Rbm3 (RNA binding motif protein 3)

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Gene: Rbm3 (RNA binding motif protein 3) Ictidomys tridecemlineatus

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Symbol:

Rbm3

Name:

RNA binding motif protein 3

RGD ID:

12517615

Description:

ENCODES a protein that exhibits ribosomal large subunit binding (ortholog); INVOLVED IN miRNA processing (ortholog); positive regulation of translation (ortholog); regulation of translation (ortholog); ASSOCIATED WITH autistic disorder (ortholog); Breast Neoplasms (ortholog); congenital disorder of glycosylation type IIm (ortholog); FOUND IN dendrite (ortholog); large ribosomal subunit (ortholog); nucleoplasm (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

RNA binding motif (RNP1, RRM) protein 3; RNA binding motif (RNP1, RRM) protein 3, transcript variant X1; RNA binding motif (RNP1, RRM) protein 3, transcript variant X2; RNA-binding protein 3

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

SpeTri2.0 - Squirrel SpeTri2.0 Assembly

Position:

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	X	34,307,320 - 34,310,922 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936721	547,777 - 551,270 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936721	547,751 - 551,273 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

autistic disorder (ISO)

Breast Neoplasms (ISO)

congenital disorder of glycosylation type IIm (ISO)

Experimental Liver Cirrhosis (ISO)

immune dysregulation-polyendocrinopathy-enteropathy-X-linked syndrome (ISO)

neurodegeneration with brain iron accumulation 5 (ISO)

syndromic X-linked intellectual disability Lubs type (ISO)

Thrombocytopenia 1 (ISO)

Wiskott-Aldrich syndrome (ISO)

X-linked epilepsy with variable learning disabilities and behavior disorders (ISO)

X-linked severe congenital neutropenia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

miRNA processing (ISO)

positive regulation of translation (ISO)

regulation of translation (ISO)

response to cold (ISO)

translation (ISO)

Cellular Component

cytoplasm (IEA)

dendrite (ISO)

large ribosomal subunit (ISO)

nucleoplasm (ISO)

nucleus (IEA)

Molecular Function

protein binding (ISO)

ribosomal large subunit binding (ISO)

RNA binding (IEA)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Rbm3
(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	X	34,307,320 - 34,310,922 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936721	547,777 - 551,270 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936721	547,751 - 551,273 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

RBM3
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	X	48,574,484 - 48,581,162 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	X	48,574,449 - 48,581,162 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	X	48,432,872 - 48,439,550 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	X	48,317,780 - 48,321,748 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	X	48,189,165 - 48,192,925	NCBI
Celera	X	53,228,934 - 53,232,902 (-)	NCBI		Celera
Cytogenetic Map	X	p11.23	NCBI
HuRef	X	46,096,108 - 46,133,256 (+)	NCBI		HuRef
CHM1_1	X	48,463,982 - 48,470,795 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	X	47,983,492 - 47,990,170 (+)	NCBI		T2T-CHM13v2.0

Rbm3
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	X	8,005,214 - 8,012,119 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	X	8,005,214 - 8,012,119 (-)	Ensembl		GRCm39 Ensembl
GRCm38	X	8,138,975 - 8,145,880 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	X	8,138,975 - 8,145,880 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	X	7,716,101 - 7,722,928 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	X	7,297,026 - 7,302,656 (-)	NCBI		MGSCv36	mm8
Celera	X	3,323,024 - 3,329,740 (+)	NCBI		Celera
Cytogenetic Map	X	A1.1	NCBI
cM Map	X	3.68	NCBI

Rbm3
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	X	17,020,863 - 17,024,341 (+)	NCBI		GRCr8
mRatBN7.2	X	14,348,909 - 14,352,387 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	X	14,348,910 - 14,353,580 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	X	19,162,253 - 19,165,690 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	X	20,917,390 - 20,920,827 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	X	17,182,581 - 17,186,018 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	X	15,098,880 - 15,102,344 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	X	15,098,904 - 15,102,340 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	X	15,882,043 - 15,885,505 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	X	26,379,303 - 26,382,739 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	X	26,432,807 - 26,434,835 (+)	NCBI
Celera	X	14,434,002 - 14,437,438 (+)	NCBI		Celera
Cytogenetic Map	X	q12	NCBI

Rbm3
(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_004955543	166,891 - 170,488 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955543	166,891 - 173,987 (+)	NCBI	ChiLan1.0	ChiLan1.0

RBM3
(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	X	50,063,352 - 50,067,217 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	X	50,066,705 - 50,070,388 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	X	40,872,745 - 40,876,611 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	X	48,734,777 - 48,738,077 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	X	48,734,777 - 48,738,077 (+)	Ensembl	panpan1.1		panPan2

