Rbm48 (RNA binding motif protein 48)

Gene: Rbm48 (RNA binding motif protein 48) Ictidomys tridecemlineatus

Analyze

Symbol:

Rbm48

Name:

RNA binding motif protein 48

RGD ID:

12475174

Description:

ENCODES a protein that exhibits nucleic acid binding (inferred); ASSOCIATED WITH genetic disease (ortholog); nephronophthisis (ortholog); peroxisome biogenesis disorder 1A (ortholog); FOUND IN nucleoplasm (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

RNA-binding protein 48

RGD Orthologs

Alliance Genes

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	NW_024405118	31,507,916 - 31,516,774 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936803	1,283,077 - 1,291,674 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936803	1,283,110 - 1,291,646 (-)	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

genetic disease (ISO)

nephronophthisis (ISO)

peroxisome biogenesis disorder 1A (ISO)

pleomorphic xanthoastrocytoma (ISO)

Zellweger Leukodystrophy (ISO)

Zellweger syndrome (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Cellular Component

nucleoplasm (IEA)

Molecular Function

nucleic acid binding (IEA)

protein binding (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

Rbm48
(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_024405118	31,507,916 - 31,516,774 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936803	1,283,077 - 1,291,674 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936803	1,283,110 - 1,291,646 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

RBM48
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	92,528,795 - 92,540,481 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	92,528,773 - 92,540,481 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	92,158,109 - 92,169,795 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	91,996,023 - 92,004,759 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	7	86,862,619 - 86,871,355 (+)	NCBI		Celera
Cytogenetic Map	7	q21.2	NCBI
HuRef	7	86,766,841 - 86,775,577 (+)	NCBI		HuRef
CHM1_1	7	92,088,108 - 92,096,847 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	7	93,770,072 - 93,781,758 (+)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	91,487,311 - 91,496,047 (+)	NCBI

Rbm48
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	3,633,980 - 3,646,091 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	3,633,978 - 3,646,585 (-)	Ensembl		GRCm39 Ensembl
GRCm38	5	3,583,978 - 3,598,090 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	3,583,978 - 3,596,585 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	3,583,978 - 3,596,547 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	3,589,988 - 3,602,414 (-)	NCBI		MGSCv36	mm8
Celera	5	3,520,038 - 3,532,607 (-)	NCBI		Celera
Cytogenetic Map	5	A1	NCBI
cM Map	5	2.25	NCBI

Rbm48
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	31,513,811 - 31,524,149 (+)	NCBI		GRCr8
mRatBN7.2	4	30,559,063 - 30,569,409 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	30,559,087 - 30,569,406 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	35,531,921 - 35,542,162 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	31,458,000 - 31,468,245 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	29,854,025 - 29,864,280 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	27,698,319 - 27,708,572 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	27,698,323 - 27,708,743 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	27,601,633 - 27,611,886 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	27,275,358 - 27,285,611 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	4	27,292,753 - 27,303,007 (+)	NCBI
Celera	4	25,983,529 - 25,993,782 (+)	NCBI		Celera
Cytogenetic Map	4	q13	NCBI

Rbm48
(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_004955432	9,461,797 - 9,467,405 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955432	9,461,507 - 9,498,099 (+)	NCBI	ChiLan1.0	ChiLan1.0

RBM48
(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	6	110,413,595 - 110,422,744 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	7	158,678,237 - 158,687,386 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	84,526,533 - 84,535,772 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	98,122,494 - 98,133,852 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	98,122,495 - 98,130,886 (+)	Ensembl	panpan1.1		panPan2

RBM48
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	14	18,116,022 - 18,123,283 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	14	18,115,468 - 18,123,283 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	14	17,676,885 - 17,684,152 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	14	17,922,794 - 17,930,066 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	14	17,922,826 - 17,930,692 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	14	18,083,258 - 18,090,525 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	14	17,795,495 - 17,802,760 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	14	18,069,546 - 18,076,813 (+)	NCBI		UU_Cfam_GSD_1.0

RBM48
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	9	72,444,828 - 72,456,397 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	9	72,444,811 - 72,453,990 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	9	79,173,386 - 79,181,215 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

RBM48
(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	21	56,483,563 - 56,493,286 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	21	56,483,582 - 56,493,365 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666042	47,787,277 - 47,796,723 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Rbm48
(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_004624809	638,253 - 668,038 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624809	659,060 - 668,126 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005340540	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040291496	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040291497	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_040291498	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JAESOR010000177	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSTOT00000001381 ⟹ ENSSTOP00000001238

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
SpeTri2.0 Ensembl	NW_004936803	1,283,077 - 1,291,674 (-)	Ensembl

RefSeq Acc Id:

XM_005340540 ⟹ XP_005340597

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405118	31,507,916 - 31,516,774 (+)	NCBI
SpeTri2.0	NW_004936803	1,283,110 - 1,291,646 (-)	NCBI

