CI01000046_05655039_05668170 (TR-ALPHA, THRAA, THRAB, THRA)


Basic Information

Item Value
gene id CI01000046_05655039_05668170
gene name TR-ALPHA, THRAA, THRAB, THRA
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000046
NCBI id null
chromosome length 7063170
location 5655039 ~ 5668490 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000046_05655039_05668170.mRNA
TTTGTGTTCAGGGGGTGCCTCATGTCTGATCTTGTGTCTGATGTGAGTCATGACATCAAACATCACACTAAAAGGTGTGACATGCAGGTGATAATGCGTGTCAGTGCAATGAAAGAGAGACAGAAAAAAGTGTGACATCCTTCACAAATGAAATCTCTAAAATAAAATAAAAAATCTCTAGATCAATCCCAAGATGGTGTGAACTGCTAAAATATTAAATACTGAGGTCAGCCATTATGGAATAACCCAGTTCGGCTTTCCTATAATTAGACAGAGGCGAGCGGTTGCCTTGGAAATGACAGAGTTATTGACCTTGCACAATGAAGCCATATCAGCTTCAGAGCAGGAATGGAAAAATAACACACAGGCGTGAGGGATATGCATTTATCATTTGGCCTTTTCTCTCTAATGAGAGCAGCTTGGCCTGGGGGTGGCCGAATGGAGTGAAAAGAAAAAGAAAGAATAGTCAATGCTCTATAAAGAGCACGTCTGTGAATAGCATCTCTGTTCTAGGGTATGTTCCCAGCTACCTGGAGAAAGATGAGCCATGTGTGGTGTGCGGGGACAAGGCCACCGGCTACCATTACCGCTGCATCACATGTGAGGGCTGCAAGGGTTTCTTCAGGAGGACAATACAGAAGAATCTTCACCCTTCCTATTCTTGTAAATATGACAGCTGCTGCATCATTGATAAAATCACCCGAAACCAGTGCCAGCTGTGCCGTTTCAAGAAGTGCATCTCAGTGGGCATGGCCATTGACTTGGTGCTGGATGATTCAAAGCGTGTGGCCAAGAGGCGTCTGATCGAGGAAAACCGGGAACGGAGGAAGAAAGAGGAGATTGTGAAAACACTGCACAACCGACCTGAGCCCACTGCCTCGGAGTGGGAGCTCATTCGTATGGTGACGGAGGCTCATCGCCACACCAACGCCCAGGGCCCTCACTGGAAACAGAAACGCAAATTCCTACCAGAAGACATTGGGCAGTCTCCAGCACCCACATCAGACAACGACAAAGTCGACCTGGAGGCCTTCAGTGAGTTCACCAAGATTATCACCCCTGCCATCACACGAGTCGTGGACTTTGCCAAAAAACTGCCCATGTTCTCTGAGCTGCCCTGTGAAGACCAGATTATCCTGCTGAAAGGCTGTTGTATGGAGATCATGTCCTTGCGTGCAGCGGTGCGGTATGACCCAGAGAGCGAGACACTGACCTTGAGTGGAGAGATGGCTGTCAGTCGAGAGCAGCTGAAGAATGGAGGGTTAGGAGTGGTGTCTGATGCCATCTTTGATTTAGGCAAGAGCCTGTCACAGTTCAACCTGGATGACTCAGAGGTGGCGCTGCTGCAGGCTGTACTGCTCATGAGCTCAG

