Alyref (Aly/REF export factor) - Rat Genome Database

Name: Alyref
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Alyref (Aly/REF export factor) Mus musculus

Analyze

Symbol:

Alyref

Name:

Aly/REF export factor

RGD ID:

1322670

MGI Page

MGI

Description:

Exhibits RNA binding activity and single-stranded DNA binding activity. Predicted to be involved in RNA splicing; mRNA processing; and mRNA transport. Predicted to localize to nucleus. Is expressed in several structures, including branchial arch; central nervous system; genitourinary system; hemolymphoid system gland; and sensory organ. Orthologous to human ALYREF (Aly/REF export factor); PARTICIPATES IN NXF1-NXT1 export pathway; INTERACTS WITH 1,2-dimethylhydrazine; 17beta-hydroxy-5alpha-androstan-3-one; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

VALIDATED

Also known as:

ally of AML-1 and LEF-1; ALY; REF; REF1; REF1-I; Refb; Refbp1; RNA and export factor binding protein 1; RNA and export factor-binding protein 1; Tcra enhancer-binding factor interacting protein 1; THO complex 4; THO complex subunit 4; tho4; Thoc; Thoc4; transcriptional coactivator Aly/REF

RGD Orthologs

Human

Rat

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

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):	ALYREF (Aly/REF export factor)	HGNC	Ensembl, HGNC, Inparanoid, NCBI, OMA, OrthoDB, Panther, PhylomeDB, Treefam
Rattus norvegicus (Norway rat):	Alyref (Aly/REF export factor)	HGNC	NCBI, OMA, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Alyref (Aly/REF export factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	ALYREF (Aly/REF export factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	ALYREF (Aly/REF export factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Alyref (Aly/REF export factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	ALYREF (Aly/REF export factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	ALYREF (Aly/REF export factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Alyref (Aly/REF export factor)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	ALYREF (Aly/REF export factor)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|Roundup\|TreeFam)
Rattus norvegicus (Norway rat):	Alyref (Aly/REF export factor)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB)
Danio rerio (zebrafish):	alyref (Aly/REF export factor)	Alliance	DIOPT (PhylomeDB\|TreeFam\|ZFIN)
Drosophila melanogaster (fruit fly):	Ref1	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|Roundup\|TreeFam)
Drosophila melanogaster (fruit fly):	Ref2	Alliance	DIOPT (PANTHER\|PhylomeDB\|TreeFam)
Saccharomyces cerevisiae (baker's yeast):	YRA1	Alliance	DIOPT (InParanoid\|OMA\|PANTHER\|Roundup\|TreeFam)
Caenorhabditis elegans (roundworm):	aly-1	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoInspector\|PANTHER\|PhylomeDB\|Roundup\|TreeFam)
Caenorhabditis elegans (roundworm):	aly-2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|Roundup\|TreeFam)
Caenorhabditis elegans (roundworm):	aly-3	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|Roundup)

Related Pseudogenes:

Gm4308 Gm4310 Gm4781 Gm4850 Gm4898 Gm5698 Gm5699 Gm6489 Gm8384 Gm8391 Gm8689 Gm8701 Gm8711 Gm8723 Gm9476

Latest Assembly:

GRCm38 - Mouse Genome Assembly GRCm38

Position:

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	120,485,330 - 120,489,342 (-)	NCBI	GRCm39		mm39
GRCm38	11	120,594,504 - 120,598,399 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	120,592,121 - 120,598,365 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	120,455,830 - 120,459,679 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	120,410,606 - 120,414,455 (-)	NCBI			mm8
Celera	11	132,329,807 - 132,333,656 (-)	NCBI		Celera
Cytogenetic Map	11	E2	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

human immunodeficiency virus infectious disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (ISO)

1,2-dimethylhydrazine (EXP)

17beta-hydroxy-5alpha-androstan-3-one (EXP)