Sequence:

show sequence

GTCCTCACCGCAATGACCAAAGCAGGCAAGATGGCGTCGAGTGATGGGAAGCTTGGGAGTTTAT
TCGACCACCACGTCCAGAGGGTGGTCTGCGACACGCGGGCCAAATATCGGGAGGGTAGACGGCC
TCGCGCTGTTAAGGTGTATACAATCAATTTGGAATCTCGGTACTTATTAATACAAGGAGTTCCT
GCAGTGGGAGCAATGAAGGAATTAGTTGAGCGATTTGCTCTATATGGAGCAATTGAAGAATATA
ATGCTCTAGATGAATATCCAGCAGAAGATTTTACAGAAGTTTACCTTATTAAATTTATGAATTT
ACAAAGTGCAAGGATAGCCAAGAGAAAAATGGATGAACAGAGTTTCTTTGGTGGATTGCTTCAC
GTGTGCTATGCTCCAGAATTTGAGACAGTTGAAGAAACCAGAAAAAAATTAGAAGAGAGAAAAG
CTTACATAGCAAGAACTACTAAAAATAAAGAGTATTACTTGACAAAGAAGAAACTGGTTCCAGA
GCATAAAAACACACGAGATTTTAGACAAGACTTAAACTCGGACATGTCTGGATTTTGTGCAGCT
GCTTCGAATGCTTCCAATGGGAACTCAAATCCTTGTCTTCCTTATTCTTGTGAATTACCTTTAT
GTTATTTTGCTTCAAACTGTACTTGTTCATCTGGGGAGCATGTGAACAAAGCATCAAACTTCTA
TAAGGATGGTAGAAACCATAATGAAACAGTGAAGTATTGTAACCACAGTGACTCTTTGCAAAAT
ATGAACACTTTCAAAAATTCAGTACCCTACTCTGGTACACAGAAGGCTCTAATTCCTCCTTCAG
GGTCAATTGACAGGTTTATGCCTAGGACAACACAACTGCAGGAGCGGAAAAGAAGAAGGGAAGA
TGATTGTAAACTTGCAACTTTTCTTGAAACAAACAGTAATGAGGTTATGATTGGACCCAAGTTA
CCAGACATACCTAAAGTGGACCTTCAGGATGACTCTCTGAATACAACGGCGAACTTAATTCGGA
ATAAACTTAAAGAGGTAATTTCATCTGTGCCAAAGCCTCCAGAAGATGTGCCTACAAATTGTCC
ATTAAAACAAAGAAGAAGAATATAAATTGCCAGCAGCAATTTAGTATTTTCTAAAGAGAATATT
TATTTTATTTTTAGTCTTTTAATTCTTTAAAAAGTTTTATTGCTGGTATTTTTTAATGTACACT
TTTTTGTTATTTCATTCAAACTATTATCCAAATACAGTTTCATCTTTGACATATACTTAATATT
GCAAAAACGTTTCTTTCCTATAACATTCTCATGTTACAATAACCATATGTAAATCAATTGAAGC
AAATATGGAAATTTTATAATACAAATAAACTTATGCAACCAGGATCTGTCTTTGATTT

hide sequence

RefSeq Acc Id:

XM_040291496 ⟹ XP_040147430

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405118	31,508,213 - 31,516,774 (+)	NCBI

RefSeq Acc Id:

XM_040291497 ⟹ XP_040147431

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405118	31,509,086 - 31,516,774 (+)	NCBI

RefSeq Acc Id:

XM_040291498 ⟹ XP_040147432

Type:

CODING

Position:

Squirrel Assembly	Chr	Position (strand)	Source
HiC_Itri_2	NW_024405118	31,508,277 - 31,516,774 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_005340597	(Get FASTA)	NCBI Sequence Viewer
	XP_040147430	(Get FASTA)	NCBI Sequence Viewer
	XP_040147431	(Get FASTA)	NCBI Sequence Viewer
	XP_040147432	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSTOP00000001238.3
GenBank Protein	KAG3277588	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	XP_005340597 ⟸ XM_005340540
- Peptide Label:	isoform X1
- UniProtKB:	I3LYH1 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTKAGKMASSDGKLGSLFDHHVQRVVCDTRAKYREGRRPRAVKVYTINLESRYLLIQGVPAVGA MKELVERFALYGAIEEYNALDEYPAEDFTEVYLIKFMNLQSARIAKRKMDEQSFFGGLLHVCYA PEFETVEETRKKLEERKAYIARTTKNKEYYLTKKKLVPEHKNTRDFRQDLNSDMSGFCAAASNA SNGNSNPCLPYSCELPLCYFASNCTCSSGEHVNKASNFYKDGRNHNETVKYCNHSDSLQNMNTF KNSVPYSGTQKALIPPSGSIDRFMPRTTQLQERKRRREDDCKLATFLETNSNEVMIGPKLPDIP KVDLQDDSLNTTANLIRNKLKEVISSVPKPPEDVPTNCPLKQRRRI hide sequence

RefSeq Acc Id:	XP_040147430 ⟸ XM_040291496
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_040147432 ⟸ XM_040291498
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_040147431 ⟸ XM_040291497
- Peptide Label:	isoform X3

RefSeq Acc Id:

ENSSTOP00000001238 ⟸ ENSSTOT00000001381

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSTOG00000001386	Ensembl, UniProtKB/TrEMBL
Ensembl Transcript	ENSSTOT00000001381.3	UniProtKB/TrEMBL
InterPro	RBD_domain_sf	UniProtKB/TrEMBL
	RBM48	UniProtKB/TrEMBL
	RBM48_RRM	UniProtKB/TrEMBL
NCBI Gene	Rbm48	ENTREZGENE
PANTHER	PTHR20957	UniProtKB/TrEMBL
	RNA-BINDING PROTEIN 48	UniProtKB/TrEMBL
Superfamily-SCOP	SSF54928	UniProtKB/TrEMBL
UniProt	I3LYH1	ENTREZGENE, UniProtKB/TrEMBL

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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