TTR (transthyretin) - Rat Genome Database

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Gene: TTR (transthyretin) Canis lupus familiaris
Analyze
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 purine nucleobase metabolic process (inferred); signal transduction (inferred); PARTICIPATES IN forkhead class A signaling pathway; retinoic acid metabolic pathway; ASSOCIATED WITH acute kidney failure (ortholog); adenosquamous lung carcinoma (ortholog); Alzheimer's disease (ortholog); FOUND IN extracellular space (ortholog); protein-containing complex (ortholog); INTERACTS WITH digoxin; Doramectin; ivermectin
Type: protein-coding
RefSeq Status: MODEL
Previously 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 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0757,925,488 - 57,932,242 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl757,925,494 - 58,154,308 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1757,602,079 - 57,608,835 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0757,628,089 - 57,634,838 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0757,917,256 - 57,924,010 (-)NCBIUU_Cfam_GSD_1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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
Additional References at PubMed
PMID:30032202  


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 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0757,925,488 - 57,932,242 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl757,925,494 - 58,154,308 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1757,602,079 - 57,608,835 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0757,628,089 - 57,634,838 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0757,917,256 - 57,924,010 (-)NCBIUU_Cfam_GSD_1.0
TTR
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381831,591,877 - 31,598,821 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1831,557,009 - 31,598,833 (+)EnsemblGRCh38hg38GRCh38
GRCh371829,171,840 - 29,178,784 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361827,425,838 - 27,432,781 (+)NCBINCBI36Build 36hg18NCBI36
Build 341827,425,837 - 27,432,781NCBI
Celera1825,978,845 - 25,986,103 (+)NCBICelera
Cytogenetic Map18q12.1NCBI
HuRef1826,028,609 - 26,035,866 (+)NCBIHuRef
CHM1_11829,099,038 - 29,106,294 (+)NCBICHM1_1
T2T-CHM13v2.01831,782,391 - 31,789,335 (+)NCBIT2T-CHM13v2.0
Ttr
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391820,797,266 - 20,807,383 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1820,798,337 - 20,807,378 (+)EnsemblGRCm39 Ensembl
GRCm381820,664,209 - 20,674,326 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1820,665,280 - 20,674,321 (+)EnsemblGRCm38mm10GRCm38
MGSCv371820,823,751 - 20,832,827 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361820,808,423 - 20,817,329 (+)NCBIMGSCv36mm8
Celera1821,160,622 - 21,169,698 (+)NCBICelera
Cytogenetic Map18A2NCBI
cM Map1811.47NCBI
Ttr
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81812,216,684 - 12,225,972 (+)NCBIGRCr8
mRatBN7.21811,941,791 - 11,951,008 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1811,943,789 - 11,951,008 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1812,139,290 - 12,146,732 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01812,926,943 - 12,934,381 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01812,198,580 - 12,206,019 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
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 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
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
NHGRI_mPanPan1-v21748,984,354 - 48,991,368 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11834,676,950 - 34,683,964 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01824,809,707 - 24,816,713 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11828,407,893 - 28,414,960 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1828,407,893 - 28,414,960 (+)Ensemblpanpan1.1panPan2
Ttr
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494453,626,908 - 53,633,974 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366821,628,341 - 1,635,566 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366821,628,489 - 1,635,495 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TTR
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6115,496,326 - 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 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1849,124,121 - 49,131,399 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605023,774,027 - 23,781,168 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ttr
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247701,251,716 - 1,262,213 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247701,255,401 - 1,262,019 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in TTR
188 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 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
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl757,940,354 - 57,947,045 (-)Ensembl
RefSeq Acc Id: ENSCAFT00000088244   ⟹   ENSCAFP00000049371
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
CanFam3.1 Ensembl757,914,381 - 57,947,058 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845018670   ⟹   ENSCAFP00845014575
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl757,925,494 - 57,932,181 (-)Ensembl
RefSeq Acc Id: ENSCAFT00845018714   ⟹   ENSCAFP00845014609
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0 Ensembl757,925,506 - 58,154,308 (-)Ensembl
RefSeq Acc Id: XM_038482173   ⟹   XP_038338101
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UMICH_Zoey_3.1757,602,079 - 57,608,835 (-)NCBI
RefSeq Acc Id: XM_038543605   ⟹   XP_038399533
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
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
UNSW_CanFamBas_1.0757,628,089 - 57,634,838 (-)NCBI
RefSeq Acc Id: XM_038672408   ⟹   XP_038528336
Type: CODING
Position:
Dog AssemblyChrPosition (strand)Source
ROS_Cfam_1.0757,925,488 - 57,932,242 (-)NCBI
RefSeq Acc Id: XM_537290   ⟹   XP_537290
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:
Reference Protein Sequences
RefSeq Acc Id: XP_537290   ⟸   XM_537290
- UniProtKB: A0A8C0KJ94 (UniProtKB/TrEMBL),   A0A8C0YWX6 (UniProtKB/TrEMBL),   A0A8I3NFK0 (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
- UniProtKB: A0A8C0KJ94 (UniProtKB/TrEMBL),   A0A8C0YWX6 (UniProtKB/TrEMBL),   A0A8I3NFK0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038399533   ⟸   XM_038543605
- UniProtKB: A0A8C0KJ94 (UniProtKB/TrEMBL),   A0A8C0YWX6 (UniProtKB/TrEMBL),   A0A8I3NFK0 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCAFP00845014575   ⟸   ENSCAFT00845018670
RefSeq Acc Id: ENSCAFP00845014609   ⟸   ENSCAFT00845018714
Protein Domains
Transthyretin/hydroxyisourate hydrolase

