Cpsf1 (cleavage and polyadenylation specific factor 1) - Rat Genome Database

Cpsf1 (cleavage and polyadenylation specific factor 1) - Rat Genome Database

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Gene: Cpsf1 (cleavage and polyadenylation specific factor 1) Rattus norvegicus

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Symbol:

Cpsf1

Name:

cleavage and polyadenylation specific factor 1

RGD ID:

1306406

Description:

Predicted to enable enzyme binding activity and mRNA 3'-UTR AU-rich region binding activity. Predicted to be located in nucleoplasm. Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in myopia. Orthologous to human CPSF1 (cleavage and polyadenylation specific factor 1); PARTICIPATES IN 3'-end pre-mRNA processing pathway; RNA polymerase II transcription termination pathway; mRNA decay pathway; INTERACTS WITH 2,6-dinitrotoluene; amphetamine; bisphenol A.

Type:

protein-coding

RefSeq Status:

Previously known as:

cleavage and polyadenylation specific factor 1, 160kDa; cleavage and polyadenylation specificity factor subunit 1; LOC366952; MGC188689

RGD Orthologs

Alliance Orthologs

More Info

more info ...

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	7	110,200,078 - 110,210,644 (-)	NCBI		GRCr8
mRatBN7.2	7	108,319,429 - 108,330,018 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	108,319,434 - 108,329,934 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	110,061,260 - 110,071,841 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	112,284,973 - 112,295,415 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	112,245,683 - 112,256,252 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	117,661,779 - 117,672,373 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	117,661,661 - 117,672,373 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	117,649,863 - 117,660,456 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	114,647,975 - 114,658,568 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	114,682,284 - 114,692,737 (-)	NCBI
Celera	7	104,669,635 - 104,680,226 (-)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Cpsf1	Rat	Brown-Vialetto-Van Laere syndrome 2		ISO	CPSF1 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Brown-Vialetto-van Laere syndrome 2	ClinVar	PMID:20301336 more ...
Cpsf1	Rat	epidermolysis bullosa simplex with muscular dystrophy		ISO	CPSF1 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Epidermolysis bullosa simplex 5B and with muscular dystrophy	ClinVar	PMID:20301336 more ...
Cpsf1	Rat	holoprosencephaly		ISO	CPSF1 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Holoprosencephaly sequence	ClinVar	PMID:28492532
Cpsf1	Rat	Myopia 27		ISO	CPSF1 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Myopia 27	ClinVar	PMID:25741868 more ...
Cpsf1	Rat	Recombinant Chromosome 8 Syndrome		ISO	CPSF1 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Recombinant 8 syndrome	ClinVar	PMID:31690835

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Cpsf1	Rat	Disease Progression		ISO	CPSF1 (Homo sapiens)	11554173	CTD Direct Evidence: marker/mechanism	CTD	PMID:21364753
Cpsf1	Rat	Stomach Neoplasms		ISO	CPSF1 (Homo sapiens)	11554173	CTD Direct Evidence: marker/mechanism	CTD	PMID:21364753

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Cpsf1	Rat	Myopia 27		ISO	CPSF1 (Homo sapiens)	7240710		OMIM

