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Gene: Scaf4 (SR-related CTD-associated factor 4) Rattus norvegicus

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Symbol:

Scaf4

Name:

SR-related CTD-associated factor 4

RGD ID:

727896

Description:

Predicted to enable RNA binding activity and RNA polymerase II C-terminal domain phosphoserine binding activity. Involved in mRNA processing. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human SCAF4 (SR-related CTD associated factor 4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; acrylamide.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

CTD-binding SR-like protein rA4; LOC245924; serine/arginine-rich splicing factor 15; Sfrs15; splicing factor, arginine/serine-rich 15; SR-related and CTD-associated factor 4; Srsf15

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):	SCAF4 (SR-related CTD associated factor 4)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OrthoDB, Panther, Treefam
Mus musculus (house mouse):	Scaf4 (SR-related CTD-associated factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Scaf4 (SR-related CTD associated factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SCAF4 (SR-related CTD associated factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SCAF4 (SR-related CTD associated factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Scaf4 (SR-related CTD associated factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SCAF4 (SR-related CTD associated factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SCAF4 (SR-related CTD associated factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Scaf4 (SR-related CTD associated factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SCAF4 (SR-related CTD associated factor 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Scaf4 (SR-related CTD-associated factor 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	scaf4b (SR-related CTD-associated factor 4b)	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Danio rerio (zebrafish):	scaf4a (SR-related CTD-associated factor 4a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	NRD1	Alliance	DIOPT (InParanoid\|PhylomeDB)
Drosophila melanogaster (fruit fly):	CG4266	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|SonicParanoid)
Caenorhabditis elegans (roundworm):	nrd-1	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	scaf4	Alliance	DIOPT (Ensembl Compara\|OMA\|OrthoFinder\|PANTHER)

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	11	42,951,254 - 43,007,293 (-)	NCBI		GRCr8
mRatBN7.2	11	29,460,479 - 29,521,153 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	29,465,106 - 29,521,153 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	11	38,153,091 - 38,209,037 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	30,824,482 - 30,880,426 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	30,013,841 - 30,069,810 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	30,371,713 - 30,428,073 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	30,371,713 - 30,428,073 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	11	33,987,199 - 34,047,580 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	29,751,872 - 29,807,911 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	11	29,751,869 - 29,807,911 (+)	NCBI
Celera	11	29,152,167 - 29,208,170 (-)	NCBI		Celera
Cytogenetic Map	11	q11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Scaf4	Rat	amyotrophic lateral sclerosis type 1		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Amyotrophic lateral sclerosis type 1	ClinVar	PMID:16435343 more ...
Scaf4	Rat	autosomal dominant intellectual developmental disorder 7		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: DYRK1A-related intellectual disability syndrome	ClinVar	PMID:17237124 more ...
Scaf4	Rat	developmental and epileptic encephalopathy 11		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Complex neurodevelopmental disorder	ClinVar	PMID:25741868 and PMID:32730804
Scaf4	Rat	Familial Platelet Disorder with Associated Myeloid Malignancy		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Hereditary thrombocytopenia and hematological cancer predisposition syndrome associated with RUNX1	ClinVar	PMID:17237124 more ...
Scaf4	Rat	FLIEDNER-ZWEIER SYNDROME		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar more ...	ClinVar	PMID:25741868 more ...
Scaf4	Rat	genetic disease		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Inborn genetic diseases	ClinVar	PMID:25741868 more ...
Scaf4	Rat	immunodeficiency 28		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Immunodeficiency 28	ClinVar	PMID:17237124 more ...
Scaf4	Rat	intellectual disability		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Intellectual disability	ClinVar	PMID:25741868
Scaf4	Rat	Multicystic Dysplastic Kidney		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Multicystic dysplastic kidney	ClinVar
Scaf4	Rat	neurodevelopmental disorder with dysmorphic facies and distal limb anomalies		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Neurodevelopmental disorder with dysmorphic facies and distal limb anomalies	ClinVar	PMID:25741868
Scaf4	Rat	Neurodevelopmental Disorders		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar more ...	ClinVar	PMID:25741868 and PMID:32730804
Scaf4	Rat	Parkinson's disease 20		ISO	SCAF4 (Homo sapiens)	8554872	ClinVar Annotator: match by term: Early-onset Parkinson disease 20	ClinVar	PMID:28492532

