Tmem178b (transmembrane protein 178B) - Rat Genome Database

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Gene: Tmem178b (transmembrane protein 178B) Mus musculus
Analyze
Symbol: Tmem178b
Name: transmembrane protein 178B
RGD ID: 1614722
MGI Page MGI
Description: Predicted to be active in membrane. Is expressed in cortical plate; dorsal root ganglion; and spinal cord. Orthologous to human TMEM178B (transmembrane protein 178B).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: A930009E05Rik; EG434008; Gm5567; hypothetical protein LOC434008; hypothetical protein LOC77796; RIKEN cDNA A930009E05 gene; uncharacterized protein LOC434008; uncharacterized protein LOC77796
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39639,848,164 - 40,232,084 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl639,848,395 - 40,232,084 (+)EnsemblGRCm39 Ensembl
GRCm38639,871,230 - 40,255,150 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl639,871,461 - 40,255,150 (+)EnsemblGRCm38mm10GRCm38
MGSCv37640,060,252 - 40,198,352 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36640,039,860 - 40,177,960 (+)NCBIMGSCv36mm8
Celera640,097,548 - 40,235,798 (+)NCBICelera
Cytogenetic Map6B1NCBI
cM Map618.82NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IBA)

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:19243017   PMID:21267068   PMID:21677750   PMID:21873635  
PMID:28092667   PMID:34321999  