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Cpsf1	Rat	1,2-dimethylhydrazine	multiple interactions	ISO	Cpsf1 (Mus musculus)	6480464	Folic Acid inhibits the reaction [1 and 2-Dimethylhydrazine results in increased expression of CPSF1 mRNA]	CTD	PMID:22206623
Cpsf1	Rat	1,2-dimethylhydrazine	increases expression	ISO	Cpsf1 (Mus musculus)	6480464	1 and 2-Dimethylhydrazine results in increased expression of CPSF1 mRNA	CTD	PMID:22206623
Cpsf1	Rat	2,2',4,4'-Tetrabromodiphenyl ether	affects expression	ISO	Cpsf1 (Mus musculus)	6480464	2 more ...	CTD	PMID:30294300
Cpsf1	Rat	2,3,7,8-tetrachlorodibenzodioxine	affects expression	ISO	Cpsf1 (Mus musculus)	6480464	Tetrachlorodibenzodioxin affects the expression of CPSF1 mRNA	CTD	PMID:21570461 and PMID:24680724
Cpsf1	Rat	2,6-dinitrotoluene	affects expression	EXP		6480464	2 and 6-dinitrotoluene affects the expression of CPSF1 mRNA	CTD	PMID:21346803
Cpsf1	Rat	2-methylcholine	affects expression	ISO	CPSF1 (Homo sapiens)	6480464	beta-methylcholine affects the expression of CPSF1 mRNA	CTD	PMID:21179406
Cpsf1	Rat	4,4'-sulfonyldiphenol	affects methylation	ISO	Cpsf1 (Mus musculus)	6480464	bisphenol S affects the methylation of CPSF1 gene	CTD	PMID:31683443
Cpsf1	Rat	acrylamide	decreases expression	ISO	CPSF1 (Homo sapiens)	6480464	Acrylamide results in decreased expression of CPSF1 mRNA	CTD	PMID:32763439
Cpsf1	Rat	amphetamine	decreases expression	EXP		6480464	Amphetamine results in decreased expression of CPSF1 mRNA	CTD	PMID:30779732
Cpsf1	Rat	arsenite(3-)	multiple interactions	ISO	CPSF1 (Homo sapiens)	6480464	arsenite inhibits the reaction [G3BP1 protein binds to CPSF1 mRNA]	CTD	PMID:32406909
Cpsf1	Rat	bathocuproine disulfonic acid	multiple interactions	ISO	CPSF1 (Homo sapiens)	6480464	[pyrrolidine dithiocarbamic acid co-treated with bathocuproine sulfonate] results in increased expression of CPSF1 mRNA	CTD	PMID:15477007
Cpsf1	Rat	bisphenol A	increases expression	EXP		6480464	bisphenol A results in increased expression of CPSF1 mRNA	CTD	PMID:25181051
Cpsf1	Rat	bisphenol A	affects splicing	ISO	Cpsf1 (Mus musculus)	6480464	bisphenol A affects the splicing of CPSF1 mRNA	CTD	PMID:37894381
Cpsf1	Rat	bisphenol A	increases expression	ISO	Cpsf1 (Mus musculus)	6480464	bisphenol A results in increased expression of CPSF1 mRNA	CTD	PMID:33221593
Cpsf1	Rat	bisphenol A	decreases expression	ISO	CPSF1 (Homo sapiens)	6480464	bisphenol A results in decreased expression of CPSF1 protein	CTD	PMID:37567409
Cpsf1	Rat	bisphenol A	decreases expression	EXP		6480464	bisphenol A results in decreased expression of CPSF1 mRNA	CTD	PMID:30816183 and PMID:32528016
Cpsf1	Rat	bisphenol F	decreases expression	ISO	Cpsf1 (Mus musculus)	6480464	bisphenol F results in decreased expression of CPSF1 mRNA	CTD	PMID:38685157