RBM3
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	X	41,806,072 - 41,809,803 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	X	41,806,176 - 41,809,481 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	X	16,182,453 - 16,195,810 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	X	50,268,433 - 50,272,150 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	X	50,268,437 - 50,272,105 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	X	41,929,113 - 41,942,467 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	X	41,917,468 - 41,925,838 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	X	42,011,225 - 42,024,586 (+)	NCBI		UU_Cfam_GSD_1.0

RBM3
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	X	42,704,028 - 42,707,577 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	X	42,704,019 - 42,707,587 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	X	47,591,642 - 47,595,208 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

RBM3
(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	X	45,702,974 - 45,707,064 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	X	45,702,275 - 45,707,075 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666076	11,178,027 - 11,182,193 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Rbm3
(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_004624893	403,916 - 411,708 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624893	403,831 - 407,772 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

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

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005338646	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_005338647	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000614	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSSTOT00000022536 ⟹ ENSSTOP00000017044

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936721	547,777 - 551,270 (+)	Ensembl

RefSeq Acc Id:

XM_005338646 ⟹ XP_005338703

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	X	34,307,320 - 34,310,870 (+)	NCBI
SpeTri2.0	NW_004936721	547,753 - 551,272 (+)	NCBI

Sequence:

show sequence

ACGTATCCATATACGTCTGCTTTATCAAGCGTCTTCCCGCGCGGCAGCCTCCCTATTCTTCCTG
CTCCTCAGAGCTTCCTGCCTCTCCAGCGCTTTTACTTTTCAATTTCCAGGACTCAAATTCACTG
CCATGTCTTCTGAAGAAGGGAAGCTGTTCGTGGGAGGACTCAACTTCAATACTGATGAGCAGGC
GCTGGAAGACCACTTCAGCAGCTTTGGGCCTATTTCTGAGGTGGTTGTTGTCAAGGACCGGGAG
ACTCAGCGATCCCGGGGTTTTGGCTTCATCACCTTCACCAATCCAGAACATGCCTCAGATGCCA
TGAAAGCCATGAATGGAGAGTCCCTGGATGGTCGTCAGATCCGGGTGGACCATGCAGGCAAGTC
TGCCCGGGGCACCAGAGGGGGTGCCTTTGGGGCCCATGGGCGTGGTCGCAGCTACTCTAGAGGT
GGTGGGGACCAGGGATATGGGAGTGGCCGGTATGACAGTCGACCTGGAGGTTATGGATATGGAT
ACGGACGGTCCCGAGACTATAGTGGCAGAAGCCAGGGTGGCTATGACCGCTACTCAGGAGGAAA
TTATCGAGACAATTATGACAACTGAGTTGAGGCATGCACACGTTAAGTAGATACACAAGGAATA
ACACTTCTGATCCAGGATCGTCCTTCCAAATCGCTGTATTTATAAAGATTTTTGGAGCTGCGCT
GAAACATCTGTTTTAGTACATCAACTTCTATTTTTCAATTGAGCTCCCAAGGTAGCTTGTTAAA
AGACCTTTTAAAAAGCTCCATGTAAAATTTTTTTCTCATTTAAAGACAAATTATAGCACATTTG
TTAGTCCCCCAGGTATTTTTCTTTTTACCAAGTTTTTAGTTTGGGCTCTCGGGATCATTGCTTC
TGGCAAAAGGAAAAGTTTAGCCAGACTAATTTTTTTTAAAGCTAAAGTTGGGGCATTTTTAAAA
CTTGTACACAATGTTTATCATGACTAGAAAGCAATTTCTAAATGTACCTATGAACAATCTGTGT
CAAGAACATGATAAATTTTTCTTAAAATTCAAGATCACCACCCTGATTATACAGACAAGCCTCT
TTAAAATGTTTGTGAATGTCATTTTTTTTAATGCTGGAAGAAAAAATATTCTGTTGTGTCTCTT
GTAGTGTTTA

hide sequence

RefSeq Acc Id:

XM_005338647 ⟹ XP_005338704

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	X	34,307,320 - 34,310,922 (+)	NCBI
SpeTri2.0	NW_004936721	547,751 - 551,273 (+)	NCBI