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

3,4-methylenedioxymethamphetamine (EXP)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (ISO)

acrylamide (ISO)

atrazine (ISO)

benzo[a]pyrene (EXP)

bis(2-chloroethyl) sulfide (EXP)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

carbon nanotube (EXP)

chromium(6+) (EXP)

coumestrol (ISO)

cyclophosphamide (EXP)

cyclosporin A (EXP)

DDT (ISO)

dexamethasone (EXP,ISO)

diethylstilbestrol (EXP)

dioxygen (ISO)

folic acid (EXP)

indometacin (ISO)

menadione (ISO)

methapyrilene (ISO)

microcystin-LR (EXP)

nickel atom (ISO)

nickel sulfate (ISO)

oxaliplatin (ISO)

paracetamol (ISO)

resveratrol (EXP)

sodium arsenite (ISO)

sunitinib (ISO)

tetrachloromethane (EXP,ISO)

topotecan (ISO)

trimellitic anhydride (EXP)

troglitazone (ISO)

valproic acid (EXP,ISO)

vinclozolin (ISO)

Yessotoxin (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

mRNA export from nucleus (ISO)

mRNA processing (IEA)

mRNA transport (IEA)

positive regulation of DNA-templated transcription, elongation (ISO)

regulation of DNA recombination (ISO)

replication fork processing (ISO)

RNA export from nucleus (ISO)

RNA splicing (IEA)

viral mRNA export from host cell nucleus (ISO)

Cellular Component

catalytic step 2 spliceosome (ISO)

chromosome, telomeric region (ISO)

cytoplasm (IEA)

exon-exon junction complex (ISO)

nuclear speck (ISO)

nucleus (TAS)

spliceosomal complex (IEA)

transcription export complex (ISO)

Molecular Function

C5-methylcytidine-containing RNA binding (ISO)

nucleic acid binding (IEA)

protein binding (ISO)

RNA binding (IDA)

single-stranded DNA binding (IDA)

Molecular Pathway Annotations Click to see Annotation Detail View

NXF1-NXT1 export pathway (ISO)

References

References - curated


1.	Katahira J Biochim Biophys Acta. 2012 Jun;1819(6):507-13. doi: 10.1016/j.bbagrm.2011.12.001. Epub 2011 Dec 8.
2.	MGD data from the GO Consortium
3.	Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
4.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:9119228	PMID:10349636	PMID:10786854	PMID:11042159	PMID:11076861	PMID:11217851	PMID:12093754	PMID:12477932	PMID:12809490	PMID:14610273	PMID:14681479	PMID:15520881
PMID:16033648	PMID:16141072	PMID:16141073	PMID:16679559	PMID:16971461	PMID:18495661	PMID:18799693	PMID:20059953	PMID:21122108	PMID:21267068	PMID:22922362	PMID:23180766
PMID:24146773	PMID:24457600	PMID:26370502	PMID:27561680	PMID:28671696	PMID:29459677	PMID:29530978	PMID:30196744	PMID:30595499	PMID:30846735	PMID:31138677	PMID:31598710
PMID:32098917	PMID:32325033

Genomics

Comparative Map Data

Alyref
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	120,485,330 - 120,489,342 (-)	NCBI	GRCm39		mm39
GRCm38	11	120,594,504 - 120,598,399 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	120,592,121 - 120,598,365 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	120,455,830 - 120,459,679 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	11	120,410,606 - 120,414,455 (-)	NCBI			mm8
Celera	11	132,329,807 - 132,333,656 (-)	NCBI		Celera
Cytogenetic Map	11	E2	NCBI

ALYREF
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	17	81,887,835 - 81,891,586 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	17	81,887,835 - 81,891,587 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	17	79,845,711 - 79,849,464 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	17	77,439,016 - 77,442,758 (-)	NCBI	NCBI36		hg18	NCBI36
Build 34	17	77,439,016 - 77,442,758	NCBI
Celera	17	76,449,564 - 76,453,306 (-)	NCBI
Cytogenetic Map	17	q25.3	NCBI
HuRef	17	75,247,636 - 75,251,146 (-)	NCBI		HuRef
CHM1_1	17	79,931,915 - 79,935,666 (-)	NCBI		CHM1_1