Cpsf1	Rat	caffeine	affects phosphorylation	ISO	CPSF1 (Homo sapiens)	6480464	Caffeine affects the phosphorylation of CPSF1 protein	CTD	PMID:35688186
Cpsf1	Rat	cannabidiol	multiple interactions	ISO	CPSF1 (Homo sapiens)	6480464	[Cuprizone co-treated with Cannabidiol] results in decreased expression of CPSF1 protein	CTD	PMID:34122009
Cpsf1	Rat	choline	multiple interactions	ISO	Cpsf1 (Mus musculus)	6480464	[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in increased methylation of and results in decreased expression of CPSF1 and [Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in increased methylation of CPSF1 gene	CTD	PMID:20938992
Cpsf1	Rat	cisplatin	multiple interactions	ISO	CPSF1 (Homo sapiens)	6480464	[Piroxicam co-treated with Cisplatin] results in increased expression of CPSF1 mRNA	CTD	PMID:21858171
Cpsf1	Rat	cobalt dichloride	increases expression	ISO	CPSF1 (Homo sapiens)	6480464	cobaltous chloride results in increased expression of CPSF1 mRNA	CTD	PMID:19376846
Cpsf1	Rat	Cuprizon	multiple interactions	ISO	CPSF1 (Homo sapiens)	6480464	[Cuprizone co-treated with Cannabidiol] results in decreased expression of CPSF1 protein	CTD	PMID:34122009
Cpsf1	Rat	elemental selenium	increases expression	ISO	CPSF1 (Homo sapiens)	6480464	Selenium results in increased expression of CPSF1 mRNA	CTD	PMID:19244175
Cpsf1	Rat	flutamide	increases expression	EXP		6480464	Flutamide results in increased expression of CPSF1 mRNA	CTD	PMID:24136188
Cpsf1	Rat	folic acid	multiple interactions	ISO	Cpsf1 (Mus musculus)	6480464	[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in increased methylation of and results in decreased expression of CPSF1 more ...	CTD	PMID:20938992 and PMID:22206623
Cpsf1	Rat	folic acid	decreases expression	ISO	Cpsf1 (Mus musculus)	6480464	Folic Acid results in decreased expression of CPSF1 mRNA	CTD	PMID:25629700
Cpsf1	Rat	FR900359	affects phosphorylation	ISO	CPSF1 (Homo sapiens)	6480464	FR900359 affects the phosphorylation of CPSF1 protein	CTD	PMID:37730182
Cpsf1	Rat	ivermectin	decreases expression	ISO	CPSF1 (Homo sapiens)	6480464	Ivermectin results in decreased expression of CPSF1 protein	CTD	PMID:32959892
Cpsf1	Rat	L-methionine	multiple interactions	ISO	Cpsf1 (Mus musculus)	6480464	[Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in increased methylation of and results in decreased expression of CPSF1 and [Methionine deficiency co-treated with Choline deficiency co-treated with Folic Acid deficiency] results in increased methylation of CPSF1 gene	CTD	PMID:20938992
Cpsf1	Rat	lead(0)	affects expression	ISO	CPSF1 (Homo sapiens)	6480464	Lead affects the expression of CPSF1 mRNA	CTD	PMID:28903495
Cpsf1	Rat	methotrexate	affects response to substance	ISO	CPSF1 (Homo sapiens)	6480464	CPSF1 protein affects the susceptibility to Methotrexate	CTD	PMID:16217747