Object Symbol	Species	Term	Qualifier	Evidence	With	Reference	Notes	Source	Original Reference(s)
Scaf4	Rat	FLIEDNER-ZWEIER SYNDROME		ISO	SCAF4 (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)
Scaf4	Rat	1,2-dimethylhydrazine	multiple interactions	ISO	Scaf4 (Mus musculus)	6480464	[1 and 2-Dimethylhydrazine co-treated with Folic Acid] results in decreased expression of SCAF4 mRNA	CTD	PMID:22206623
Scaf4	Rat	17beta-estradiol	increases expression	ISO	SCAF4 (Homo sapiens)	6480464	Estradiol results in increased expression of SCAF4 mRNA	CTD	PMID:31614463
Scaf4	Rat	2,3,7,8-tetrachlorodibenzodioxine	decreases expression	EXP		6480464	Tetrachlorodibenzodioxin results in decreased expression of SCAF4 mRNA	CTD	PMID:21215274
Scaf4	Rat	2,4-dinitrotoluene	affects expression	EXP		6480464	2 and 4-dinitrotoluene affects the expression of SCAF4 mRNA	CTD	PMID:21346803
Scaf4	Rat	acrylamide	decreases expression	EXP		6480464	Acrylamide results in decreased expression of SCAF4 mRNA	CTD	PMID:28959563
Scaf4	Rat	aflatoxin B1	decreases methylation	ISO	SCAF4 (Homo sapiens)	6480464	Aflatoxin B1 results in decreased methylation of SCAF4 gene	CTD	PMID:27153756
Scaf4	Rat	ammonium chloride	affects expression	EXP		6480464	Ammonium Chloride affects the expression of SCAF4 mRNA	CTD	PMID:16483693
Scaf4	Rat	atrazine	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Atrazine results in decreased expression of SCAF4 mRNA	CTD	PMID:22378314
Scaf4	Rat	bis(2-ethylhexyl) phthalate	increases expression	ISO	Scaf4 (Mus musculus)	6480464	Diethylhexyl Phthalate results in increased expression of SCAF4 mRNA	CTD	PMID:34319233
Scaf4	Rat	bisphenol A	affects expression	EXP		6480464	bisphenol A affects the expression of SCAF4 mRNA	CTD	PMID:25181051
Scaf4	Rat	bisphenol A	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	bisphenol A results in decreased expression of SCAF4 protein	CTD	PMID:33376534
Scaf4	Rat	bisphenol A	increases expression	EXP		6480464	bisphenol A results in increased expression of SCAF4 mRNA	CTD	PMID:30816183 and PMID:32528016
Scaf4	Rat	cadmium atom	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[Cadmium Chloride results in increased abundance of Cadmium] which results in decreased expression of SCAF4 mRNA	CTD	PMID:35301059
Scaf4	Rat	cadmium dichloride	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Cadmium Chloride results in decreased expression of SCAF4 mRNA	CTD	PMID:38568856
Scaf4	Rat	cadmium dichloride	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[Cadmium Chloride results in increased abundance of Cadmium] which results in decreased expression of SCAF4 mRNA	CTD	PMID:35301059
Scaf4	Rat	chlordecone	multiple interactions	ISO	Scaf4 (Mus musculus)	6480464	Chlordecone promotes the reaction [Biomarkers metabolite binds to SCAF4 gene]	CTD	PMID:31084621
Scaf4	Rat	cisplatin	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Cisplatin results in decreased expression of SCAF4 mRNA	CTD	PMID:27594783
Scaf4	Rat	cisplatin	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[Cisplatin co-treated with jinfukang] results in decreased expression of SCAF4 mRNA	CTD	PMID:27392435
Scaf4	Rat	crocidolite asbestos	decreases expression	ISO	Scaf4 (Mus musculus)	6480464	Asbestos and Crocidolite results in decreased expression of SCAF4 mRNA	CTD	PMID:29279043
Scaf4	Rat	Dibutyl phosphate	affects expression	ISO	SCAF4 (Homo sapiens)	6480464	di-n-butylphosphoric acid affects the expression of SCAF4 mRNA	CTD	PMID:37042841
Scaf4	Rat	dicrotophos	increases expression	ISO	SCAF4 (Homo sapiens)	6480464	dicrotophos results in increased expression of SCAF4 mRNA	CTD	PMID:28302478
Scaf4	Rat	dorsomorphin	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[NOG protein co-treated with Phenylmercuric Acetate co-treated with dorsomorphin co-treated with 4-(5-benzo(1 more ...	CTD	PMID:27188386
Scaf4	Rat	doxorubicin	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Doxorubicin results in decreased expression of SCAF4 mRNA	CTD	PMID:29803840
Scaf4	Rat	elemental selenium	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Selenium results in decreased expression of SCAF4 mRNA	CTD	PMID:19244175
Scaf4	Rat	enzyme inhibitor	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[Enzyme Inhibitors results in decreased activity of OGA protein] which results in increased O-linked glycosylation of SCAF4 protein	CTD	PMID:23301498
Scaf4	Rat	folic acid	multiple interactions	ISO	Scaf4 (Mus musculus)	6480464	[1 and 2-Dimethylhydrazine co-treated with Folic Acid] results in decreased expression of SCAF4 mRNA	CTD	PMID:22206623
Scaf4	Rat	formaldehyde	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Formaldehyde results in decreased expression of SCAF4 mRNA	CTD	PMID:20655997
Scaf4	Rat	FR900359	affects phosphorylation	ISO	SCAF4 (Homo sapiens)	6480464	FR900359 affects the phosphorylation of SCAF4 protein	CTD	PMID:37730182
Scaf4	Rat	irinotecan	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Irinotecan analog results in decreased expression of SCAF4 mRNA	CTD	PMID:18927307
Scaf4	Rat	lead(0)	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Lead results in decreased expression of SCAF4 mRNA	CTD	PMID:19921347
Scaf4	Rat	levonorgestrel	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[testosterone undecanoate co-treated with Levonorgestrel] results in decreased expression of SCAF4 mRNA	CTD	PMID:19074003
Scaf4	Rat	mercury atom	increases expression	ISO	SCAF4 (Homo sapiens)	6480464	Mercury results in increased expression of SCAF4 mRNA	CTD	PMID:16823088