Function

symbol description
thraa Enables nuclear receptor activity. Involved in negative regulation of transcription by RNA polymerase II and positive regulation of transcription by RNA polymerase II. Acts upstream of or within several processes, including neural crest cell development; thyroid hormone mediated signaling pathway; and ventricular system development. Located in nucleus. Is expressed in several structures, including blastodisc; muscle; nervous system; optic cup; and pleuroperitoneal region. Used to study hypothyroidism. Human ortholog(s) of this gene implicated in congenital nongoitrous hypothyroidism 6 and renal cell carcinoma. Orthologous to human THRA (thyroid hormone receptor alpha).
thrab Predicted to enable RNA polymerase II cis-regulatory region sequence-specific DNA binding activity and nuclear receptor activity. Predicted to be involved in cell differentiation; regulation of transcription by RNA polymerase II; and thyroid hormone mediated signaling pathway. Predicted to act upstream of or within regulation of transcription, DNA-templated and retinoic acid receptor signaling pathway. Predicted to be located in nucleus. Is expressed in several structures, including blastodisc; cardiovascular system; mandibular arch skeleton; nervous system; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in congenital nongoitrous hypothyroidism 6 and renal cell carcinoma. Orthologous to human THRA (thyroid hormone receptor alpha).
thra Enables several functions, including TBP-class protein binding activity; nuclear receptor activity; and thyroid hormone binding activity. Involved in hormone-mediated signaling pathway; negative regulation of RNA polymerase II transcription preinitiation complex assembly; and transcription by RNA polymerase II. Located in cytosol and nucleus. Implicated in congenital nongoitrous hypothyroidism 6 and renal cell carcinoma. Biomarker of breast cancer.

GO:

id name namespace
GO:0001076 obsolete transcription factor activity, RNA polymerase II transcription factor binding molecular_function

KEGG:

id description
K05547 THRA, NR1A1; thyroid hormone receptor alpha

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000046_05655039_05668170.mRNA True 1371 mRNA 0.48 7 5655039 5668490

Neighbor

gene id symbol gene type direction distance location
CI01000046_05577451_05586769 FAM134C coding downstream 66940 5576568 ~ 5588099 (-)
CI01000046_05569660_05573084 PSMC3IP coding downstream 81580 5569640 ~ 5573459 (-)
CI01000046_05545427_05560924 FMNL1A coding downstream 93837 5545375 ~ 5561202 (-)
CI01000046_05539022_05539815 NA coding downstream 115224 5539001 ~ 5539815 (-)
CI01000046_05383841_05389838 WNT9B coding downstream 264703 5383480 ~ 5390336 (-)
CI01000046_05718149_05727984 NSFA, NSF coding upstream 49639 5718129 ~ 5727984 (-)
CI01000046_05746299_05753388 PSMD11A, PSMD11B, PSMD11 coding upstream 77809 5746299 ~ 5753388 (-)
CI01000046_05874697_05877228 NA coding upstream 206069 5874559 ~ 5879577 (-)
CI01000046_06054062_06061413 NA coding upstream 385504 6053863 ~ 6061555 (-)
CI01000046_06095369_06102443 NA coding upstream 426533 6095023 ~ 6102710 (-)
G198851 NA non-coding downstream 139202 5513589 ~ 5515837 (-)
G198808 NA non-coding downstream 169261 5431815 ~ 5485778 (-)
G198819 NA non-coding downstream 187320 5460450 ~ 5467719 (-)
G198701 NA non-coding downstream 223315 5401347 ~ 5431724 (-)
G198772 NA non-coding downstream 518332 5136479 ~ 5136707 (-)
G198912 NA non-coding upstream 101514 5770004 ~ 5770284 (-)
G198718 NA non-coding upstream 137984 5806474 ~ 5807357 (-)
G198927 NA non-coding upstream 175220 5843710 ~ 5844346 (-)
G198935 NA non-coding upstream 196199 5864689 ~ 5867905 (-)
G198939 NA non-coding upstream 316450 5984940 ~ 5987398 (-)
G198265 NA other downstream 1854938 3665243 ~ 3800101 (-)
CI01000046_02866255_02867695 MRM2, FTSJ2 other downstream 2787245 2866070 ~ 2867794 (-)
G196463 NA other downstream 3486395 2168266 ~ 2168644 (-)
CI01000046_00777923_00780186 RPC11, POLR3K, POLR3K.S other downstream 4874746 774434 ~ 780293 (-)
G195098 NA other downstream 4978911 670736 ~ 676128 (-)
G199054 NA other upstream 428869 6097359 ~ 6097674 (-)
G199014 NA other upstream 695688 6364178 ~ 6375406 (-)
G199130 NA other upstream 909490 6577980 ~ 6594210 (-)
G199181 NA other upstream 1158195 6826685 ~ 6830453 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location