Cpsf1	Rat	nitrates	multiple interactions	ISO	Cpsf1 (Mus musculus)	6480464	[Particulate Matter results in increased abundance of Nitrates] which results in increased expression of CPSF1 mRNA	CTD	PMID:35964746
Cpsf1	Rat	perfluorooctane-1-sulfonic acid	multiple interactions	ISO	Cpsf1 (Mus musculus)	6480464	[perfluorooctane sulfonic acid co-treated with Pectins] results in decreased expression of CPSF1 mRNA	CTD	PMID:36331819
Cpsf1	Rat	pirinixic acid	decreases expression	ISO	Cpsf1 (Mus musculus)	6480464	pirinixic acid results in decreased expression of CPSF1 mRNA	CTD	PMID:17426115
Cpsf1	Rat	piroxicam	multiple interactions	ISO	CPSF1 (Homo sapiens)	6480464	[Piroxicam co-treated with Cisplatin] results in increased expression of CPSF1 mRNA	CTD	PMID:21858171
Cpsf1	Rat	pyrrolidine dithiocarbamate	multiple interactions	ISO	CPSF1 (Homo sapiens)	6480464	[pyrrolidine dithiocarbamic acid co-treated with bathocuproine sulfonate] results in increased expression of CPSF1 mRNA	CTD	PMID:15477007
Cpsf1	Rat	pyrrolidine dithiocarbamate	increases expression	ISO	CPSF1 (Homo sapiens)	6480464	pyrrolidine dithiocarbamic acid results in increased expression of CPSF1 mRNA	CTD	PMID:15477007
Cpsf1	Rat	resveratrol	decreases expression	ISO	Cpsf1 (Mus musculus)	6480464	resveratrol results in decreased expression of CPSF1 protein	CTD	PMID:25505154
Cpsf1	Rat	selenium atom	increases expression	ISO	CPSF1 (Homo sapiens)	6480464	Selenium results in increased expression of CPSF1 mRNA	CTD	PMID:19244175
Cpsf1	Rat	sodium arsenite	decreases expression	ISO	CPSF1 (Homo sapiens)	6480464	sodium arsenite results in decreased expression of CPSF1 mRNA	CTD	PMID:38568856
Cpsf1	Rat	sodium arsenite	increases expression	ISO	CPSF1 (Homo sapiens)	6480464	sodium arsenite results in increased expression of CPSF1 mRNA	CTD	PMID:34032870
Cpsf1	Rat	thapsigargin	increases expression	ISO	Cpsf1 (Mus musculus)	6480464	Thapsigargin results in increased expression of CPSF1 protein	CTD	PMID:24648495
Cpsf1	Rat	troglitazone	decreases expression	ISO	Cpsf1 (Mus musculus)	6480464	troglitazone results in decreased expression of CPSF1 mRNA	CTD	PMID:28973697
Cpsf1	Rat	trovafloxacin	decreases expression	ISO	Cpsf1 (Mus musculus)	6480464	trovafloxacin results in decreased expression of CPSF1 mRNA	CTD	PMID:35537566
Cpsf1	Rat	valproic acid	increases methylation	ISO	CPSF1 (Homo sapiens)	6480464	Valproic Acid results in increased methylation of CPSF1 gene	CTD	PMID:29154799
Cpsf1	Rat	valproic acid	affects expression	ISO	Cpsf1 (Mus musculus)	6480464	Valproic Acid affects the expression of CPSF1 mRNA	CTD	PMID:17292431
Cpsf1	Rat	vitamin E	increases expression	ISO	CPSF1 (Homo sapiens)	6480464	Vitamin E results in increased expression of CPSF1 mRNA	CTD	PMID:19244175