Sequence:

show sequence

TGACGTATCCATATACGTCTGCTTTATCAAGCGTCTTCCCGCGCGGCAGCCTCCCTATTCTTCC
TGCTCCTCAGAGCTTCCTGCCTCTCCAGCGCTTTTACTTTTCAATTTCCAGGACTCAAATTCAC
TGCCATGTCTTCTGAAGAAGGGAAGCTGTTCGTGGGAGGACTCAACTTCAATACTGATGAGCAG
GCGCTGGAAGACCACTTCAGCAGCTTTGGGCCTATTTCTGAGGTGGTTGTTGTCAAGGACCGGG
AGACTCAGCGATCCCGGGGTTTTGGCTTCATCACCTTCACCAATCCAGAACATGCCTCAGATGC
CATGAAAGCCATGAATGGAGAGTCCCTGGATGGTCGTCAGATCCGGGTGGACCATGCAGGCAAG
TCTGCCCGGGGCACCAGAGGGGGTGCCTTTGGGGCCCATGGGCGTGGTCGCAGCTACTCTAGAG
GTGGTGGGGACCAGGGATATGGGAGTGGCCGGTATGACAGTCGACCTGGAGGTTATGGATATGG
ATACGGACGGTCCCGAGACTATAGTGGCAGCCAGGGTGGCTATGACCGCTACTCAGGAGGAAAT
TATCGAGACAATTATGACAACTGAGTTGAGGCATGCACACGTTAAGTAGATACACAAGGAATAA
CACTTCTGATCCAGGATCGTCCTTCCAAATCGCTGTATTTATAAAGATTTTTGGAGCTGCGCTG
AAACATCTGTTTTAGTACATCAACTTCTATTTTTCAATTGAGCTCCCAAGGTAGCTTGTTAAAA
GACCTTTTAAAAAGCTCCATGTAAAATTTTTTTCTCATTTAAAGACAAATTATAGCACATTTGT
TAGTCCCCCAGGTATTTTTCTTTTTACCAAGTTTTTAGTTTGGGCTCTCGGGATCATTGCTTCT
GGCAAAAGGAAAAGTTTAGCCAGACTAATTTTTTTTAAAGCTAAAGTTGGGGCATTTTTAAAAC
TTGTACACAATGTTTATCATGACTAGAAAGCAATTTCTAAATGTACCTATGAACAATCTGTGTC
AAGAACATGATAAATTTTTCTTAAAATTCAAGATCACCACCCTGATTATACAGACAAGCCTCTT
TAAAATGTTTGTGAATGTCATTTTTTTTAATGCTGGAAGAAAAAATATTCTGTTGTGTCTCTTG
TAGTGTTTAG

hide sequence

Protein Sequences


Protein RefSeqs	XP_005338703	(Get FASTA)	NCBI Sequence Viewer
	XP_005338704	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000017044.1
GenBank Protein	KAG3272057	(Get FASTA)	NCBI Sequence Viewer
	KAG3272058	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005338704 ⟸ XM_005338647
- Peptide Label:	isoform X2
- Sequence:	show sequence MSSEEGKLFVGGLNFNTDEQALEDHFSSFGPISEVVVVKDRETQRSRGFGFITFTNPEHASDAM KAMNGESLDGRQIRVDHAGKSARGTRGGAFGAHGRGRSYSRGGGDQGYGSGRYDSRPGGYGYGY GRSRDYSGSQGGYDRYSGGNYRDNYDN hide sequence

RefSeq Acc Id:	XP_005338703 ⟸ XM_005338646
- Peptide Label:	isoform X1
- UniProtKB:	I3MY48 (UniProtKB/TrEMBL)
- Sequence:	show sequence MSSEEGKLFVGGLNFNTDEQALEDHFSSFGPISEVVVVKDRETQRSRGFGFITFTNPEHASDAM KAMNGESLDGRQIRVDHAGKSARGTRGGAFGAHGRGRSYSRGGGDQGYGSGRYDSRPGGYGYGY GRSRDYSGRSQGGYDRYSGGNYRDNYDN hide sequence

Ensembl Acc Id:

ENSSTOP00000017044 ⟸ ENSSTOT00000022536

Protein Domains

RRM

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000027493	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000022536.2	UniProtKB/TrEMBL
Gene3D-CATH	3.30.70.330	UniProtKB/TrEMBL
InterPro	Nucleotide-bd_a/b_plait_sf	UniProtKB/TrEMBL
	RBD_domain_sf	UniProtKB/TrEMBL
	RBM	UniProtKB/TrEMBL
	RBM3/CIRBP_RRM	UniProtKB/TrEMBL
	RRM_dom	UniProtKB/TrEMBL
NCBI Gene	Rbm3	ENTREZGENE
PANTHER	RNA-BINDING PROTEIN 3	UniProtKB/TrEMBL
	TRANSFORMER-2 SEX-DETERMINING PROTEIN-RELATED	UniProtKB/TrEMBL
Pfam	RRM_1	UniProtKB/TrEMBL
PROSITE	RRM	UniProtKB/TrEMBL
SMART	RRM	UniProtKB/TrEMBL
Superfamily-SCOP	SSF54928	UniProtKB/TrEMBL
UniProt	I3MY48	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2017-10-04	Rbm3	RNA binding motif protein 3		RNA binding motif (RNP1, RRM) protein 3	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)

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Imported Disease Annotations - CTD