Scaf4	Rat	mercury(0)	increases expression	ISO	SCAF4 (Homo sapiens)	6480464	Mercury results in increased expression of SCAF4 mRNA	CTD	PMID:16823088
Scaf4	Rat	methyl methanesulfonate	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Methyl Methanesulfonate results in decreased expression of SCAF4 mRNA	CTD	PMID:23649840
Scaf4	Rat	methylmercury chloride	increases expression	ISO	SCAF4 (Homo sapiens)	6480464	methylmercuric chloride results in increased expression of SCAF4 mRNA	CTD	PMID:23179753
Scaf4	Rat	methylmercury chloride	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	methylmercuric chloride results in decreased expression of SCAF4 mRNA	CTD	PMID:28001369
Scaf4	Rat	methylparaben	increases expression	ISO	SCAF4 (Homo sapiens)	6480464	methylparaben results in increased expression of SCAF4 mRNA	CTD	PMID:31745603
Scaf4	Rat	nitrates	multiple interactions	ISO	Scaf4 (Mus musculus)	6480464	[Particulate Matter results in increased abundance of Nitrates] which results in increased expression of SCAF4 mRNA	CTD	PMID:35964746
Scaf4	Rat	ochratoxin A	increases expression	EXP		6480464	ochratoxin A results in increased expression of SCAF4 mRNA	CTD	PMID:18417182
Scaf4	Rat	paracetamol	increases expression	ISO	SCAF4 (Homo sapiens)	6480464	Acetaminophen results in increased expression of SCAF4 mRNA	CTD	PMID:21420995
Scaf4	Rat	PCB138	decreases expression	EXP		6480464	2 more ...	CTD	PMID:23829299
Scaf4	Rat	phenylmercury acetate	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Phenylmercuric Acetate results in decreased expression of SCAF4 mRNA	CTD	PMID:26272509
Scaf4	Rat	phenylmercury acetate	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[NOG protein co-treated with Phenylmercuric Acetate co-treated with dorsomorphin co-treated with 4-(5-benzo(1 and 3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in decreased expression of SCAF4 mRNA	CTD	PMID:27188386
Scaf4	Rat	SB 431542	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[NOG protein co-treated with Phenylmercuric Acetate co-treated with dorsomorphin co-treated with 4-(5-benzo(1 more ...	CTD	PMID:27188386
Scaf4	Rat	selenium atom	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Selenium results in decreased expression of SCAF4 mRNA	CTD	PMID:19244175
Scaf4	Rat	sodium arsenite	increases activity	ISO	SCAF4 (Homo sapiens)	6480464	sodium arsenite results in increased activity of SCAF4 protein	CTD	PMID:30528433
Scaf4	Rat	sodium arsenite	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	sodium arsenite promotes the reaction [SCAF4 protein binds to Ribonucleotides]	CTD	PMID:30528433
Scaf4	Rat	testosterone undecanoate	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[testosterone undecanoate co-treated with Levonorgestrel] results in decreased expression of SCAF4 mRNA	CTD	PMID:19074003
Scaf4	Rat	thioacetamide	increases expression	EXP		6480464	Thioacetamide results in increased expression of SCAF4 mRNA	CTD	PMID:34492290
Scaf4	Rat	thiram	increases expression	ISO	SCAF4 (Homo sapiens)	6480464	Thiram results in increased expression of SCAF4 mRNA	CTD	PMID:38568856
Scaf4	Rat	trichostatin A	affects expression	ISO	SCAF4 (Homo sapiens)	6480464	trichostatin A affects the expression of SCAF4 mRNA	CTD	PMID:26272509
Scaf4	Rat	trichostatin A	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[NOG protein co-treated with trichostatin A co-treated with dorsomorphin co-treated with 4-(5-benzo(1 and 3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] affects the expression of SCAF4 mRNA	CTD	PMID:27188386
Scaf4	Rat	triphenyl phosphate	affects expression	ISO	SCAF4 (Homo sapiens)	6480464	triphenyl phosphate affects the expression of SCAF4 mRNA	CTD	PMID:37042841
Scaf4	Rat	tungsten	decreases expression	ISO	Scaf4 (Mus musculus)	6480464	Tungsten results in decreased expression of SCAF4 mRNA	CTD	PMID:30912803
Scaf4	Rat	valproic acid	affects expression	ISO	Scaf4 (Mus musculus)	6480464	Valproic Acid affects the expression of SCAF4 mRNA	CTD	PMID:17963808
Scaf4	Rat	valproic acid	affects expression	ISO	SCAF4 (Homo sapiens)	6480464	Valproic Acid affects the expression of SCAF4 mRNA	CTD	PMID:25979313
Scaf4	Rat	valproic acid	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Valproic Acid results in decreased expression of SCAF4 mRNA	CTD	PMID:23179753 more ...
Scaf4	Rat	valproic acid	multiple interactions	ISO	SCAF4 (Homo sapiens)	6480464	[NOG protein co-treated with Valproic Acid co-treated with dorsomorphin co-treated with 4-(5-benzo(1 and 3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamide] results in decreased expression of SCAF4 mRNA	CTD	PMID:27188386
Scaf4	Rat	vitamin E	decreases expression	ISO	SCAF4 (Homo sapiens)	6480464	Vitamin E results in decreased expression of SCAF4 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)
Scaf4	Rat	mRNA processing		IMP		1299392		RGD
Scaf4	Rat	negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled	involved_in	ISS	UniProtKB:O95104	1600115	GO_REF:0000024	UniProt	GO_REF:0000024
Scaf4	Rat	negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled	involved_in	IBA	PANTHER:PTN002751398 and UniProtKB:O95104	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Scaf4	Rat	negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled	involved_in	ISO	SCAF4 (Homo sapiens)	1624291	PMID:31104839	RGD	PMID:31104839
Scaf4	Rat	negative regulation of termination of RNA polymerase II transcription, poly(A)-coupled	involved_in	IEA	UniProtKB:O95104 and ensembl:ENSP00000286835	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107