Biological Process

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Cpsf1	Rat	biological_process		ND		1598407	01/2015: no relevant rat data	RGD

Cellular Component

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Cpsf1	Rat	mRNA cleavage and polyadenylation specificity factor complex	part_of	ISO	CPSF1 (Homo sapiens)	1624291	PMID:21102410 and PMID:7590244	RGD	PMID:21102410 and PMID:7590244
Cpsf1	Rat	mRNA cleavage and polyadenylation specificity factor complex	part_of	IBA	PANTHER:PTN000068526 more ...	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Cpsf1	Rat	nucleoplasm	located_in	IEA	UniProtKB:Q10570 and ensembl:ENSP00000484669	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107
Cpsf1	Rat	nucleoplasm	located_in	ISO	CPSF1 (Homo sapiens)	1624291		RGD	GO_REF:0000052
Cpsf1	Rat	nucleus	is_active_in	IBA	FB:FBgn0035162 more ...	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033

Molecular Function

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Cpsf1	Rat	enzyme binding	enables	ISO	CPSF1 (Homo sapiens)	1624291	UniProtKB:P51003 and PMID:7590244	RGD	PMID:7590244
Cpsf1	Rat	mRNA 3'-UTR AU-rich region binding	enables	ISO	CPSF1 (Homo sapiens)	1624291	PMID:7590244	RGD	PMID:7590244
Cpsf1	Rat	protein binding	enables	ISO	CPSF1 (Homo sapiens)	1624291	UniProtKB:P06748 more ...	RGD	PMID:21102410 more ...