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, UniProtKB/TrEMBL
  ENSCAFG00030001256 UniProtKB/TrEMBL
  ENSCAFG00040012679 UniProtKB/TrEMBL
  ENSCAFG00845010593 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCAFT00000028679.5 UniProtKB/TrEMBL
  ENSCAFT00000088244.2 UniProtKB/TrEMBL
  ENSCAFT00030002208.1 UniProtKB/TrEMBL
  ENSCAFT00040023363.1 UniProtKB/TrEMBL
  ENSCAFT00845018670 ENTREZGENE
  ENSCAFT00845018670.1 UniProtKB/TrEMBL
  ENSCAFT00845018714.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.180 UniProtKB/TrEMBL
InterPro Thyroxine_BS UniProtKB/TrEMBL
  Transthyretin/HIU_hydrolase UniProtKB/TrEMBL
  Transthyretin/HIU_hydrolase_d UniProtKB/TrEMBL
  Transthyretin/HIU_hydrolase_sf UniProtKB/TrEMBL
  Transthyretin_CS UniProtKB/TrEMBL
KEGG Report cfa:480167 UniProtKB/TrEMBL
NCBI Gene TTR ENTREZGENE
PANTHER PTHR10395 UniProtKB/TrEMBL
  PTHR10395:SF12 UniProtKB/TrEMBL
Pfam Transthyretin UniProtKB/TrEMBL
PRINTS TRNSTHYRETIN UniProtKB/TrEMBL
PROSITE TRANSTHYRETIN_1 UniProtKB/TrEMBL
  TRANSTHYRETIN_2 UniProtKB/TrEMBL
SMART TR_THY UniProtKB/TrEMBL
Superfamily-SCOP SSF49472 UniProtKB/TrEMBL
UniProt A0A8C0KJ94 ENTREZGENE
  A0A8C0RA37_CANLF UniProtKB/TrEMBL
  A0A8C0YWX6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I3NAM6_CANLF UniProtKB/TrEMBL
  A0A8I3NFK0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8P0NZD9_CANLF UniProtKB/TrEMBL
VGNC ID VGNC:47983 ENTREZGENE