Alyref
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	10	109,768,593 - 109,774,639 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	10	109,770,876 - 109,774,639 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	10	109,363,929 - 109,367,692 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	10	109,984,500 - 109,988,263 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
Celera	10	104,414,714 - 104,418,477 (-)	NCBI		Celera
Cytogenetic Map	10	q32.3	NCBI

Alyref
(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_004955506	1,278,471 - 1,281,772 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955506	1,278,230 - 1,282,064 (+)	NCBI	ChiLan1.0	ChiLan1.0

ALYREF
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	17	81,995,578 - 82,000,836 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
Mhudiblu_PPA_v0	17	76,293,410 - 76,297,171 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

ALYREF
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	9	399,072 - 402,721 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	9	398,207 - 402,787 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Alyref
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936594	5,398,973 - 5,402,846 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ALYREF
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	12	1,091,976 - 1,103,054 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	12	1,099,239 - 1,103,058 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1

ALYREF
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	16	73,761,763 - 73,765,560 (-)	NCBI
ChlSab1.1 Ensembl	16	73,757,072 - 73,765,531 (-)	Ensembl

Alyref
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624801	10,734,392 - 10,738,191 (-)	NCBI

Position Markers

Refbp2

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	1	171,503,667 - 171,504,310	UniSTS	GRCm38
MGSCv37	1	173,433,798 - 173,434,441	UniSTS	GRCm37
Celera	1	173,946,173 - 173,946,816	UniSTS
Cytogenetic Map	11	E2	UniSTS
Cytogenetic Map	1	H3	UniSTS
cM Map	1		UniSTS
cM Map	1	79.48	UniSTS

Thoc4

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	1	171,503,900 - 171,504,298	UniSTS	GRCm38
MGSCv37	1	173,434,031 - 173,434,429	UniSTS	GRCm37
Celera	1	173,946,406 - 173,946,804	UniSTS
Cytogenetic Map	11	E2	UniSTS
Cytogenetic Map	1	H3	UniSTS
cM Map	11		UniSTS
cM Map	11	84.31	UniSTS

UniSTS:236797

Mouse Assembly	Chr	Position (strand)	Source	JBrowse
GRCm38	11	120,592,193 - 120,592,443	UniSTS	GRCm38
MGSCv37	11	120,453,507 - 120,453,757	UniSTS	GRCm37
Celera	11	132,327,484 - 132,327,734	UniSTS
Cytogenetic Map	11	E2	UniSTS

QTLs in Region (GRCm38)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
15039374	Adip29_m	adiposity 29 (mouse)					11	86717494	120717494	Mouse
15039376	Bw42_m	body weight QTL 42 (mouse)					11	86717494	120717494	Mouse
15014785	Mvlq1_m	macrovesicular liver lesion QTL 1 (mouse)					11	86717494	120717494	Mouse
27226789	Feml16_m	femur length 16, 10 week (mouse)					11	87600000	126900000	Mouse
10044007	Hbnr14_m	Heligmosomoides bakeri nematode resistance 14 (mouse)			Not determined		11	87611774	121611872	Mouse
11251723	Ewc5_m	ethanol withdrawal and consumption 5 (mouse)					11	89978425	122082543	Mouse
1302034	Pkccl_m	protein kinase C content in lungs (mouse)			Not determined		11	91713782	122082543	Mouse
1558753	Ath19_m	atherosclerosis 19 (mouse)			Not determined		11	91713782	122082543	Mouse
1301095	El6_m	epilepsy 6 (mouse)			Not determined		11	93338357	122082543	Mouse
1300944	Alcp20_m	alcohol preference locus 20 (mouse)			Not determined		11	95513139	122082543	Mouse
1301958	Alcp18_m	alcohol preference locus 18 (mouse)			Not determined		11	95513139	122082543	Mouse
1300962	Cd8mts4_m	CD8 memory T cell subset 4 (mouse)			Not determined		11	96246848	122082543	Mouse
1301057	Nidd4_m	non-insulin-dependent diabetes mellitus 4 (mouse)			Not determined		11	96919310	122082543	Mouse
1301983	Berr2_m	berghei resistance locus 2 (mouse)			Not determined		11	98461783	122082543	Mouse
10043976	Obq33_m	obesity QTL 33 (mouse)			Not determined		11	98609643	122082543	Mouse
10044001	Alcw8_m	alcohol withdrawal 8 (mouse)			Not determined		11	99363361	122082543	Mouse
11553867	Stmm5_m	skin tumor modifier of MSM 5 (mouse)					11	100167277	122082543	Mouse
11341721	Rvfs2_m	Rift Valley fever susceptibility 2 (mouse)					11	100363360	120996339	Mouse
1301012	Vispl_m	visual placing (mouse)			Not determined		11	101131764	122082543	Mouse

