TMEM179B (transmembrane protein 179B)

Gene: TMEM179B (transmembrane protein 179B) Sus scrofa

Analyze

Symbol:

TMEM179B

Name:

transmembrane protein 179B

RGD ID:

14083948

Description:

ASSOCIATED WITH genetic disease (ortholog); intellectual disability (ortholog); leukocyte adhesion deficiency 3 (ortholog); FOUND IN membrane (inferred); nuclear speck (inferred); nucleolus (inferred)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

Sscrofa11.1 - Pig Sscrofa11.1 Assembly

Position:

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	8,983,759 - 8,986,080 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	8,983,822 - 8,986,106 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	8,329,062 - 8,331,346 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

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)

intellectual disability (ISO)

leukocyte adhesion deficiency 3 (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Cellular Component

membrane (IEA)

nuclear speck (IEA)

nucleolus (IEA)

Molecular Function

protein binding (ISO)

References

Additional References at PubMed

PMID:14681463	PMID:17145712

Genomics

Comparative Map Data

TMEM179B
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	2	8,983,759 - 8,986,080 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	2	8,983,822 - 8,986,106 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	2	8,329,062 - 8,331,346 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

TMEM179B
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	11	62,787,402 - 62,790,400 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	11	62,787,402 - 62,790,400 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	11	62,554,874 - 62,557,872 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	11	62,311,450 - 62,314,448 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Celera	11	59,883,458 - 59,886,456 (+)	NCBI		Celera
Cytogenetic Map	11	q12.3	NCBI
HuRef	11	58,883,899 - 58,886,898 (+)	NCBI		HuRef
CHM1_1	11	62,437,956 - 62,440,954 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	11	62,776,793 - 62,779,792 (+)	NCBI		T2T-CHM13v2.0

Tmem179b
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	19	8,749,886 - 8,751,831 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	19	8,749,889 - 8,751,831 (-)	Ensembl		GRCm39 Ensembl
GRCm38	19	8,772,522 - 8,774,467 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	19	8,772,525 - 8,774,467 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	19	8,847,012 - 8,848,957 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	19	8,839,574 - 8,841,487 (-)	NCBI		MGSCv36	mm8
Celera	19	8,532,413 - 8,534,358 (-)	NCBI		Celera
Cytogenetic Map	19	A	NCBI
cM Map	19	5.55	NCBI

Tmem179b
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	215,099,245 - 215,101,231 (-)	NCBI		GRCr8
mRatBN7.2	1	205,670,126 - 205,672,112 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	205,666,744 - 205,672,112 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	1	214,078,544 - 214,080,530 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	221,113,677 - 221,115,663 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	213,806,380 - 213,808,366 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	224,972,218 - 224,975,091 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	224,972,218 - 224,974,203 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	1	231,910,390 - 231,912,736 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	1	211,443,288 - 211,445,273 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
Celera	1	203,183,056 - 203,185,041 (-)	NCBI		Celera
Cytogenetic Map	1	q43	NCBI

TMEM179B
(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	9	64,012,488 - 64,015,351 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	11	65,055,181 - 65,058,043 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	11	58,142,806 - 58,145,668 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	11	61,498,409 - 61,499,816 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	11	61,498,409 - 61,499,816 (+)	Ensembl	panpan1.1		panPan2

TMEM179B
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	18	53,896,518 - 53,898,716 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	18	53,896,518 - 53,898,659 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	18	52,502,559 - 52,504,761 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	18	54,948,986 - 54,951,188 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	18	54,946,941 - 54,951,142 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	18	54,045,602 - 54,047,804 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	18	53,620,063 - 53,622,265 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	18	54,416,326 - 54,418,528 (-)	NCBI		UU_Cfam_GSD_1.0

Tmem179b
(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_024404947	10,388,816 - 10,390,927 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936581	498,178 - 504,853 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936581	502,562 - 504,826 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

TMEM179B
(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	1	11,113,066 - 11,115,863 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	1	11,113,254 - 11,115,771 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	108,456,115 - 108,458,713 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Tmem179b
(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 1.0	NW_004624926	1,244,780 - 1,246,469 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in TMEM179B
35 total Variants