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)
Scaf4	Rat	nucleoplasm	located_in	IEA	UniProtKB:O95104 and ensembl:ENSP00000286835	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107
Scaf4	Rat	nucleoplasm	located_in	ISO	SCAF4 (Homo sapiens) more ...	1624291		RGD	GO_REF:0000052
Scaf4	Rat	nucleus	located_in	ISS	UniProtKB:O95104	1600115	GO_REF:0000024	UniProt	GO_REF:0000024
Scaf4	Rat	nucleus	located_in	IEA	UniProtKB:O95104 and ensembl:ENSP00000286835	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107
Scaf4	Rat	nucleus	located_in	IEA	UniProtKB-KW:KW-0539	1600115	GO_REF:0000043	UniProt	GO_REF:0000043
Scaf4	Rat	nucleus	located_in	IEA	UniProtKB-SubCell:SL-0191	1600115	GO_REF:0000044	UniProt	GO_REF:0000044
Scaf4	Rat	nucleus	is_active_in	IBA	MGI:1915208 more ...	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Scaf4	Rat	nucleus	located_in	ISO	SCAF4 (Homo sapiens)	1624291	PMID:31104839	RGD	PMID:31104839

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)
Scaf4	Rat	nucleic acid binding	enables	IEA	InterPro:IPR035979	1600115	GO_REF:0000002	InterPro	GO_REF:0000002
Scaf4	Rat	protein binding		IPI	Polr2a (Mus musculus)	1299392	protein C-terminus binding	RGD
Scaf4	Rat	RNA binding	enables	ISS	UniProtKB:O95104	1600115	GO_REF:0000024	UniProt	GO_REF:0000024
Scaf4	Rat	RNA binding	enables	IEA	UniProtKB:O95104 and ensembl:ENSP00000286835	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107
Scaf4	Rat	RNA binding	enables	IEA	InterPro:IPR000504	1600115	GO_REF:0000002	InterPro	GO_REF:0000002
Scaf4	Rat	RNA binding	enables	IEA	UniProtKB-KW:KW-0694	1600115	GO_REF:0000043	UniProt	GO_REF:0000043
Scaf4	Rat	RNA binding	enables	IBA	FB:FBgn0034598 more ...	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Scaf4	Rat	RNA binding	enables	IEA	UniRule:UR000414619	1600115	GO_REF:0000104	UniProt	GO_REF:0000104
Scaf4	Rat	RNA binding	enables	ISO	SCAF4 (Homo sapiens)	1624291	PMID:31104839	RGD	PMID:31104839
Scaf4	Rat	RNA polymerase II C-terminal domain phosphoserine binding	enables	ISS	UniProtKB:O95104	1600115	GO_REF:0000024	UniProt	GO_REF:0000024
Scaf4	Rat	RNA polymerase II C-terminal domain phosphoserine binding	enables	IBA	PANTHER:PTN002751398 and UniProtKB:O95104	1600115	GO_REF:0000033	GO_Central	GO_REF:0000033
Scaf4	Rat	RNA polymerase II C-terminal domain phosphoserine binding	enables	ISO	SCAF4 (Homo sapiens)	1624291	PMID:31104839	RGD	PMID:31104839
Scaf4	Rat	RNA polymerase II C-terminal domain phosphoserine binding	enables	IEA	UniProtKB:O95104 and ensembl:ENSP00000286835	1600115	GO_REF:0000107	Ensembl	GO_REF:0000107

#	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.	NCBI rat LocusLink and RefSeq merged data October 15, 2003	NCBI rat LocusLink and RefSeq merged data October 15, 2003
3.	GOA pipeline	RGD automated data pipeline
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
5.	The C-terminal domain of the largest subunit of RNA polymerase II interacts with a novel set of serine/arginine-rich proteins.	Yuryev A, etal., Proc Natl Acad Sci U S A 1996 Jul 9;93(14):6975-80.

PMID:22681889	PMID:31104839

Scaf4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	11	42,951,254 - 43,007,293 (-)	NCBI		GRCr8
mRatBN7.2	11	29,460,479 - 29,521,153 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	29,465,106 - 29,521,153 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	11	38,153,091 - 38,209,037 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	30,824,482 - 30,880,426 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	30,013,841 - 30,069,810 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	30,371,713 - 30,428,073 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	30,371,713 - 30,428,073 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	11	33,987,199 - 34,047,580 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	11	29,751,872 - 29,807,911 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	11	29,751,869 - 29,807,911 (+)	NCBI
Celera	11	29,152,167 - 29,208,170 (-)	NCBI		Celera
Cytogenetic Map	11	q11	NCBI

SCAF4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	21	31,671,000 - 31,732,118 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	21	31,671,000 - 31,732,118 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	21	33,043,313 - 33,104,431 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	21	31,965,416 - 32,026,133 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	21	18,226,630 - 18,287,746 (-)	NCBI		Celera
Cytogenetic Map	21	q22.11	NCBI
HuRef	21	18,453,341 - 18,514,530 (-)	NCBI		HuRef
CHM1_1	21	32,605,296 - 32,666,386 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	21	30,038,984 - 30,100,110 (-)	NCBI		T2T-CHM13v2.0

Scaf4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	90,021,504 - 90,082,074 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	16	90,022,568 - 90,081,391 (-)	Ensembl		GRCm39 Ensembl
GRCm38	16	90,228,950 - 90,286,140 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	90,225,680 - 90,284,503 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	16	90,229,384 - 90,284,670 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	16	90,229,384 - 90,284,670 (-)	NCBI		MGSCv36	mm8
Celera	16	90,424,774 - 90,479,985 (-)	NCBI		Celera
Cytogenetic Map	16	C3.3	NCBI
cM Map	16	51.57	NCBI

Scaf4
(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_004955407	31,270,035 - 31,303,823 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955407	31,269,673 - 31,303,823 (-)	NCBI	ChiLan1.0	ChiLan1.0

SCAF4
(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	22	27,790,329 - 27,852,175 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	21	22,649,978 - 22,711,795 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	21	18,039,507 - 18,101,700 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	21	31,421,160 - 31,482,543 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	21	31,421,160 - 31,482,543 (-)	Ensembl	panpan1.1		panPan2

SCAF4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	31	26,546,801 - 26,583,040 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	31	26,547,108 - 26,636,811 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	31	26,538,227 - 26,597,009 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	31	26,665,041 - 26,723,881 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	31	26,665,575 - 26,756,253 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	31	26,610,942 - 26,669,751 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	31	26,622,773 - 26,681,555 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	31	27,129,000 - 27,187,809 (-)	NCBI		UU_Cfam_GSD_1.0