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	1296
Count of miRNA genes:	622
Interacting mature miRNAs:	791
Transcripts:	ENSMUST00000026125, ENSMUST00000155325, ENSMUST00000156685
Prediction methods:	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.

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_011568	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_001779950	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AJ252140	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK035721	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AL663030	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC120588	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	BC137658	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH466558	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U89876	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSMUST00000026125 ⟹ ENSMUSP00000026125

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm38.p6 Ensembl	11	120,592,121 - 120,598,365 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000155325

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm38.p6 Ensembl	11	120,594,509 - 120,595,657 (-)	Ensembl

RefSeq Acc Id:

ENSMUST00000156685

RefSeq Status:

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm38.p6 Ensembl	11	120,595,616 - 120,598,231 (-)	Ensembl

RefSeq Acc Id:

NM_011568 ⟹ NP_035698

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	11	120,485,342 - 120,489,191 (-)	NCBI
GRCm38	11	120,594,516 - 120,598,365 (-)	NCBI
MGSCv37	11	120,455,830 - 120,459,679 (-)	RGD
Celera	11	132,329,807 - 132,333,656 (-)	RGD
cM Map	11		ENTREZGENE

Sequence:

show sequence

GATCCGAGGCCCGAATCCGCGCCCGCCATGGCCGACAAAATGGACATGTCTTTGGACGACATCA
TTAAGCTGAACCGGAGCCAGCGAGGAGGCCGCGGCGGGGGCCGGGGTCGCGGCAGGGCCGGCTC
CCAGGGCGGCCGCGGCGGCGCAGTGCAGGCCGCCGCGCGGGTGAATCGAGGCGGCGGGCCTATG
AGGAACCGGCCCGCCATCGCCCGCGGCGCCGCAGGCGGCGGCAGGAACCGGCCGGCGCCGTACA
GCAGACCGAAACAACTTCCCGACAAATGGCAGCACGACCTCTTCGACAGCGGCTTCGGGGGTGG
AGCCGGCGTGGAGACCGGCGGGAAGCTGCTGGTGTCCAACCTGGACTTCGGAGTGTCAGATGCT
GATATTCAGGAACTCTTTGCTGAATTTGGGACATTGAAAAAAGCTGCTGTGCACTATGATCGCT
CTGGACGAAGTTTAGGGACAGCAGATGTGCACTTTGAACGGAAAGCAGATGCCCTGAAGGCTAT
GAAACAGTACAATGGTGTCCCTTTGGATGGCCGCCCTATGAACATCCAGCTTGTCACATCACAG
ATTGATACACAGCGAAGACCTGCACAGAGCATAAACAGAGGCGGCATGACAAGAAACCGTGGCT
CTGGAGGTTTTGGTGGTGGTGGCACCAGGAGAGGGACACGTGGAGGCAGCCGGGGAAGAGGTAG
AGGCACCGGCAGGAACTCAAAGCAGCAGCTTTCTGCAGAGGAGTTGGACGCACAGCTGGATGCT
TACAATGCAAGGATGGACACCAGCTAAACAACTGAGCAAATCCACACAAGTAACAGGACCCAGA
AGCCTCGCCTGTGATGCCTAGAGGGAGGGTTGGCAACTGAACTGTGCAGACAATGGTGGATTTG
TTTTGTTTCTTTTTATTTCTTTTCTTTTTTTTTTTCTTCCTGTTTTAAAATAGGATCTAAAAAC
TCATGTAAAGTTTTTTTTTTTTTCTTTTTTGGTTTTTGTTTTGTTTTTTGTTTTTTTTTTTAAT
TCTGAAACAGACCTGTTTTGTACTGAGTTATTTTTGGGATAAATATTACTGGTTGCTGTTGTGG
AGAAGGTGGCATTTTCACCTTTGCCATAATAAAATAGAAATGTG