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

	alimentary part of gastrointestinal system	circulatory system	nervous system	renal system
High
Medium
Low			3
Below cutoff	5	1	4	2

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_013994201	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AEMK02000006	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK346639	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AK351452	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FP312617	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GFLN01049597	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSSSCT00000037665 ⟹ ENSSSCP00000036216

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	2	8,983,759 - 8,986,080 (-)	Ensembl

RefSeq Acc Id:

ENSSSCT00000059108 ⟹ ENSSSCP00000047168

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1 Ensembl	2	8,983,824 - 8,986,080 (-)	Ensembl

RefSeq Acc Id:

XM_013994201 ⟹ XP_013849655

Type:

CODING

Position:

Pig Assembly	Chr	Position (strand)	Source
Sscrofa11.1	2	8,983,822 - 8,986,106 (-)	NCBI

Sequence:

show sequence

TCCGCGCTCGTGGGTCGCGCCGGATGAGACGGGGTTTGGGCAGTTGGCTCTTTAGGCGGCGCTT
CCTGGGGGCGAGGGCGCCATGGCGCTGCTCTGGTTGCAGCGCTTCGAGCTTCTGCTCTTTGCTG
CTACTTTCCTGTGCGGAGCCGTGGCGGCCGTGGCGCTGACCCGGACCCAGGGCTCCTTCAGGGG
CAGCTGTCCCCTGTATGGTGTGGCCACCCTGAATGACTCCTCCTTGGCCCTGTCCCGACCCTCG
GCCCCATCCCTCTGCTACTTTGTGGCTGGGGCTTCTGGCCTACTGGCCCTCTACTGTCTCCTGC
TTCTGCTCTTCTGGGTCTACTGCAGCTGCATCGAGAACTCCCAAAGAGGCCGTACGGGGCTCTG
CATTGTATTGGCCATCTCAGCTGTAGCCATCTTCCTGGTTTTAGTGTCTGCCTGTATCCTCCGA
TTTGGCACCAGTTCCCTCTGCAAATCCATCGTCTCCCTGAACATAACTAGCTGCTCTGATGCTC
AGAGAACTCCATGGATACCCCCTGGAACCGCTCTGCAGTTTTACTCCAACCTACACAATGCTGA
AACCTCCTCTTGGGTGAATCTGGTATTGTGGTGTATGATCTTGGTGCTCCAAGTCGTGCAGCGG
AAGTCTGAAGCCACCCCAAACTGGCCTCTGGAGAGAGGTGACCCTGAGTGGAGGTCTGAGACAG
ACGTTCTTGTTGGGCCCCGCCTTTCCCATTCCTGAAGACTACCCAAAGTATTTCCTGCAGCCAA
AGACTCCATGCCCAAGTGCCTGCAAAAATCCTCTTGCCCCCACATGGCCCTGTTTATGCCAGGA
GCCTTAGTTTTCCCTCTAGGAGGGAAGCAGGATGAGAGGCACTCTCTTCCTCTAGCTGTTTTTG
TACCAAAATATTATATTATTTTCTTCCTTCA

hide sequence

Protein Sequences


Protein RefSeqs	XP_013849655	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSSSCP00000036216.2
	ENSSSCP00000047168
	ENSSSCP00000047168.1
	ENSSSCP00015039285.1
	ENSSSCP00015039351.1
	ENSSSCP00025043565.1
	ENSSSCP00025043594.1
	ENSSSCP00030007195.1
	ENSSSCP00030007199.1
	ENSSSCP00035025603.1
	ENSSSCP00035025608.1
	ENSSSCP00040023779.1
	ENSSSCP00040023814.1
	ENSSSCP00045041817.1
	ENSSSCP00045041849.1
	ENSSSCP00050006761.1
	ENSSSCP00050006762.1
	ENSSSCP00055006966.1
	ENSSSCP00055006973.1
	ENSSSCP00060036624.1
	ENSSSCP00060036629.1
	ENSSSCP00065005173.1
	ENSSSCP00065005175.1
	ENSSSCP00070042285.1
	ENSSSCP00070042288.1

RefSeq Acc Id:

XP_013849655 ⟸ XM_013994201

- UniProtKB:

A0A287ATC0 (UniProtKB/TrEMBL), A0A4X1VKE4 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MALLWLQRFELLLFAATFLCGAVAAVALTRTQGSFRGSCPLYGVATLNDSSLALSRPSAPSLCY
FVAGASGLLALYCLLLLLFWVYCSCIENSQRGRTGLCIVLAISAVAIFLVLVSACILRFGTSSL
CKSIVSLNITSCSDAQRTPWIPPGTALQFYSNLHNAETSSWVNLVLWCMILVLQVVQRKSEATP
NWPLERGDPEWRSETDVLVGPRLSHS

hide sequence

RefSeq Acc Id:

ENSSSCP00000047168 ⟸ ENSSSCT00000059108

RefSeq Acc Id:

ENSSSCP00000036216 ⟸ ENSSSCT00000037665

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSSSCG00000032696	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
	ENSSSCG00015071342	UniProtKB/TrEMBL
	ENSSSCG00025072069	UniProtKB/TrEMBL
	ENSSSCG00030011717	UniProtKB/TrEMBL
	ENSSSCG00035047532	UniProtKB/TrEMBL
	ENSSSCG00040042747	UniProtKB/TrEMBL
	ENSSSCG00045034780	UniProtKB/TrEMBL
	ENSSSCG00050012183	UniProtKB/TrEMBL
	ENSSSCG00055004464	UniProtKB/TrEMBL
	ENSSSCG00060061992	UniProtKB/TrEMBL
	ENSSSCG00065009555	UniProtKB/TrEMBL
	ENSSSCG00070025042	UniProtKB/TrEMBL
Ensembl Transcript	ENSSSCT00000037665.3	UniProtKB/TrEMBL
	ENSSSCT00000059108	ENTREZGENE
	ENSSSCT00000059108.2	UniProtKB/TrEMBL
	ENSSSCT00015095672.1	UniProtKB/TrEMBL
	ENSSSCT00015095798.1	UniProtKB/TrEMBL
	ENSSSCT00025099043.1	UniProtKB/TrEMBL
	ENSSSCT00025099105.1	UniProtKB/TrEMBL
	ENSSSCT00030016063.1	UniProtKB/TrEMBL
	ENSSSCT00030016069.1	UniProtKB/TrEMBL
	ENSSSCT00035063283.1	UniProtKB/TrEMBL
	ENSSSCT00035063292.1	UniProtKB/TrEMBL
	ENSSSCT00040057165.1	UniProtKB/TrEMBL
	ENSSSCT00040057227.1	UniProtKB/TrEMBL
	ENSSSCT00045059617.1	UniProtKB/TrEMBL
	ENSSSCT00045059656.1	UniProtKB/TrEMBL
	ENSSSCT00050016450.1	UniProtKB/TrEMBL
	ENSSSCT00050016455.1	UniProtKB/TrEMBL
	ENSSSCT00055008803.1	UniProtKB/TrEMBL
	ENSSSCT00055008810.1	UniProtKB/TrEMBL
	ENSSSCT00060084568.1	UniProtKB/TrEMBL
	ENSSSCT00060084589.1	UniProtKB/TrEMBL
	ENSSSCT00065012702.1	UniProtKB/TrEMBL
	ENSSSCT00065012705.1	UniProtKB/TrEMBL
	ENSSSCT00070050057.1	UniProtKB/TrEMBL
	ENSSSCT00070050060.1	UniProtKB/TrEMBL
InterPro	TMEM179B	UniProtKB/TrEMBL
KEGG Report	ssc:106509327	UniProtKB/TrEMBL
NCBI Gene	TMEM179B	ENTREZGENE
PANTHER	PTHR31056	UniProtKB/TrEMBL
	TRANSMEMBRANE PROTEIN 179B	UniProtKB/TrEMBL
UniProt	A0A286ZX02_PIG	UniProtKB/TrEMBL
	A0A287ATC0	ENTREZGENE, UniProtKB/TrEMBL
	A0A4X1VK22_PIG	UniProtKB/TrEMBL
	A0A4X1VKE4	ENTREZGENE, UniProtKB/TrEMBL
VGNC ID	VGNC:94116	ENTREZGENE

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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