Scaf4
(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_024404971	27,123,792 - 27,168,322 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936500	10,307,835 - 10,342,588 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936500	10,307,868 - 10,342,952 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SCAF4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	195,333,260 - 195,396,204 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	13	195,335,178 - 195,396,246 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	205,632,094 - 205,690,676 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SCAF4
(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	2	60,397,173 - 60,459,295 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	2	60,397,233 - 60,458,553 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666071	2,938,854 - 3,002,480 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Scaf4
(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_004624745	20,040,770 - 20,097,835 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624745	20,040,416 - 20,097,764 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants in Scaf4
199 total Variants

Predicted Target Of

	Summary Value
Count of predictions:	301
Count of miRNA genes:	196
Interacting mature miRNAs:	225
Transcripts:	ENSRNOT00000002881, ENSRNOT00000047741
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.

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300147	Bp187	Blood pressure QTL 187	3.67		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	11	1	69446234	Rat
724554	Iddm17	Insulin dependent diabetes mellitus QTL 17		0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	18976208	86241447	Rat
1598842	Glom10	Glomerulus QTL 10	3.4		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	11	1	35331169	Rat
8694376	Bw156	Body weight QTL 156	2.25	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	23280456	68280456	Rat
10755497	Bp388	Blood pressure QTL 388	2.76		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	19456205	76331918	Rat
724517	Uae18	Urinary albumin excretion QTL 18	3.7		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	16472047	44285911	Rat
10058952	Gmadr6	Adrenal mass QTL 6	2.29	0.0072	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	22959403	67959403	Rat
1558659	Tescar1	Testicular tumor resistance QTL 1	3.9		testis integrity trait (VT:0010572)	percentage of study population developing testis tumors during a period of time (CMO:0001261)	11	1041931	66113562	Rat
724563	Uae10	Urinary albumin excretion QTL 10	6		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	11	27672410	82846715	Rat
9589032	Epfw10	Epididymal fat weight QTL 10	9.29	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	11	23280456	68280456	Rat
9590313	Scort20	Serum corticosterone level QTL 20	6.51	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	11	23280456	68280456	Rat
8694424	Bw162	Body weight QTL 162	3.8	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	23280456	68280456	Rat
1641927	Alcrsp10	Alcohol response QTL 10			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	11	8436674	53436674	Rat

D11Rat15

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	29,528,418 - 29,528,587 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	30,435,339 - 30,435,507	NCBI	Rnor6.0
Rnor_5.0	11	34,054,821 - 34,054,989	UniSTS	Rnor5.0
RGSC_v3.4	11	29,744,438 - 29,744,606	UniSTS	RGSC3.4
RGSC_v3.4	11	29,744,366 - 29,744,736	RGD	RGSC3.4
RGSC_v3.1	11	29,744,438 - 29,744,606	RGD
Celera	11	29,215,379 - 29,215,547	UniSTS
RH 3.4 Map	11	167.8	RGD
RH 3.4 Map	11	167.8	UniSTS
RH 2.0 Map	11	469.5	RGD
SHRSP x BN Map	11	8.2299	RGD
FHH x ACI Map	11	12.19	RGD
Cytogenetic Map	11	q11	UniSTS

D11Wox13

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	29,465,920 - 29,466,112 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	30,372,528 - 30,372,719	NCBI	Rnor6.0
Rnor_5.0	11	33,992,010 - 33,992,201	UniSTS	Rnor5.0
RGSC_v3.4	11	29,806,905 - 29,807,096	UniSTS	RGSC3.4
Celera	11	29,152,982 - 29,153,173	UniSTS
Cytogenetic Map	11	q11	UniSTS

D11Wox12

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	29,479,193 - 29,479,495 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	30,385,801 - 30,386,102	NCBI	Rnor6.0
Rnor_5.0	11	34,005,283 - 34,005,584	UniSTS	Rnor5.0
RGSC_v3.4	11	29,793,522 - 29,793,823	UniSTS	RGSC3.4
Celera	11	29,166,237 - 29,166,538	UniSTS
Cytogenetic Map	11	q11	UniSTS

RH141768

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	29,464,340 - 29,464,554 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	30,370,948 - 30,371,161	NCBI	Rnor6.0
Rnor_5.0	11	33,990,430 - 33,990,643	UniSTS	Rnor5.0
RGSC_v3.4	11	29,808,463 - 29,808,676	UniSTS	RGSC3.4
Celera	11	29,151,402 - 29,151,615	UniSTS
RH 3.4 Map	11	179.5	UniSTS
Cytogenetic Map	11	q11	UniSTS

Sra4-pending

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	11	42,980,494 - 42,981,303 (+)	Marker Load Pipeline
mRatBN7.2	11	29,494,350 - 29,495,160 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	30,400,958 - 30,401,767	NCBI	Rnor6.0
Rnor_5.0	11	34,020,440 - 34,021,249	UniSTS	Rnor5.0
RGSC_v3.4	11	29,777,862 - 29,778,671	UniSTS	RGSC3.4
Celera	11	29,181,391 - 29,182,200	UniSTS
Cytogenetic Map	11	q11	UniSTS

G15982

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	29,489,064 - 29,489,119 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	30,395,674 - 30,395,728	NCBI	Rnor6.0
Rnor_5.0	11	34,015,156 - 34,015,210	UniSTS	Rnor5.0
Celera	11	29,176,107 - 29,176,161	UniSTS
Cytogenetic Map	11	q11	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_001037347	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AY387086	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473989	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000011	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U49058	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000002881 ⟹ ENSRNOP00000002881

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	11	29,474,819 - 29,504,771 (-)	Ensembl
Rnor_6.0 Ensembl	11	30,381,426 - 30,412,143 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000047741 ⟹ ENSRNOP00000047258