hide sequence

RefSeq Acc Id:

XR_001779950

RefSeq Status:

Type:

NON-CODING

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm39	11	120,485,330 - 120,489,342 (-)	NCBI
GRCm38	11	120,594,504 - 120,598,399 (-)	NCBI

Sequence:

show sequence

GAAGTGACGCCGCGGCGTGCTGACGCGCGGGCTCGATCCGAGGCCCGAATCCGCGCCCGCCATG
GCCGACAAAATGGACATGTCTTTGGACGACATCATTAAGCTGAACCGGAGCCAGCGAGGAGGCC
GCGGCGGGGGCCGGGGTCGCGGCAGGGCCGGCTCCCAGGGCGGCCGCGGCGGCGCAGTGCAGGC
CGCCGCGCGGGTGAATCGAGGCGGCGGGCCTATGAGGAACCGGCCCGCCATCGCCCGCGGCGCC
GCAGGCGGCGGCAGGAACCGGCCGGCGCCGTACAGCAGACCGAAACAACTTCCCGACAAATGGC
AGCACGACCTCTTCGACAGCGGCTTCGGGGGTGGAGCCGGCGTGGAGACCGGCGGGAAGCTGCT
GGTGTCCAACCTGGACTTCGGAGTGTCAGATGCTGATATTCAGGAACTCTTTGCTGAATTTGGG
ACATTGAAAAAAGCTGCTGTGCACTATGATCGCTCTGGACGAAGTTTAGGGACAGCAGATGTGC
ACTTTGAACGGAAAGCAGATGCCCTGAAGGCTATGAAACAGTACAATGGTGTCCCTTTGGATGC
AAGCTACATCCCTCCCCTCCTTGAGCTCCTTCCGGAAGATTCACTTCTGTGAAGCCTTCTCAGA
ACCGCCATAGTACAACCTGAGTGCGGGGCTGTAGTCGTAAAGACAAAGGCCGCCCTATGAACAT
CCAGCTTGTCACATCACAGATTGATACACAGCGAAGACCTGCACAGAGCATAAACAGAGGCGGC
ATGACAAGAAACCGTGGCTCTGGAGGTTTTGGTGGTGGTGGCACCAGGAGAGGGACACGTGGAG
GCAGCCGGGGAAGAGGTAGAGGCACCGGCAGGAACTCAAAGCAGCAGCTTTCTGCAGAGGAGTT
GGACGCACAGCTGGATGCTTACAATGCAAGGATGGACACCAGCTAAACAACTGAGCAAATCCAC
ACAAGTAACAGGACCCAGAAGCCTCGCCTGTGATGCCTAGAGGGAGGGTTGGCAACTGAACTGT
GCAGACAATGGTGGATTTGTTTTGTTTCTTTTTATTTCTTTTCTTTTTTTTTTTCTTCCTGTTT
TAAAATAGGATCTAAAAACTCATGTAAAGTTTTTTTTTTTTTCTTTTTTGGTTTTTGTTTTGTT
TTTTGTTTTTTTTTTTAATTCTGAAACAGACCTGTTTTGTACTGAGTTATTTTTGGGATAAATA
TTACTGGTTGCTGTTGTGGAGAAGGTGGCATTTTCACCTTTGCCATAATAAAATAGAAATGTGT
GTAGAACTGGA

hide sequence

Protein Sequences


Protein RefSeqs	NP_035698	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAC53117	(Get FASTA)	NCBI Sequence Viewer
	AAI20589	(Get FASTA)	NCBI Sequence Viewer
	AAI37659	(Get FASTA)	NCBI Sequence Viewer
	BAC29168	(Get FASTA)	NCBI Sequence Viewer
	CAB76383	(Get FASTA)	NCBI Sequence Viewer
	EDL34770	(Get FASTA)	NCBI Sequence Viewer
	O08583	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_035698 ⟸ NM_011568