RGD Manual Annotations

Only show annotations with direct experimental evidence (0 objects hidden)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Cpsf1	Rat	3'-end pre-mRNA processing pathway		ISO	CPSF1 (Homo sapiens)	9681741		RGD
Cpsf1	Rat	3'-end pre-mRNA processing pathway		ISO	CPSF1 (Homo sapiens)	9681742		RGD
Cpsf1	Rat	RNA polymerase II transcription termination pathway		ISO	CPSF1 (Homo sapiens)	9681741		RGD
Cpsf1	Rat	RNA polymerase II transcription termination pathway		ISO	CPSF1 (Homo sapiens)	9681742		RGD

Imported Annotations - KEGG (archival)

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Cpsf1	Rat	mRNA decay pathway		IEA		6907045		KEGG	rno:03015

#	Reference Title	Reference Citation
1.	Pre-mRNA 3'-end processing complex assembly and function.	Chan S, etal., Wiley Interdiscip Rev RNA. 2011 May-Jun;2(3):321-35. doi: 10.1002/wrna.54. Epub 2010 Oct 18.
2.	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.
3.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
4.	Means to an end: mechanisms of alternative polyadenylation of messenger RNA precursors.	Gruber AR, etal., Wiley Interdiscip Rev RNA. 2014 Mar-Apr;5(2):183-96. doi: 10.1002/wrna.1206. Epub 2013 Nov 14.
5.	KEGG Annotation Import Pipeline	Pipeline to import KEGG annotations from KEGG into RGD
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

PMID:7590244	PMID:12477932	PMID:21102410

Cpsf1
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	7	110,200,078 - 110,210,644 (-)	NCBI		GRCr8
mRatBN7.2	7	108,319,429 - 108,330,018 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	7	108,319,434 - 108,329,934 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	7	110,061,260 - 110,071,841 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	7	112,284,973 - 112,295,415 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	7	112,245,683 - 112,256,252 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	7	117,661,779 - 117,672,373 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	7	117,661,661 - 117,672,373 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	7	117,649,863 - 117,660,456 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	7	114,647,975 - 114,658,568 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	7	114,682,284 - 114,692,737 (-)	NCBI
Celera	7	104,669,635 - 104,680,226 (-)	NCBI		Celera
Cytogenetic Map	7	q34	NCBI

CPSF1
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	8	144,393,231 - 144,409,335 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	8	144,393,229 - 144,409,335 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	8	145,618,446 - 145,634,719 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	8	145,589,254 - 145,605,541 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	8	145,589,253 - 145,605,541	NCBI
Celera	8	141,792,905 - 141,809,167 (-)	NCBI		Celera
Cytogenetic Map	8	q24.3	NCBI
HuRef	8	140,731,448 - 140,747,966 (-)	NCBI		HuRef
CHM1_1	8	145,656,550 - 145,673,024 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	8	145,562,868 - 145,579,148 (-)	NCBI		T2T-CHM13v2.0

Cpsf1
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	15	76,480,008 - 76,491,861 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	15	76,480,003 - 76,491,791 (-)	Ensembl		GRCm39 Ensembl
GRCm38	15	76,595,808 - 76,607,661 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	15	76,595,803 - 76,607,591 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	15	76,426,238 - 76,438,021 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	15	76,423,063 - 76,434,809 (-)	NCBI		MGSCv36	mm8
Celera	15	78,089,201 - 78,101,206 (-)	NCBI		Celera
Cytogenetic Map	15	D3	NCBI
cM Map	15	36.13	NCBI

Cpsf1
(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_004955454	3,024,406 - 3,039,425 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955454	3,024,324 - 3,039,004 (-)	NCBI	ChiLan1.0	ChiLan1.0

CPSF1
(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	7	161,882,889 - 161,900,722 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	8	137,411,908 - 137,429,795 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	8	141,158,494 - 141,176,354 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	8	144,149,253 - 144,166,183 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	8	144,148,075 - 144,166,043 (-)	Ensembl	panpan1.1		panPan2