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	11	29,465,106 - 29,521,153 (-)	Ensembl
Rnor_6.0 Ensembl	11	30,371,713 - 30,428,073 (-)	Ensembl

RefSeq Acc Id:

NM_001037347 ⟹ NP_001032424

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	11	42,951,254 - 43,007,293 (-)	NCBI
mRatBN7.2	11	29,465,106 - 29,521,153 (-)	NCBI
Rnor_6.0	11	30,371,713 - 30,428,073 (-)	NCBI
Rnor_5.0	11	33,987,199 - 34,047,580 (-)	NCBI
RGSC_v3.4	11	29,751,872 - 29,807,911 (+)	RGD
Celera	11	29,152,167 - 29,208,170 (-)	RGD

Sequence:

show sequence

GCTAGCCGGCTGGGCTAGTGTGAGCCAGTGCGTGAGGGCGCGGGGGGCCGTGTCAGCGCGACGCAGAGCGCAGCCGCCACCACCAAACGGACATGTTGGAGCCCCGCGCTGCCGCTGCCTCCCAGCTC
TCCTCCAGCTCACAGAACTGAGCAGGGGCCCGCCGCCTCTGTCTGCGCTCGACCGGCCCAGCCTCGCCGCCTCGGCCGCAGACCCTTCCTGCTCGGCCTTCGCCGCTTGTCGCCTCCCGTCCTCCTCC
CCCCCACGCCCTAGGGCCCTGCCGGCTCCCGGTCCTACTCAGCCGCGGCGCGAGGTCTATGTGACCGGCGGGCCCGGAGCAGCCGCCGCCGCAACGCGAACATGGACGCCGTCAACGCCTTCAACCAG
GAGCTCTTCTCACTTATGGATATGAAACCACCCATCTCTAGAGCCAAGATGATTCTTATTACTAAAGCTGCTATTAAAGCTATTAAGCTTTATAAGCATGTTGTTCAAATAGTAGAAAAGTTCATCAA
AAAGTGTAAGCCAGAGTACAAGGTTCCAGGCCTGTATGTCATTGACTCCATCGTGAGACAGTCTCGGCACCAGTTTGGAACTGATAAAGATGTTTTTGGGCCAAGATTCTCTGAGAATATAACTGCTA
CATTCCAGTATTTATATCTTTGTCCATCTGAAGATAAGAGTAAAATAGTTCGTGTGCTAAATCTTTGGCAAAAAAACGGAGTGTTCAAAATTGAAATCATTCAGCCGCTTTTGGACATGGCAGCAGGA
ACCAGCAATGCTGCTCCAGGAGCAGAAAATGTCACCAACAATGAAGGCTCACCTCCACCCCCAGTAAAAGTCTCTTCTGAACTTCCACAAGCTCCCACAAACTCCATGCCTGCTGTCCCACAGCTGCC
CAGCTCCGATGCCTTTGCTGCCGTGGATCAACTGTTTCAGACGACTCAAGGCCAGCAGCTTCAGCAGATCCTTCAGACTTTTCAACAACCTCCAAAACCACAGTCTCCCGCCCTTGACAGTGCTGTGA
TGGCTCAGGTTCAGGCTATCACAGCTCAGTTAAAGACAGCTCCTACACAACCACCTGAGCAAAAAACTGCATTTGACAAGAAGCTGCTTGACAGATTTGATTATGATGATGAGCCAGAAGCTGTGGAA
GACTCGAAGAAAGAGGATGCTGTCGCCGTTGCCACCACAGCCCTTGCCACGGCTGCACCTCCTGTGCCCGCTGCAGCCACACCTGCTGTTGCTCCTGCTGTGCCTGCGTCCTCTGCTACCTCTCCCCC
TCCTCCACAGGCGCCATTTGGGTACCCTGGAGACGGCATGCAGCAGCCAGCGTACACACAGCATCAAAATGTGGACCAGTTTCAACCTCGAATGATGGCACTGCAGCAGGATAGCATGCAGCATCAGG
TCCCACTTCCTCCTAACGGACAGATGCCAGGATTTGGGCTTCTCTCTGCACCACCTCCATTTCCTCCCATGCCTCAGCCCGGGATGCCCCAGCCCGGGATGCCTCAGCCCGGGATGCCTCAGCCTGGG
TTGTCTCAGCCTGGGTTGCCCCAGCCCGGGATGCCTCAGCCCGGGATGCCTCAGCCCGGGATGCCCCAGCCCGGGATGCCCCAGCCTGGGTTGGCTCAGCCTGGGTTGGCCCAGCCCGGGATGCCTCA
GCCCGGGATGCCCCAGCCCGGGATGCCCCAGCCCGGGATGCCCCAGCCTGGAATGCCTCCAACTCCACCAGTACAGCCAACTTTCCAACCTACTTTTCAACCACAAAATGAACCCCATTCACAAAAGC
CACATCAGCAGGAAATGGAAGTAGAGCAGCCTTGTGTCACAGAGGTTAAGCGGCATGTGCCTGAGAGCAGAAAGTCGAGATCCAGGTCACCAAAAAGAAGAAGATCTAGGTCTGGCTCTAGGTCTCGG
