Tma7 (translation machinery associated 7 homolog) - Rat Genome Database

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Gene: Tma7 (translation machinery associated 7 homolog) Rattus norvegicus
Analyze
Symbol: Tma7
Name: translation machinery associated 7 homolog
RGD ID: 1584795
Description: Orthologous to human TMA7 (translation machinery associated 7 homolog); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Ccdc72; coiled-coil domain containing 72; coiled-coil domain-containing protein 72; hypothetical protein LOC679746; LOC679747; translation machinery associated 7 homolog (S. cerevisiae); translation machinery-associated protein 7; translational machinery associated 7 homolog
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88118,604,680 - 118,609,368 (-)NCBIGRCr8
mRatBN7.28109,726,213 - 109,730,902 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8109,726,196 - 109,735,474 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8115,341,101 - 115,345,781 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08113,540,275 - 113,544,956 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08111,383,082 - 111,387,762 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08117,815,725 - 117,820,422 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8117,815,725 - 117,820,413 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08117,167,470 - 117,172,158 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48114,090,959 - 114,095,761 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8109,017,504 - 109,022,192 (-)NCBICelera
Cytogenetic Map8q32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Tma7
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88118,604,680 - 118,609,368 (-)NCBIGRCr8
mRatBN7.28109,726,213 - 109,730,902 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8109,726,196 - 109,735,474 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8115,341,101 - 115,345,781 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08113,540,275 - 113,544,956 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08111,383,082 - 111,387,762 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08117,815,725 - 117,820,422 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8117,815,725 - 117,820,413 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08117,167,470 - 117,172,158 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48114,090,959 - 114,095,761 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera8109,017,504 - 109,022,192 (-)NCBICelera
Cytogenetic Map8q32NCBI
TMA7
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38348,440,257 - 48,444,208 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl348,440,257 - 48,444,208 (+)EnsemblGRCh38hg38GRCh38
GRCh37348,481,667 - 48,485,616 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36348,456,690 - 48,460,541 (+)NCBINCBI36Build 36hg18NCBI36
Celera348,432,457 - 48,436,308 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef348,535,990 - 48,539,688 (+)NCBIHuRef
CHM1_1348,433,970 - 48,437,822 (+)NCBICHM1_1
T2T-CHM13v2.0348,468,270 - 48,472,220 (+)NCBIT2T-CHM13v2.0
Tma7
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399108,907,056 - 108,911,449 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9108,903,636 - 108,911,655 (-)EnsemblGRCm39 Ensembl
GRCm389109,077,988 - 109,082,381 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9109,074,568 - 109,082,587 (-)EnsemblGRCm38mm10GRCm38
MGSCv379108,980,502 - 108,984,895 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369108,935,394 - 108,939,787 (-)NCBIMGSCv36mm8
Celera9108,636,789 - 108,641,235 (-)NCBICelera
Cytogenetic Map9F2NCBI
cM Map959.63NCBI
Tma7
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495542016,389,256 - 16,389,553 (-)NCBIChiLan1.0ChiLan1.0
TMA7
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2248,415,033 - 48,419,071 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1348,419,865 - 48,423,839 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0348,362,222 - 48,366,235 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1349,445,038 - 49,448,342 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl349,445,111 - 49,448,009 (+)Ensemblpanpan1.1panPan2
TMA7
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12740,713,865 - 40,714,228 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2740,713,879 - 40,714,073 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.02741,069,789 - 41,070,176 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2741,069,815 - 41,070,009 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12741,007,478 - 41,007,869 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02740,982,902 - 40,983,284 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0275,379,206 - 5,379,602 (-)NCBIUU_Cfam_GSD_1.0
LOC110599066
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X12,497,962 - 12,498,310 (-)NCBIHiC_Itri_2
SpeTri2.0NW_004936624659,521 - 659,879 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC100521518
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1331,153,629 - 31,156,339 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11331,153,614 - 31,156,339 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21334,418,084 - 34,420,799 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103227881
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12230,955,816 - 30,956,320 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_023666041135,831,875 - 135,832,328 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Tma7
16 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:165
Count of miRNA genes:86
Interacting mature miRNAs:91
Transcripts:ENSRNOT00000068775, ENSRNOT00000075819
Prediction methods:Microtar, 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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303171Bp331Blood pressure QTL 3315.570.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)861290298119084929Rat
1549909Stresp11Stress response QTL 116.830.0019stress-related behavior trait (VT:0010451)number of approaches toward negative stimulus before onset of defensive burying response (CMO:0001960)873473045118473045Rat
631210Bw3Body weight QTL35.9mesenteric fat pad mass (VT:0010427)mesenteric fat pad weight to body weight ratio (CMO:0000654)869349194112783834Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
9590292Uminl3Urine mineral level QTL 33.620.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)871888757116888757Rat
8694446Bw170Body weight QTL 17012.070.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)871888757116888757Rat
631650Stl6Serum triglyceride level QTL 640.0019blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)810378157112202585Rat
631653Bp125Blood pressure QTL 1253.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)866142385111142385Rat
1581557Eae16Experimental allergic encephalomyelitis QTL 163.8nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)88462195110921472Rat
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
724539Cm19Cardiac mass QTL 192.6heart mass (VT:0007028)calculated heart weight (CMO:0000073)8100149864120994388Rat
70197BpQTLcluster8Blood pressure QTL cluster 83.482arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)846531639119088626Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
2300181Bmd55Bone mineral density QTL 555.70.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)876468691121468691Rat
1300171Bp184Blood pressure QTL 1843.66arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)870513503118219066Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
2313400Anxrr25Anxiety related response QTL 25aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)889265192114019816Rat
8694200Abfw4Abdominal fat weight QTL 49.070.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)871888757116888757Rat
8694392Bw161Body weight QTL 1618.060.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)871888757116888757Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat

Markers in Region
RH140669  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map8q32UniSTS


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 endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 21 141 225 145 69 145 36 45 250 115 145 57 24
Low
Below cutoff

Sequence


Ensembl Acc Id: ENSRNOT00000075819   ⟹   ENSRNOP00000065251
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8109,726,196 - 109,730,902 (-)Ensembl
Rnor_6.0 Ensembl8117,815,725 - 117,820,413 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000119465   ⟹   ENSRNOP00000080908
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8109,726,213 - 109,735,474 (-)Ensembl
RefSeq Acc Id: NM_001126048   ⟹   NP_001119520
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88118,604,680 - 118,609,368 (-)NCBI
mRatBN7.28109,726,213 - 109,730,902 (-)NCBI
Rnor_6.08117,815,725 - 117,820,413 (-)NCBI
Rnor_5.08117,167,470 - 117,172,158 (-)NCBI
RGSC_v3.48114,090,959 - 114,095,761 (-)RGD
Celera8109,017,504 - 109,022,192 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001119520 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL77113 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000065251.3
  ENSRNOP00000080908.1
RefSeq Acc Id: NP_001119520   ⟸   NM_001126048
- UniProtKB: A6I3B4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000065251   ⟸   ENSRNOT00000075819
Ensembl Acc Id: ENSRNOP00000080908   ⟸   ENSRNOT00000119465

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZZW2-F1-model_v2 AlphaFold D3ZZW2 1-64 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13696322
Promoter ID:EPDNEW_R6847
Type:multiple initiation site
Name:Tma7_1
Description:translation machinery associated 7 homolog
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.08117,820,399 - 117,820,459EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1584795 AgrOrtholog
BioCyc Gene G2FUF-29091 BioCyc
Ensembl Genes ENSRNOG00000047225 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000075819.3 UniProtKB/TrEMBL
  ENSRNOT00000119465.1 UniProtKB/TrEMBL
InterPro TMA7 UniProtKB/TrEMBL
KEGG Report rno:679747 UniProtKB/TrEMBL
NCBI Gene 679747 ENTREZGENE
PANTHER PTHR28632 UniProtKB/TrEMBL
  TRANSLATION MACHINERY-ASSOCIATED PROTEIN 7 UniProtKB/TrEMBL
Pfam TMA7 UniProtKB/TrEMBL
PhenoGen Tma7 PhenoGen
RatGTEx ENSRNOG00000047225 RatGTEx
UniProt A0A8I5ZQK2_RAT UniProtKB/TrEMBL
  A6I3B4 ENTREZGENE, UniProtKB/TrEMBL
  D3ZZW2_RAT UniProtKB/TrEMBL
UniProt Secondary M0R734 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-10-01 Tma7  translation machinery associated 7 homolog  Tma7  translation machinery associated 7 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-06-08 Tma7  translation machinery associated 7 homolog (S. cerevisiae)  Tma7  translational machinery associated 7 homolog  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-09-25 Tma7  translational machinery associated 7 homolog  Ccdc72  coiled-coil domain containing 72  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Ccdc72  coiled-coil domain containing 72  LOC679747  hypothetical protein LOC679746  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC679747  hypothetical protein LOC679746  LOC686398  hypothetical protein LOC686398  Data merged from RGD:1583108 1643240 APPROVED
2006-11-19 LOC679747  hypothetical protein LOC679746      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC686398  hypothetical protein LOC686398      Symbol and Name status set to provisional 70820 PROVISIONAL