TTR (transthyretin) - Rat Genome Database

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Gene: TTR (transthyretin) Canis lupus familiaris
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Symbol: TTR
Name: transthyretin
RGD ID: 12246586
Description: ENCODES a protein that exhibits hormone binding (ortholog); protein-containing complex binding (ortholog); small molecule binding (ortholog); INVOLVED IN retinol metabolic process (inferred); signal transduction (inferred); thyroid hormone transport (inferred); PARTICIPATES IN forkhead class A signaling pathway; retinoic acid metabolic pathway; ASSOCIATED WITH acute kidney failure (ortholog); Alzheimer's disease (ortholog); Amyloid Neuropathies (ortholog); FOUND IN extracellular space (ortholog); protein-containing complex (ortholog); INTERACTS WITH digoxin; Doramectin; ivermectin
Type: protein-coding
RefSeq Status: MODEL
Also known as: transthyretin (prealbumin, amyloidosis type I)
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: CanFam3.1 - Dog CanFam3.1 Assembly
Position:
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1757,940,354 - 57,947,084 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl757,914,381 - 57,947,058 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha757,377,465 - 57,384,221 (-)NCBI
ROS_Cfam_1.0757,925,488 - 57,932,242 (-)NCBI
UMICH_Zoey_3.1757,602,079 - 57,608,835 (-)NCBI
UNSW_CanFamBas_1.0757,628,089 - 57,634,838 (-)NCBI
UU_Cfam_GSD_1.0757,917,256 - 57,924,010 (-)NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
digoxin  (EXP)
Doramectin  (EXP)
ivermectin  (EXP)
milbemycin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Genomics

Comparative Map Data
TTR
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1757,940,354 - 57,947,084 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl757,914,381 - 57,947,058 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha757,377,465 - 57,384,221 (-)NCBI
ROS_Cfam_1.0757,925,488 - 57,932,242 (-)NCBI
UMICH_Zoey_3.1757,602,079 - 57,608,835 (-)NCBI
UNSW_CanFamBas_1.0757,628,089 - 57,634,838 (-)NCBI
UU_Cfam_GSD_1.0757,917,256 - 57,924,010 (-)NCBI
TTR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1831,557,009 - 31,598,833 (+)EnsemblGRCh38hg38GRCh38
GRCh381831,591,877 - 31,598,821 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh371829,171,840 - 29,178,784 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361827,425,838 - 27,432,781 (+)NCBINCBI36hg18NCBI36
Build 341827,425,837 - 27,432,781NCBI
Celera1825,978,845 - 25,986,103 (+)NCBI
Cytogenetic Map18q12.1NCBI
HuRef1826,028,609 - 26,035,866 (+)NCBIHuRef
CHM1_11829,099,038 - 29,106,294 (+)NCBICHM1_1
Ttr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391820,797,266 - 20,807,383 (+)NCBIGRCm39mm39
GRCm39 Ensembl1820,798,337 - 20,807,378 (+)Ensembl
GRCm381820,664,209 - 20,674,326 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1820,665,280 - 20,674,321 (+)EnsemblGRCm38mm10GRCm38
MGSCv371820,823,751 - 20,832,827 (+)NCBIGRCm37mm9NCBIm37
MGSCv361820,808,423 - 20,817,329 (+)NCBImm8
Celera1821,160,622 - 21,169,698 (+)NCBICelera
Cytogenetic Map18A2NCBI
cM Map1811.47NCBI
Ttr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21811,941,791 - 11,951,008 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl1811,943,789 - 11,951,008 (+)Ensembl
Rnor_6.01815,532,963 - 15,542,180 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1815,532,963 - 15,540,177 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01815,307,563 - 15,316,780 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41812,406,571 - 12,413,680 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11812,433,216 - 12,440,326 (+)NCBI
Celera1811,951,406 - 11,958,617 (+)NCBICelera
RH 3.4 Map1891.82RGD
Cytogenetic Map18p12NCBI
Ttr
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540218,921,274 - 18,928,108 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540218,921,235 - 18,927,976 (+)NCBIChiLan1.0ChiLan1.0
TTR
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11828,407,893 - 28,414,960 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1828,407,893 - 28,414,960 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01824,809,707 - 24,816,713 (+)NCBIMhudiblu_PPA_v0panPan3
Ttr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494453,626,908 - 53,633,974 (-)NCBI
SpeTri2.0NW_0049366821,628,489 - 1,635,495 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TTR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6115,496,193 - 115,503,977 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16115,496,338 - 115,503,974 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.26108,123,921 - 108,131,547 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TTR
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11849,124,302 - 49,131,495 (-)NCBI
ChlSab1.1 Ensembl1849,124,121 - 49,131,399 (-)Ensembl
Vero_WHO_p1.0NW_02366605023,774,027 - 23,781,168 (-)NCBI
Ttr
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247701,255,401 - 1,262,019 (-)NCBI


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 reproductive system respiratory system adipose tissue
High 6 6 6
Medium 2 4
Low 3 1 3 3 4 4 4
Below cutoff 1 4 9 2 5 1 3 2 5 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSCAFT00000028679   ⟹   ENSCAFP00000026675
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl757,940,354 - 57,947,045 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000088244   ⟹   ENSCAFP00000049371
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl757,914,381 - 57,947,058 (-)Ensembl
RefSeq Acc Id: XM_038482173   ⟹   XP_038338101
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1757,602,079 - 57,608,835 (-)NCBI
RefSeq Acc Id: XM_038543605   ⟹   XP_038399533
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UU_Cfam_GSD_1.0757,917,256 - 57,924,010 (-)NCBI
RefSeq Acc Id: XM_038607728   ⟹   XP_038463656
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0757,628,089 - 57,634,838 (-)NCBI
RefSeq Acc Id: XM_038672408   ⟹   XP_038528336
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0757,925,488 - 57,932,242 (-)NCBI
RefSeq Acc Id: XM_537290   ⟹   XP_537290
RefSeq Status:
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1757,940,354 - 57,947,084 (-)NCBI
Dog10K_Boxer_Tasha757,377,465 - 57,384,221 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_038338101 (Get FASTA)   NCBI Sequence Viewer  
  XP_038399533 (Get FASTA)   NCBI Sequence Viewer  
  XP_038463656 (Get FASTA)   NCBI Sequence Viewer  
  XP_038528336 (Get FASTA)   NCBI Sequence Viewer  
  XP_537290 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_537290   ⟸   XM_537290
- UniProtKB: E2R5U8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSCAFP00000049371   ⟸   ENSCAFT00000088244
RefSeq Acc Id: ENSCAFP00000026675   ⟸   ENSCAFT00000028679
RefSeq Acc Id: XP_038338101   ⟸   XM_038482173
RefSeq Acc Id: XP_038463656   ⟸   XM_038607728
RefSeq Acc Id: XP_038528336   ⟸   XM_038672408
RefSeq Acc Id: XP_038399533   ⟸   XM_038543605

Promoters
RGD ID:13684068
Promoter ID:EPDNEW_C2135
Type:multiple initiation site
Name:TTR_1
Description:transthyretin
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1757,947,044 - 57,947,104EPDNEW

Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCAFG00000018046 Ensembl, ENTREZGENE
Ensembl Protein ENSCAFP00000026675 ENTREZGENE
NCBI Gene TTR ENTREZGENE
UniProt E2R5U8 ENTREZGENE
VGNC ID VGNC:47983 ENTREZGENE