AGATCCCGCCACCGTCGGTCTCGGTCCCGGTCCAGGGATAGGCGCCGGCACTCGCCTCGCTCTCGCTCTCAAGAAAGACGGGATCGAGAAAAAGAGAGGGAGCGGCGGCAGAAAGGCCTCCCTCAGAT
CAAGTCAGAGACTGCAAGTGTTTGCAGCACCACACTGTGGGTGGGACAGCTGGACAAAAGGACTACTCAGCAGGATGTTGCCAGTCTCTTAGAAGAGTTTGGTCCAATTGAATCAATTAACATGATTC
CTCCCAGGGGCTGCGCCTACATAGTTATGGTTCATAGGCAAGACGCATACCGTGCCCTGCAGAAACTGAGCCGAGGAAACTATAAAGTGAACCAGAAATCCATAAAGATTGCCTGGGCCTTAAACAAA
GGAATAAAGGCGGATTTTAAACAGTATTGGGATGTTGAACTTGGTGTTACTTACATTCCATGGGACAAAGTCAAAGCTGAGGAGCTGGAGAGTTTCTGTGAAGGAGGCATGTTGGACAGTGACACACT
TAACCCAGATTGGAAAGGCATCCCCAAAAAGCCTGAAAATGAAGTTGCCCAAAATGGAGGTGCAGAAGCCTCCCACACAGAGCCAGTGTCCCCCATCCCTAAGCCTGTGCCCGTGCCTGTGCCTGCCC
TTCCTGTTCCTGCACCTATAACAGTACCACCTCCACAGGTCCCACCGCATCAGCCGGGCCCTCCTGTCGTTGGTGCTCTCCAACCGCCTGCTTTCACTCCTCCCTTAGGGATCCCCCCTCCAGGCTTT
GGCCCTGGTGTTCCTCCTCCTCCTCCTCCTCCACCACCATTTTGGGGCCCAGGATTCAACCCAATGCATTTACCACCAGGTTTTCTTCCTCCTGGACCCCCACCTCCTATAACTCCACCAGTATCCAT
TCCTCCACCTCACACTCCACCAATAAGCATCCCAAACTTGGTGTCTGGGGCTAGAGGAAATGCCGAGTCTGCTGACAGTGCGAAAATGTATGGTTCTGCTGGGCCACCTGCTGCACCCACGAGTCTGC
CCACCCCTCCTGTAACCCAGCCTGTTTCACTGCTTGGCACTCAAGGAGTTGCACCTGGTCCTGTGATTGGGCTCCAGGCACCCTCTACCGGTCTTCTCGGTGGCAGACCCGGCCTGATCCCACTCCAG
CGCCCCCCAGGAATGCCTCCACCACACTTGCAACGGTTCCCTATGATGCCACCTCGGCCCATGCCACCTCACATGATGCACAGGGGTCCGCCACCAGGACCAGGGGGCTTTGCTATGCCTCCACCTCA
TGGAATGAAAGGGCCTTTCCCACCACATGGCCCCTTTGTTAGGCCTGGTGGAATGCCAGGGCTTGGGGGCCCAGGCCCAGGCCCAGGAGGATCAGAAGACAGAGATGGAAGGCAACAGCAACCGCAGC
AGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAACCACCACCACAGCAGTCACAGACACAGCAGCAGCCAGCGCCATCCCAGCAGCCAGCGCCAGCTCAGCAGCAG
CCACAGCAGTTTAGAAATGATAACAGGCAGCAGTTCAACTCAGGTAGAGACCAAGAAAGGTTTGGAAGAAGATCTTTTGGAAGTAGGGTGGAAAATGACCGGGAGCGGTATGGGAGCCGTAGTGATGA
GAGAGATAATAGCAACCGTGAAAGGAGAGAGTGGGGAAGGAGGAGCCCTGAGCGGGACAGACACAGAGACTTGGAAGAGAGAAGTAGACGCTCTAGTGGGCATCGGGACAGAGACAGGGATTCTAGAG
ATAGAGAGTCCCGTAGAGAGAAGGAAGAAAGTAGAGGAAAGGAGAAGCACGAGGTGGCAGACAGGGCAGGTGGTAACAAAGCTGTCGAAGCTCCCCTTAGCCAAGTGGGAAACACAGACACTGTTTCA
GAACTTAATAAGGGGGAGGCCATGGCCACAGTGGTAAAACCTGAAGAGTCACCTGCTGAGGCTACCTCATCCGTTGAACCTGAGAAGGATTCTGGCTCAGCAGCAGAGGCTCCTCGCTAGAGACTGGA
TTTGACAGAATGTGACAGTGACACTTGGGTGTAGAACGTGAGGTGTACAGATGCTGTATAATATTCGCTCCTGCTACATCACTCCACAGTAGTTGGTGGGGATTGTGAGCAATTTGATTGCTTTCCTT
CTATTTAAAAATAGCCACAAAATAACAAAAAATACTGAAGATATATTACCCCTTTTTTTGCTGTAACTTTTTAAAAGTTTTGACTTTTAAAAGTTTACAAATCCTAATTAGAAGTGCTCTCTATTTTT
TTTTTTTAATTTAAGAAAAGGTAACGGTGAAAAGCTCCTCAAACAATAGGGATGTTTTTAATAAACTCTATTTTCGTAAC

