FAM50B (family with sequence similarity 50 member B)

Gene: FAM50B (family with sequence similarity 50 member B) Chlorocebus sabaeus

Analyze

Symbol:

FAM50B

Name:

family with sequence similarity 50 member B

RGD ID:

18777188

Description:

INVOLVED IN chromatin organization (inferred); ASSOCIATED WITH genetic disease (ortholog); FOUND IN intercellular bridge (inferred); midbody (inferred); nucleoplasm (inferred)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

protein FAM50B

RGD Orthologs

Alliance Orthologs

More Info

more info ...

Latest Assembly:

ChlSab1.1 - Green Monkey 1.1 Assembly

Position:

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	17	68,326,562 - 68,328,473 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	17	68,327,078 - 68,328,052 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666044	3,777,935 - 3,797,288 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

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)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chromatin organization (IEA)

Cellular Component

intercellular bridge (IEA)

midbody (IEA)

nucleoplasm (IEA)

nucleus (IEA)

Molecular Function

protein binding (ISO)

References

Additional References at PubMed

PMID:30032202

Genomics

Comparative Map Data

FAM50B
(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	17	68,326,562 - 68,328,473 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	17	68,327,078 - 68,328,052 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666044	3,777,935 - 3,797,288 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

FAM50B
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	3,831,894 - 3,851,317 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	3,849,373 - 3,851,320 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	6	3,849,607 - 3,851,551 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	3,794,631 - 3,796,550 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	6	3,794,630 - 3,796,550	NCBI
Celera	6	5,078,622 - 5,080,541 (+)	NCBI		Celera
Cytogenetic Map	6	p25.2	NCBI
HuRef	6	3,726,583 - 3,728,502 (+)	NCBI		HuRef
CHM1_1	6	3,852,471 - 3,854,390 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	6	3,701,518 - 3,720,954 (+)	NCBI		T2T-CHM13v2.0

Fam50b
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	34,918,833 - 34,931,605 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	34,918,833 - 34,931,606 (+)	Ensembl		GRCm39 Ensembl
GRCm38	13	34,734,850 - 34,747,622 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	34,734,850 - 34,747,623 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	34,831,511 - 34,839,491 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	13	34,742,315 - 34,755,088 (+)	NCBI		MGSCv36	mm8
Celera	13	35,868,938 - 35,876,918 (+)	NCBI		Celera
Cytogenetic Map	13	A3.3	NCBI
cM Map	13	14.18	NCBI

Fam50b
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	17	30,379,796 - 30,399,399 (-)	NCBI		GRCr8
mRatBN7.2	17	30,174,431 - 30,193,627 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	17	30,174,411 - 30,193,615 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	17	29,992,424 - 30,006,814 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	17	31,596,159 - 31,610,549 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	17	29,988,151 - 30,002,541 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	17	30,864,189 - 30,883,427 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	17	30,864,167 - 30,865,419 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	17	32,764,426 - 32,783,236 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	17	36,510,937 - 36,525,723 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	17	29,740,457 - 29,754,689 (-)	NCBI		Celera
Cytogenetic Map	17	p12	NCBI

Fam50b
(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	NW_004955465	9,512,675 - 9,529,848 (-)	NCBI	ChiLan1.0	ChiLan1.0

FAM50B
(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	5	18,482,870 - 18,485,068 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	6	14,487,534 - 14,489,508 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	3,690,357 - 3,692,332 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	3,877,822 - 3,879,776 (+)	NCBI	panpan1.1	PanPan1.1	panPan2

Fam50b
(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_024404946	20,310,956 - 20,334,819 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936534	8,580,102 - 8,581,118 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936534	8,580,102 - 8,581,118 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

FAM50B
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	2,309,088 - 2,310,080 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	7	2,290,461 - 2,310,772 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	2,353,088 - 2,372,697 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

Fam50b
(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_004624756	21,202,076 - 21,217,509 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624756	21,151,752 - 21,217,426 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	endocrine system	hemolymphoid system	nervous system
High
Medium	20		44
Low	16	18	16
Below cutoff		2

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_007973817	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_038005701	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JACDXN010000012	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCSAT00000019201 ⟹ ENSCSAP00000018621

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1 Ensembl	17	68,327,078 - 68,328,052 (-)	Ensembl

RefSeq Acc Id:

XM_007973817 ⟹ XP_007972008

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1	17	68,326,562 - 68,328,473 (-)	NCBI
Vero_WHO_p1.0	NW_023666044	3,795,335 - 3,797,288 (+)	NCBI