CPSF1
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	13	37,817,440 - 37,827,868 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	13	37,817,442 - 37,825,212 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	13	37,780,111 - 37,793,256 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	13	38,293,061 - 38,306,204 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	13	38,293,061 - 38,306,328 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	13	37,984,868 - 37,998,022 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	13	38,093,511 - 38,106,668 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	13	38,569,886 - 38,583,035 (-)	NCBI		UU_Cfam_GSD_1.0

Cpsf1
(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_024405303	419,543 - 431,194 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936470	7,849,329 - 7,857,214 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936470	7,848,846 - 7,857,291 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CPSF1
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1	4	382,887 - 393,732 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	473,501 - 482,157 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CPSF1
(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	8	138,602,549 - 138,618,802 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	8	138,602,835 - 138,617,071 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666039	1,238,282 - 1,255,392 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Cpsf1
(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_004624735	12,444,386 - 12,457,864 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624735	12,444,371 - 12,457,864 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

.

Variants in Cpsf1
3 total Variants

Predicted Target Of

	Summary Value
Count of predictions:	109
Count of miRNA genes:	89
Interacting mature miRNAs:	93
Transcripts:	ENSRNOT00000066244
Prediction methods:	Microtar, Miranda, Rnahybrid
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.

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300179	Kidm5	Kidney mass QTL 5	3.51		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	43747012	135012528	Rat
1331728	Bp214	Blood pressure QTL 214	2.825		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	80221299	124373579	Rat
1331731	Bp216	Blood pressure QTL 216	2.851		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	102297359	133492884	Rat
2298475	Eau6	Experimental allergic uveoretinitis QTL 6		0.0029	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	7	84257275	129257275	Rat
71114	Niddm14	Non-insulin dependent diabetes mellitus QTL 14	4.5		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	7	84257275	129257275	Rat
1357336	Gluco6	Glucose level QTL 6	3.4		blood glucose amount (VT:0000188)	serum glucose level (CMO:0000543)	7	94811326	116294265	Rat
1358361	Sradr5	Stress Responsive Adrenal Weight QTL 5	5.55		adrenal gland mass (VT:0010420)	both adrenal glands wet weight (CMO:0000164)	7	43747012	108555253	Rat
70159	Bp61	Blood pressure QTL 61		0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	103146217	116738842	Rat
631687	Hcas1	Hepatocarcinoma susceptibility QTL 1	3.9	0.001	liver integrity trait (VT:0010547)	liver tumorous lesion volume to total liver volume ratio (CMO:0001082)	7	91412594	129807172	Rat
1357338	Stl17	Serum triglyceride level QTL 17	3.23		blood triglyceride amount (VT:0002644)	serum triglyceride level (CMO:0000360)	7	69736356	112729554	Rat
634331	Pia17	Pristane induced arthritis QTL 17	4.7		joint integrity trait (VT:0010548)	arthritic paw count (CMO:0001460)	7	73829340	130221005	Rat
1358914	Bp266	Blood pressure QTL 266			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat
631504	Cm27	Cardiac mass QTL 27	3.45		heart left ventricle mass (VT:0007031)	heart left ventricle wet weight (CMO:0000071)	7	44421311	118198041	Rat
634322	Bw12	Body weight QTL 12	0		body mass (VT:0001259)	body weight (CMO:0000012)	7	83153392	128153392	Rat
70173	Niddm19	Non-insulin dependent diabetes mellitus QTL 19	4.33	0.00005	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	7	64002457	135012528	Rat
1549899	Stresp8	Stress response QTL 8	4.37	0.0008	stress-related behavior trait (VT:0010451)	defensive burying duration (CMO:0001961)	7	90482196	135012528	Rat
2317052	Aia17	Adjuvant induced arthritis QTL 17	2.13		joint integrity trait (VT:0010548)	left rear ankle joint diameter (CMO:0002149)	7	81737938	126737938	Rat
631529	Tls2	T-lymphoma susceptibility QTL 2	0	0.001	thymus integrity trait (VT:0010555)	percentage of study population developing T-cell lymphomas during a period of time (CMO:0001911)	7	80221299	109401111	Rat
731176	Glom5	Glomerulus QTL 5	2.5	0.0035	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	7	96670164	135012528	Rat
2306821	Bp335	Blood pressure QTL 335		0.001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	106571501	135012528	Rat
7411607	Foco15	Food consumption QTL 15		0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
1558655	Swd4	Spike wave discharge measurement QTL 4	3.68	0.0002	brain electrophysiology trait (VT:0010557)	brain spike-and-wave discharge severity grade (CMO:0001988)	7	86983365	131983365	Rat
634336	Anxrr17	Anxiety related response QTL 17	3.66		locomotor behavior trait (VT:0001392)	number of entries into a discrete space in an experimental apparatus (CMO:0000960)	7	924703	115097879	Rat
1331768	Kidm10	Kidney mass QTL 10	4.62096		kidney mass (VT:0002707)	left kidney wet weight (CMO:0000083)	7	80221299	125221299	Rat
731174	Uae23	Urinary albumin excretion QTL 23	2.4	0.0042	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	7	104603555	135012528	Rat
2313102	Bmd79	Bone mineral density QTL 79	2.3	0.0001	tibia mineral mass (VT:1000283)	total volumetric bone mineral density (CMO:0001728)	7	94811085	116738842	Rat
61357	Bp38	Blood pressure QTL 38	1.6	0.052	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	7	41333674	119109060	Rat
2316947	Rf58	Renal function QTL 58	7.8		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	7	68938720	113886318	Rat
1331746	Kidm9	Kidney mass QTL 9	3.934		kidney mass (VT:0002707)	right kidney wet weight (CMO:0000082)	7	80221299	112308525	Rat
7411654	Foco25	Food consumption QTL 25	9.3	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	7	75918751	120918751	Rat
2299163	Iddm34	Insulin dependent diabetes mellitus QTL 34	2.71		blood glucose amount (VT:0000188)	age at onset/diagnosis of type 1 diabetes mellitus (CMO:0001140)	7	91281130	135012528	Rat
2316955	Stl24	Serum triglyceride level QTL 24	7.1		blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	7	68938720	113886318	Rat
2316952	Pur22	Proteinuria QTL 22	5.2		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	7	68938720	113886318	Rat
631540	Bw9	Body weight QTL 9	4.5		body mass (VT:0001259)	body weight (CMO:0000012)	7	69736226	117455174	Rat
1358891	Bp265	Blood pressure QTL 265	2.21		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	7	83591953	134666232	Rat

