSNFQFR WSWEDWSDCLTQDLESPKPKFVREVLEKCMRLSYHQHILDIVPPTFSALCPANPTCIYKYGDES SNSLPGHSVALCLSVAFKSKATNDEIFSILKDVPNPNQVDDDDEGFRFNPLKIEVFVQTLLHLA AKSFSHSFSALAKFHEVFKTLAESDKGKLHVLRVMFEVWRNHPQMIAVLVDKMIRTQIVDCAAV ANWIFSSELSRDFTRLFVWEILHSTIRKMNKHVLKIQKELEEAKEKLARQHKRRSDDDDRGSDR KDGALEEQIERLQEKVESAQSEQKNLFLVIFQRFIMILTEHLVRCETDGTSILTPWYKNCIERL QQIFLQHHQIIQQYMVTLENLLFTAELDPHILAVFQQFCALQA hide sequence

Ensembl Acc Id:

ENSRNOP00000038713 ⟸ ENSRNOT00000030825

Ensembl Acc Id:

ENSRNOP00000086621 ⟸ ENSRNOT00000094126

Ensembl Acc Id:

ENSRNOP00000077595 ⟸ ENSRNOT00000109965

Protein Domains

MIF4G

Protein Structures

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

Transcriptome

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

Promoters

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 Assembly	Chr	Position (strand)	Source
Rnor_6.0	5	61,734,081 - 61,734,141	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1308973	AgrOrtholog
BioCyc Gene	G2FUF-41415	BioCyc
Ensembl Genes	ENSRNOG00000023605	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000109965	ENTREZGENE
	ENSRNOT00000109965.1	UniProtKB/Swiss-Prot
Gene3D-CATH	1.25.40.180	UniProtKB/Swiss-Prot
IMAGE_CLONE	IMAGE:7314745	IMAGE-MGC_LOAD
InterPro	ARM-type_fold	UniProtKB/Swiss-Prot
	CBP80	UniProtKB/Swiss-Prot
	MIF4G-like_typ-1	UniProtKB/Swiss-Prot
	MIF4G-like_typ-2	UniProtKB/Swiss-Prot
	MIF4G-like_typ-3	UniProtKB/Swiss-Prot
KEGG Report	rno:298075	UniProtKB/Swiss-Prot
MGC_CLONE	MGC:105807	IMAGE-MGC_LOAD
NCBI Gene	298075	ENTREZGENE
PANTHER	NUCLEAR CAP-BINDING PROTEIN SUBUNIT 1	UniProtKB/Swiss-Prot
	PTHR12412	UniProtKB/Swiss-Prot
Pfam	MIF4G	UniProtKB/Swiss-Prot
	MIF4G_like	UniProtKB/Swiss-Prot
	MIF4G_like_2	UniProtKB/Swiss-Prot
PhenoGen	Ncbp1	PhenoGen
RatGTEx	ENSRNOG00000023605	RatGTEx
SMART	MIF4G	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF48371	UniProtKB/Swiss-Prot
UniProt	A0A8I6GF54	ENTREZGENE, UniProtKB/TrEMBL
	A0A8L2QJC8_RAT	UniProtKB/TrEMBL
	A6IJB1	ENTREZGENE, UniProtKB/TrEMBL
	NCBP1_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

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

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

RGD Manual Annotations

Imported Annotations - KEGG (archival)

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Imported Disease Annotations - ClinVar

RGD Manual Annotations

Imported Annotations - KEGG (archival)