- UniProtKB:

O08583 (UniProtKB/Swiss-Prot)

- Sequence:

show sequence

MADKMDMSLDDIIKLNRSQRGGRGGGRGRGRAGSQGGRGGAVQAAARVNRGGGPMRNRPAIARG
AAGGGRNRPAPYSRPKQLPDKWQHDLFDSGFGGGAGVETGGKLLVSNLDFGVSDADIQELFAEF
GTLKKAAVHYDRSGRSLGTADVHFERKADALKAMKQYNGVPLDGRPMNIQLVTSQIDTQRRPAQ
SINRGGMTRNRGSGGFGGGGTRRGTRGGSRGRGRGTGRNSKQQLSAEELDAQLDAYNARMDTS

hide sequence

RefSeq Acc Id:

ENSMUSP00000026125 ⟸ ENSMUST00000026125

Protein Domains

RRM

Promoters

RGD ID:

6820395

Promoter ID:

MM_KWN:10938

Type:

CpG-Island

SO ACC ID:

SO:0000170

Source:

MPROMDB

Tissues & Cell Lines:

3T3L1_Day0, 3T3L1_Day1, BoneMarrow_0Hour, BoneMarrow_2Hour, BoneMarrow_4Hour, Brain, ES_Cell, Kidney, Liver, Lung, MEF_B4, MEF_B6, Spleen

Transcripts:

NM_001038230, NM_025389, OTTMUST00000009196, OTTMUST00000009198, OTTMUST00000061821

Position:

Mouse Assembly	Chr	Position (strand)	Source
MGSCv36	11	120,458,941 - 120,460,062 (+)	MPROMDB

RGD ID:

8677698

Promoter ID:

EPDNEW_M16880

Type:

initiation region

Name:

Alyref_1

Description:

Mus musculus Aly/REF export factor , mRNA.

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Mouse Assembly	Chr	Position (strand)	Source
GRCm38	11	120,598,353 - 120,598,413	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	MGI:1341044	AgrOrtholog
Ensembl Genes	ENSMUSG00000025134	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSMUSP00000026125	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSMUST00000026125	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	3.30.70.330	UniProtKB/Swiss-Prot
InterPro	FoP_C	UniProtKB/Swiss-Prot
	Nucleotide-bd_a/b_plait_sf	UniProtKB/Swiss-Prot
	RBD_domain_sf	UniProtKB/Swiss-Prot
	RRM_dom	UniProtKB/Swiss-Prot
KEGG Report	mmu:21681	UniProtKB/Swiss-Prot
MGD	MGI:1341044	ENTREZGENE
NCBI Gene	21681	ENTREZGENE
Pfam	FoP_duplication	UniProtKB/Swiss-Prot
	RRM_1	UniProtKB/Swiss-Prot
PhenoGen	Alyref	PhenoGen
PROSITE	RRM	UniProtKB/Swiss-Prot
SMART	FoP_duplication	UniProtKB/Swiss-Prot
	RRM	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF54928	UniProtKB/Swiss-Prot
UniGene	Mm.1886	ENTREZGENE
UniProt	O08583	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	Q0VBL5	UniProtKB/Swiss-Prot
	Q8CBM4	UniProtKB/Swiss-Prot
	Q9JJW7	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2011-12-20	Alyref	Aly/REF export factor	Thoc4	THO complex 4	Symbol and/or name change	5135510	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 - CTD

RGD Manual Annotations