RH138577

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	108,319,215 - 108,319,369 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	117,661,566 - 117,661,719	NCBI	Rnor6.0
Rnor_5.0	7	117,649,649 - 117,649,802	UniSTS	Rnor5.0
RGSC_v3.4	7	114,647,761 - 114,647,914	UniSTS	RGSC3.4
Celera	7	104,669,421 - 104,669,574	UniSTS
RH 3.4 Map	7	795.4	UniSTS
Cytogenetic Map	7	q34	UniSTS

AI547810

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	7	110,200,285 - 110,200,559 (+)	Marker Load Pipeline
mRatBN7.2	7	108,319,636 - 108,319,910 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	117,661,987 - 117,662,260	NCBI	Rnor6.0
Rnor_5.0	7	117,650,070 - 117,650,343	UniSTS	Rnor5.0
RGSC_v3.4	7	114,648,182 - 114,648,455	UniSTS	RGSC3.4
Celera	7	104,669,842 - 104,670,115	UniSTS
RH 3.4 Map	7	795.4	UniSTS
Cytogenetic Map	7	q34	UniSTS

UniSTS:479153

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	7	108,319,646 - 108,320,624 (+)	MAPPER	mRatBN7.2
Rnor_6.0	7	117,661,997 - 117,662,974	NCBI	Rnor6.0
Rnor_5.0	7	117,650,080 - 117,651,057	UniSTS	Rnor5.0
RGSC_v3.4	7	114,648,192 - 114,649,169	UniSTS	RGSC3.4
Celera	7	104,669,852 - 104,670,829	UniSTS
Cytogenetic Map	7	q34	UniSTS

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

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


RefSeq Transcripts	NM_001401216	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC139605	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC168713	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000007	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000066244 ⟹ ENSRNOP00000061764

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	7	117,661,780 - 117,672,373 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000086796 ⟹ ENSRNOP00000070801

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	7	108,319,434 - 108,329,934 (-)	Ensembl
Rnor_6.0 Ensembl	7	117,661,661 - 117,672,318 (-)	Ensembl

RefSeq Acc Id:

NM_001401216 ⟹ NP_001388145

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	7	110,200,078 - 110,210,644 (-)	NCBI
mRatBN7.2	7	108,319,429 - 108,329,995 (-)	NCBI


Protein RefSeqs	NP_001388145	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAI68713	(Get FASTA)	NCBI Sequence Viewer
	EDM15960	(Get FASTA)	NCBI Sequence Viewer
	EDM15961	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000070801.2

Ensembl Acc Id:

ENSRNOP00000061764 ⟸ ENSRNOT00000066244

Ensembl Acc Id:

ENSRNOP00000070801 ⟸ ENSRNOT00000086796

RefSeq Acc Id:	NP_001388145 ⟸ NM_001401216
- UniProtKB:	B5DEL2 (UniProtKB/TrEMBL), A0A0G2JYV2 (UniProtKB/TrEMBL)

Protein Domains

Cleavage/polyadenylation specificity factor A

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-B5DEL2-F1-model_v2	AlphaFold	B5DEL2	1-1439	view protein structure

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

RGD ID:

Promoter ID:

Type:

multiple initiation site

Name:

Cpsf1_1

Description:

cleavage and polyadenylation specific factor 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	7	117,672,293 - 117,672,353	EPDNEW

Database	Acc Id	Source(s)
BioCyc Gene	G2FUF-32918	BioCyc
Ensembl Genes	ENSRNOG00000030705	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000086796.2	UniProtKB/TrEMBL
Gene3D-CATH	1.10.150.910	UniProtKB/TrEMBL
	2.130.10.10	UniProtKB/TrEMBL
InterPro	Cleavage/polyA-sp_fac_asu_C	UniProtKB/TrEMBL
	Cleavage/polyA-sp_fac_asu_N	UniProtKB/TrEMBL
	RSE1/DDB1/CFT1/CPSF1	UniProtKB/TrEMBL
	WD40/YVTN_repeat-like_dom	UniProtKB/TrEMBL
NCBI Gene	366952	ENTREZGENE
PANTHER	DNA REPAIR/RNA PROCESSING CPSF FAMILY	UniProtKB/TrEMBL
Pfam	CPSF_A	UniProtKB/TrEMBL
	MMS1_N	UniProtKB/TrEMBL
PhenoGen	Cpsf1	PhenoGen
RatGTEx	ENSRNOG00000030705	RatGTEx
UniProt	A0A0G2JYV2	ENTREZGENE, UniProtKB/TrEMBL
	B5DEL2	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-11-19	Cpsf1	cleavage and polyadenylation specific factor 1	Cpsf1	cleavage and polyadenylation specific factor 1, 160kDa	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-01-10	Cpsf1	cleavage and polyadenylation specific factor 1, 160kDa	Cpsf1	cleavage and polyadenylation specific factor 1	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-03-03	Cpsf1	cleavage and polyadenylation specific factor 1	Cpsf1_predicted	cleavage and polyadenylation specific factor 1, 160kDa (predicted)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-01-12	Cpsf1_predicted	cleavage and polyadenylation specific factor 1, 160kDa (predicted)			Symbol and Name status set to approved	70820	APPROVED