Sequence:

show sequence

GGCTGTCGCGAGAGCCCGGGACGGGTGGGCCTTTGCTCGTGGGCGGTTCTCGTGGAGGTCAACT
CCCGCGTGTCTCCGCTCGACAGGGTGCTTGGGCAGAGCCCAGCGGGTAGGCGGGGGCCATGGCG
CAGTACAAGGGCACCATGCGCGAGGCGGGCCGTGCCATGCACCTCCTCAAGAAGCGCGAGAAGC
AGCGGGAGCAGATGGAGGTGCTGAAGCAGCGCATCGCCGAGGAGACCATCCTCAAGTCGCAGGT
GGACAAGAAGTTCTCGGCGCACTACGACGCCGTGGAGGCCGAGCTGAAGTCCAGCACGGTGGGT
CTGGTGACCCTGAACGACATGAAGGCCCGGCAGGAGGCCCTGATCAGGGAGCGCGAGCGGCAGC
TGGCCAAGCGCCAGCAGCTGGAGGAGCAGCGGCTGCAGCAGGAGCGGCTGCGGGAGCAGGAGCA
GCGGCGCGAGCGCAAGCGTAAGATCTCCTGCCTGTCCTTCGCGCTCGACGACCTCGATGACCAG
GCGGACGCGGCCGAGGCCAGGCGCGCCGGAAACCTGGGCAAGAACCCCGACGTGGACACCAGCT
TCCTGCCCGACCGCGACCGCGAGGAGGAGGAGAACCGGCTCCGGGAGGAGCTGCGCCAAGAGTG
GGAGGCGCAGCGCGAGAAAGTGAAGGACGAGGAGATGGAGGTCACCTTCAGCTACTGGGACGGC
TCGGGCCACCGGCGCACGGTGCGCGTGCGCAAGGGCAACACGGTGCAGCAGTTCCTGAAGAAGG
CGCTGCAGGGGCTGCGCAAGGATTTCCTGGAGCTGCGCTCCGCGGGCGTGGAGCAGCTCATGTT
CATCAAGGAGGACCTCATCCTGCCGCACTACCGCACCTTCTATGACTTCATCATCGCCAAGGCG
AGGGGCAAGAGCGGGCCGCTCTTCAGCTTCGATGTGCACGACGACGTGCGCCTGCTCAGCGACG
CCACCATGGAGAAGGACGAGTCGCACGCGGGCAAGGTGGTGCTGCGGAGCTGGTACGAGAAGAA
CAAGCACATCTTCCCCGCCAGCCGCTGGGAGGCCTACGACCCCGAGAAGAAGTGGGACAAGTAC
ACCATCCGCTGACAGCCGCCTGCCAGAGCGGAAACCGGGGAGACGCTCCTTTCTATGCCCCGCC
ACCAGTCACTTGATTTCGTGACCTTGATTTCTTCCCCCGAATTTAATAAAGACAGAGGGTTCTC
ATGATTCATATTGGTTGTCCTATTGCTGATGTTATGCTTTGGTTGTTTGGTTGGTCTTTTCTGG
GTATTTTAGTGTTGCTACCTGGATTTGCTGCATTGCTCTGCTGAGCTGTATGGAAACCGTGACT
GGGCCCACTGTGAGACAGAAATTAGAAGAGGAGGCACATTTTTTACCTCATGGTTATGAGCATG
GTCTTGGGGGCCACACTGACCGAGTTTGATTCCCGACGCAGCTTCCTCCTTGCTGTGTAGTTTT
GGGTAAGCTTATTAAACCCCCATGCCTCAGTTTGGTCACCTGTAAAAGGAAATAACAAGAGCAC
TTTAAAAGATGGATGTGAGGATTGAGTTAATATTTGTAAAACACGTAGCACTTAATAAATGTTT
TTTGTTATTATTA

hide sequence

RefSeq Acc Id:

XM_038005701 ⟹ XP_037861629

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
Vero_WHO_p1.0	NW_023666044	3,777,935 - 3,797,288 (+)	NCBI

Protein Sequences


Protein RefSeqs	XP_007972008	(Get FASTA)	NCBI Sequence Viewer
	XP_037861629	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCSAP00000018621
	ENSCSAP00000018621.1

RefSeq Acc Id:	XP_007972008 ⟸ XM_007973817
- UniProtKB:	A0A0D9SCN2 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSCSAP00000018621 ⟸ ENSCSAT00000019201

RefSeq Acc Id:	XP_037861629 ⟸ XM_038005701
- UniProtKB:	A0A0D9SCN2 (UniProtKB/TrEMBL)

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCSAG00000019111	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCSAT00000019201.1	UniProtKB/TrEMBL
InterPro	FAM50A/XAP5_C	UniProtKB/TrEMBL
	XAP5	UniProtKB/TrEMBL
KEGG Report	csab:103222264	UniProtKB/TrEMBL
NCBI Gene	FAM50B	ENTREZGENE
PANTHER	PROTEIN FAM50B	UniProtKB/TrEMBL
	PTHR12722	UniProtKB/TrEMBL
Pfam	XAP5	UniProtKB/TrEMBL
UniProt	A0A0D9SCN2	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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