hide sequence


Protein RefSeqs	NP_001032424	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC52659	(Get FASTA)	NCBI Sequence Viewer
	AAC52660	(Get FASTA)	NCBI Sequence Viewer
	AAQ91056	(Get FASTA)	NCBI Sequence Viewer
	EDM10683	(Get FASTA)	NCBI Sequence Viewer
	EDM10684	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000047258
GenBank Protein	Q63627	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_001032424 ⟸ NM_001037347

- UniProtKB:

Q63627 (UniProtKB/Swiss-Prot), F1LSM7 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MDAVNAFNQELFSLMDMKPPISRAKMILITKAAIKAIKLYKHVVQIVEKFIKKCKPEYKVPGLYVIDSIVRQSRHQFGTDKDVFGPRFSENITATFQYLYLCPSEDKSKIVRVLNLWQKNGVFKIEII
QPLLDMAAGTSNAAPGAENVTNNEGSPPPPVKVSSELPQAPTNSMPAVPQLPSSDAFAAVDQLFQTTQGQQLQQILQTFQQPPKPQSPALDSAVMAQVQAITAQLKTAPTQPPEQKTAFDKKLLDRFD
YDDEPEAVEDSKKEDAVAVATTALATAAPPVPAAATPAVAPAVPASSATSPPPPQAPFGYPGDGMQQPAYTQHQNVDQFQPRMMALQQDSMQHQVPLPPNGQMPGFGLLSAPPPFPPMPQPGMPQPGM
PQPGMPQPGLSQPGLPQPGMPQPGMPQPGMPQPGMPQPGLAQPGLAQPGMPQPGMPQPGMPQPGMPQPGMPPTPPVQPTFQPTFQPQNEPHSQKPHQQEMEVEQPCVTEVKRHVPESRKSRSRSPKRR
RSRSGSRSRRSRHRRSRSRSRDRRRHSPRSRSQERRDREKERERRQKGLPQIKSETASVCSTTLWVGQLDKRTTQQDVASLLEEFGPIESINMIPPRGCAYIVMVHRQDAYRALQKLSRGNYKVNQKS
IKIAWALNKGIKADFKQYWDVELGVTYIPWDKVKAEELESFCEGGMLDSDTLNPDWKGIPKKPENEVAQNGGAEASHTEPVSPIPKPVPVPVPALPVPAPITVPPPQVPPHQPGPPVVGALQPPAFTP
PLGIPPPGFGPGVPPPPPPPPPFWGPGFNPMHLPPGFLPPGPPPPITPPVSIPPPHTPPISIPNLVSGARGNAESADSAKMYGSAGPPAAPTSLPTPPVTQPVSLLGTQGVAPGPVIGLQAPSTGLLG
GRPGLIPLQRPPGMPPPHLQRFPMMPPRPMPPHMMHRGPPPGPGGFAMPPPHGMKGPFPPHGPFVRPGGMPGLGGPGPGPGGSEDRDGRQQQPQQQQQQQQQQQQQQQQQQQQPPPQQSQTQQQPAPS
QQPAPAQQQPQQFRNDNRQQFNSGRDQERFGRRSFGSRVENDRERYGSRSDERDNSNRERREWGRRSPERDRHRDLEERSRRSSGHRDRDRDSRDRESRREKEESRGKEKHEVADRAGGNKAVEAPLS
QVGNTDTVSELNKGEAMATVVKPEESPAEATSSVEPEKDSGSAAEAPR

hide sequence

Ensembl Acc Id:

ENSRNOP00000047258 ⟸ ENSRNOT00000047741

Ensembl Acc Id:

ENSRNOP00000002881 ⟸ ENSRNOT00000002881

Protein Domains

CID RRM

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q63627-F1-model_v2	AlphaFold	Q63627	1-1200	view protein structure

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

RGD ID:

13698044

Promoter ID:

EPDNEW_R8569

Type:

initiation region

Name:

Scaf4_1

Description:

SR-related CTD-associated factor 4

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	11	30,428,134 - 30,428,194	EPDNEW

Database	Acc Id	Source(s)
BioCyc Gene	G2FUF-21953	BioCyc
Ensembl Genes	ENSRNOG00000002104	Ensembl, ENTREZGENE
Ensembl Transcript	ENSRNOT00000047741	ENTREZGENE
Gene3D-CATH	1.25.40.90	UniProtKB/Swiss-Prot
	3.30.70.330	UniProtKB/Swiss-Prot
InterPro	CID_dom	UniProtKB/Swiss-Prot
	ENTH_VHS	UniProtKB/Swiss-Prot
	Nucleotide-bd_a/b_plait_sf	UniProtKB/Swiss-Prot
	RBD_domain_sf	UniProtKB/Swiss-Prot
	RRM_dom	UniProtKB/Swiss-Prot
	SCAF4_RRM	UniProtKB/Swiss-Prot
	SR-CTD_assoc_factor	UniProtKB/Swiss-Prot
NCBI Gene	245924	ENTREZGENE
PANTHER	RNA PROCESSING PROTEIN LD23810P	UniProtKB/Swiss-Prot
	SR-RELATED AND CTD-ASSOCIATED FACTOR 4	UniProtKB/Swiss-Prot
Pfam	CTD_bind	UniProtKB/Swiss-Prot
	RRM_1	UniProtKB/Swiss-Prot
PhenoGen	Scaf4	PhenoGen
PROSITE	CID	UniProtKB/Swiss-Prot
	RRM	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000002104	RatGTEx
SMART	RPR	UniProtKB/Swiss-Prot
	RRM	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF48464	UniProtKB/Swiss-Prot
	SSF54928	UniProtKB/Swiss-Prot
UniProt	A0A8L2QMU1_RAT	UniProtKB/TrEMBL
	F1LSM7	ENTREZGENE
	F1M994_RAT	UniProtKB/TrEMBL
	Q63627	ENTREZGENE
	Q6TUE4_RAT	UniProtKB/TrEMBL
	SFR15_RAT	UniProtKB/Swiss-Prot
UniProt Secondary	F1LSM7	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2011-08-01	Scaf4	SR-related CTD-associated factor 4	Sfrs15	splicing factor, arginine/serine-rich 15	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2011-07-22	Sfrs15	splicing factor, arginine/serine-rich 15	Scaf4	SR-related CTD-associated factor 4	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2011-07-13	Srsf15	serine/arginine-rich splicing factor 15	Sfrs15	splicing factor, arginine/serine-rich 15	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2011-07-13	Scaf4	SR-related CTD-associated factor 4	Srsf15	serine/arginine-rich splicing factor 15	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-07-08	Sfrs15	splicing factor, arginine/serine-rich 15	LOC245924	CTD-binding SR-like protein rA4	Symbol and Name updated	1299863	APPROVED

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


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


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