Genomics

Comparative Map Data
Tmem178b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39639,848,164 - 40,232,084 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl639,848,395 - 40,232,084 (+)EnsemblGRCm39 Ensembl
GRCm38639,871,230 - 40,255,150 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl639,871,461 - 40,255,150 (+)EnsemblGRCm38mm10GRCm38
MGSCv37640,060,252 - 40,198,352 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36640,039,860 - 40,177,960 (+)NCBIMGSCv36mm8
Celera640,097,548 - 40,235,798 (+)NCBICelera
Cytogenetic Map6B1NCBI
cM Map618.82NCBI
TMEM178B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387141,074,064 - 141,511,296 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7141,074,064 - 141,480,380 (+)EnsemblGRCh38hg38GRCh38
GRCh377140,773,864 - 141,180,180 (+)NCBIGRCh37GRCh37hg19GRCh37
Celera7135,495,856 - 135,892,222 (+)NCBICelera
Cytogenetic Map7q34NCBI
HuRef7135,070,061 - 135,476,176 (+)NCBIHuRef
CHM1_17140,708,635 - 141,114,459 (+)NCBICHM1_1
T2T-CHM13v2.07142,388,269 - 142,827,078 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27140,112,364 - 140,517,904 (+)NCBI
Tmem178b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8469,626,188 - 70,002,400 (+)NCBIGRCr8
mRatBN7.2468,659,425 - 69,035,690 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl468,657,343 - 69,035,690 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx473,587,885 - 73,964,173 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0469,508,998 - 69,885,295 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0467,920,067 - 68,296,772 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0467,669,266 - 68,059,249 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl468,011,932 - 68,059,249 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0467,476,252 - 67,864,206 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4467,516,104 - 67,790,853 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera463,663,282 - 64,038,672 (+)NCBICelera
Cytogenetic Map4q23NCBI
Tmem178b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554942,081,953 - 2,442,845 (-)NCBIChiLan1.0ChiLan1.0
TMEM178B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26177,855,197 - 178,261,943 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1729,865,451 - 30,272,198 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07132,997,828 - 133,404,714 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17145,468,670 - 145,875,281 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7145,469,580 - 145,865,699 (+)Ensemblpanpan1.1panPan2
TMEM178B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1167,698,154 - 8,042,210 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl167,707,656 - 8,042,085 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha168,542,269 - 8,885,924 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0167,618,659 - 7,961,428 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl167,628,188 - 7,961,340 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1167,571,577 - 7,913,457 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0167,414,292 - 7,757,515 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0167,482,669 - 7,825,184 (-)NCBIUU_Cfam_GSD_1.0
Tmem178b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511813,841,443 - 14,182,165 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365925,037,632 - 5,375,963 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365925,037,638 - 5,380,865 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TMEM178B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl188,448,887 - 8,843,542 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1188,440,037 - 8,843,480 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2189,364,613 - 9,365,051 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TMEM178B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121109,821,547 - 110,219,623 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660726,496,390 - 6,905,997 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tmem178b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476521,104,224 - 21,501,628 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tmem178b
11265 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1425
Count of miRNA genes:652
Interacting mature miRNAs:858
Transcripts:ENSMUST00000061740, ENSMUST00000180588, ENSMUST00000180886
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
25440480Moaq2_mmodifier of alien QTL 2 (mouse)63050001117476961Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139076998Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487403016Mouse
11353840Bmiq2_mbody mass index QTL 2 (mouse)6450382345291115Mouse
1357520Axtq2_manxiety QTL 2 (mouse)Not determined6450382348703611Mouse
1357481Aaj2_manxiety in A/J 2 (mouse)Not determined6450382348703611Mouse
11353841Bmiq3_mbody mass index QTL 3 (mouse)6450382348703611Mouse
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396633110Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396633110Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396633110Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396633110Mouse
26884441Sklq3_mskull length QTL 3, 5 week (mouse)6760000080576983Mouse
1302051Sluc7_msusceptibility to lung cancer 7 (mouse)Not determined6929707443297168Mouse
10043869Cia6a_mcollagen induced arthritis QTL 6a (mouse)Not determined61211797146118069Mouse
4141749Obrq2_mobesity resistance QTL 2 (mouse)Not determined1275122146751333Mouse
1301998Bts2_mbladder tumor susceptibility 2 (mouse)Not determined61275122146751333Mouse
27226726Tibmd7_mtibia midshaft diameter 7, 16 week (mouse)61769999953476985Mouse
1301850Fglu_mfasting glucose (mouse)Not determined61771159851711719Mouse
1301724Pcd4ts1_mp-glycoprotein positive CD4 T cell subset 1 (mouse)Not determined61771159851711719Mouse
4140989Spqq2_msperm quality QTL 2 (mouse)Not determined1771159851711719Mouse
1357442Dbts1_mdiabetes 1 (mouse)Not determined61823414773364675Mouse
12904940Edlmmq5_mextensor digitorum longus muscle mass QTL 5 (mouse)61961634653616346Mouse
12904943Tammq4_mtibialis anterior muscle mass QTL 4 (mouse)61961634653616346Mouse
12904952Gmmq4_mgastrocnemius muscle mass QTL 4 (mouse)61961634653616346Mouse
10412213Sxbq2_mSGC/Knj cross B6 QTL 2 (mouse)Not determined61991268571299759Mouse
10412107Desp4_mdespair 4 (mouse)Not determined62004983054049830Mouse
14700690Ccs6_mcolon cancer susceptibility 6 (mouse)62377693457776934Mouse
13208564Bmiq7_mbody mass index QTL 7 (mouse)62499999979976983Mouse
4141988Obrq3_mobesity resistance QTL 3 (mouse)Not determined2829099362291115Mouse
4141454Obrq4_mobesity resistance QTL 4 (mouse)Not determined3170349965703611Mouse
12880425V25Dq5_mvitamin D inactive form serum level QTL 5 (mouse)63267698066676980Mouse
4141782Mrdq5_mmodifier of retinal degeneration QTL 5 (mouse)Not determined3282758578215957Mouse
1300959Lxw2_mlupus BXSB x NZW 2 (mouse)Not determined63387226167872400Mouse
11252142Mom12_mModifier of Min 12 (mouse)63387226167872400Mouse
1300767Aliq4_macute lung injury QTL 4 (mouse)Not determined63627333270273435Mouse
1357539Bsbob3_mBSB obesity 3 (mouse)Not determined63644845670448576Mouse
4141094Hrtr1_mheart rate 1 (mouse)Not determined3674146370741463Mouse
14746995Manh60_mmandible shape 60 (mouse)63720266271202662Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63864656092584431Mouse

Markers in Region
UniSTS:224210  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38640,167,833 - 40,167,995UniSTSGRCm38
MGSCv37640,117,832 - 40,117,994UniSTSGRCm37
Celera640,155,241 - 40,155,403UniSTS
Cytogenetic Map6B1UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000061740   ⟹   ENSMUSP00000055268
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl640,087,185 - 40,225,371 (+)Ensembl
GRCm38.p6 Ensembl640,110,251 - 40,248,437 (+)Ensembl
RefSeq Acc Id: ENSMUST00000180588
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl640,225,835 - 40,232,084 (+)Ensembl
GRCm38.p6 Ensembl640,248,901 - 40,255,150 (+)Ensembl
RefSeq Acc Id: ENSMUST00000180886   ⟹   ENSMUSP00000137869
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl639,850,005 - 40,232,009 (+)Ensembl
GRCm38.p6 Ensembl639,873,071 - 40,255,075 (+)Ensembl
RefSeq Acc Id: ENSMUST00000239008   ⟹   ENSMUSP00000159180
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl639,848,395 - 40,222,706 (+)Ensembl
GRCm38.p6 Ensembl639,871,461 - 40,245,772 (+)Ensembl
RefSeq Acc Id: NM_001004182   ⟹   NP_001004182
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39640,087,187 - 40,232,084 (+)NCBI
GRCm38640,110,253 - 40,255,150 (+)NCBI
MGSCv37640,060,252 - 40,198,352 (+)RGD
Celera640,097,548 - 40,235,798 (+)RGD
cM Map6 ENTREZGENE
Sequence:
RefSeq Acc Id: NM_001360978   ⟹   NP_001347907
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39639,848,370 - 40,232,084 (+)NCBI
GRCm38639,871,436 - 40,255,150 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006506361   ⟹   XP_006506424
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39639,848,164 - 39,985,958 (+)NCBI
GRCm38639,871,230 - 40,009,024 (+)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001004182   ⟸   NM_001004182
- Peptide Label: isoform 2
- UniProtKB: Q8BNC6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006506424   ⟸   XM_006506361
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: NP_001347907   ⟸   NM_001360978
- Peptide Label: isoform 1 precursor
- UniProtKB: A0A5F8MQ13 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSMUSP00000159180   ⟸   ENSMUST00000239008
RefSeq Acc Id: ENSMUSP00000055268   ⟸   ENSMUST00000061740
RefSeq Acc Id: ENSMUSP00000137869   ⟸   ENSMUST00000180886

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A5F8MQ13-F1-model_v2 AlphaFold A0A5F8MQ13 1-294 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3647581 AgrOrtholog
Ensembl Genes ENSMUSG00000057716 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000061740 ENTREZGENE
  ENSMUST00000061740.8 UniProtKB/TrEMBL
  ENSMUST00000180886.3 UniProtKB/TrEMBL
  ENSMUST00000239008 ENTREZGENE
  ENSMUST00000239008.2 UniProtKB/TrEMBL
Gene3D-CATH 1.20.140.150 UniProtKB/TrEMBL
InterPro PMP22/EMP/MP20/Claudin UniProtKB/TrEMBL
  T178A/B UniProtKB/TrEMBL
KEGG Report mmu:434008 UniProtKB/TrEMBL
MGD MGI:3647581 ENTREZGENE
NCBI Gene 434008 ENTREZGENE
PANTHER PTHR32005 UniProtKB/TrEMBL
  TRANSMEMBRANE PROTEIN 178B UniProtKB/TrEMBL
Pfam Claudin_2 UniProtKB/TrEMBL
PhenoGen Tmem178b PhenoGen
UniProt A0A5F8MQ13 ENTREZGENE, UniProtKB/TrEMBL
  M0QWJ9_MOUSE UniProtKB/TrEMBL
  Q8BNC6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-02-27 Tmem178b  transmembrane protein 178B  A930009E05Rik  RIKEN cDNA A930009E05 gene  Data merged from RGD:1608600 737654 PROVISIONAL
2012-12-25 Tmem178b  transmembrane protein 178B  Gm5567  predicted gene 5567  Symbol and/or name change 5135510 APPROVED