RNA id: TCONS_00055130


Basic Information

Item Value
RNA id TCONS_00055130
length 1761
RNA type mRNA
GC content 0.56
exon number 11
gene id XLOC_028386
representative False

Chromosome Information

Item Value
chromosome id NC_007115.7
NCBI id CM002888.2
chromosome length 78093715
location 929557 ~ 948842 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATGAAGGAGAAATCAAAGACTGCGGCGAGGACGCGGCGGGAGAAGGAGAACAGCGAGTTTTACGAGCTCGCCAAAATGTTGCCTTTGCCGTCCGCCATCACGTCTCAACTGGACAAAGCGTCCATCATCAGACTGACCAGCAGCTACCTGAAGATGAGACTGGTGTTCCCGCAAGGTTTGGGAGAGGTGTGGGGTCAAGCGGGGCGAACCAGATCTGGAGAAAACCCATCCCATGAGCTCGGATCTCATTTACTCCAGGTAATAATCAGCAAGATGCTCCAGACTTTAGACGGGTTTATATTTGTAGTGGCTGCGGATGGGAAGATCATGTACATCTCTGAGACGGCGTCGGTTCATCTGGGCCTTTCACAGGTAGAATTGACCGGAAACAGTATTTATGAATACGTTCATCCGGCGGATCATGACGAGATGGCGGCGGTGCTGACTCCACAACCTTCATATCATTCACACTTCGTCCAGGAGTACGAGGTGGAGCGATCGTTTTTCCTGAGGATGAAGTGTGTTTTGGCGAAGCGAAACGCCGGACTGACGAGTGGAGGATATAAGGTGATCCACTGCAGCGGGTACCTGAAGATCCGCCAGTTCAGTCTGGATGCGTCTCCGTTCGATGGCTGCTATCAGAACGTGGGTCTGGTGGCCGTCGGACACACACTCCCACCGAGCGCCGTCACAGAGATCAAACTACACAGCAACATGTTCATGTTTCGAGCCAGTCTGGACATGAAGCTCATCTTCCTGGACTCACGGGTGTCAGATCTGACCGGGTATGAGCCACAGGACCTGATTGAGAAGACCCTGTATCATCACGTGCACTGCTGTGACAGTTTTCACCTGCGCTGCGCTCATCACCTCTTGCTGGTCAAAGGTCAGGTGACCACTAAGTATTACCGCTTCCTGTCAAAGCGAGGTGGCTGGGTTTGGGTGCAGAGCTACGCCACAATCGTCCACAACAGCCGCTCGTCTCGACCGCACTGCATCGTCAGCGTCAACTACGTCCTCACggaCACGGAGTATAAGGGCCTGATTCTGTCTCTGGATCAGCTGAATCCCAGAAAACCAGCCTTTCCCTACGCAAACCACAGCGATAAAACACACACGACCAACAGCAGGAGTAAAATCCTGCTCTCTCACTACTCAcagCAGTTTTCCTCCTTCCCGCCGGATCGCTCAGACTCGGATCACGACAGCCAATGGGAGGACAGTCCTCTGACAGACTCCGCCTCCCCGCAGCGTCTGGACCGCAGCGATTCGGTGTGCTTCAGCCTCGCTCAGAGCGACGTGATGCAGTCgtgttcacaaacacacacacctctgttCAACAGAGACGGCTGGTGGGACGCACGCGCCGCAAACCAGCACTCGCAcgCGGTGTGGGATGAGGATCTGAGCTCTTCTTCAGCTCAGTCTGCAGACGGTGCTCAGAGTCTGATCAGAGCCGCGCCGGAGCTCATTAAGGTGGAGGAGGCTCACATGCGGGATTATTCCTCCTCCTCTCTGTTCTCCTCCGCCCGCCACAGAGATGGAGATCCGGACGGCAGCCCCGCGTCTCTGTCGGCCCTCAGCAGCCCCGGCTCCGACAGGCCGTCCCAGCCGCTGTCAGCCTCTCCGCCCGCGCtggagaccacacacacacaccccagccTGCGCGCGTATTCTGCACACTACGACATCAACACACACTTCCAGAGCAGCACAACGGCACACAACGGCACGTCTGTCATCATCACCAACGGCAGCTGA

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0005634 nucleus cellular_component
GO:0005667 transcription regulator complex cellular_component
GO:0005737 cytoplasm cellular_component
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0046983 protein dimerization activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-041210-5 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within cell differentiation; nervous system development; and regulation of transcription, DNA-templated. Predicted to be located in cytoplasm and nucleus. Predicted to be part of transcription regulator complex. Is expressed in caudal tuberculum; diencephalon; hypothalamus; midbrain; and preoptic area. Human ortholog(s) of this gene implicated in obesity. Orthologous to human SIM1 (SIM bHLH transcription factor 1).

Ensembl:

ensembl_id ENSDART00000023483

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00057978 lncRNA downstream 7796 919752 ~ 921761 (-) True XLOC_028385
TCONS_00057977 lncRNA downstream 25535 899962 ~ 904022 (-) True XLOC_028383
TCONS_00057976 lncRNA downstream 25569 899962 ~ 903988 (-) False XLOC_028383
TCONS_00055118 lncRNA downstream 157165 771352 ~ 772392 (-) True XLOC_028378
TCONS_00055116 lncRNA downstream 159737 764396 ~ 769820 (-) False XLOC_028378
TCONS_00057979 lncRNA upstream 62184 1010960 ~ 1013095 (-) True XLOC_028389
TCONS_00057307 lncRNA upstream 73540 1022316 ~ 1023700 (-) True XLOC_028391
TCONS_00057980 lncRNA upstream 80060 1028836 ~ 1036046 (-) True XLOC_028392
TCONS_00057981 lncRNA upstream 105885 1054661 ~ 1104776 (-) False XLOC_028393
TCONS_00057982 lncRNA upstream 123491 1072267 ~ 1259741 (-) False XLOC_028393
TCONS_00055129 mRNA downstream 20736 905483 ~ 908821 (-) True XLOC_028384
TCONS_00055128 mRNA downstream 39337 862048 ~ 890220 (-) True XLOC_028382
TCONS_00055127 mRNA downstream 49142 861444 ~ 880415 (-) False XLOC_028382
TCONS_00055125 mRNA downstream 71123 823398 ~ 858434 (-) False XLOC_028381
TCONS_00055124 mRNA downstream 91738 818928 ~ 837819 (-) False XLOC_028381
TCONS_00055132 mRNA upstream 9275 958051 ~ 965267 (-) True XLOC_028387
TCONS_00055133 mRNA upstream 33252 982028 ~ 991043 (-) False XLOC_028388
TCONS_00055134 mRNA upstream 37184 985960 ~ 992148 (-) True XLOC_028388
TCONS_00055135 mRNA upstream 65772 1014548 ~ 1015896 (-) True XLOC_028390
TCONS_00055136 mRNA upstream 105932 1054708 ~ 1068155 (-) False XLOC_028393
TCONS_00055123 other downstream 121104 804147 ~ 808453 (-) True XLOC_028380
TCONS_00055111 other downstream 244138 683052 ~ 685419 (-) True XLOC_028374
TCONS_00055166 other upstream 1111748 2060524 ~ 2162724 (-) False XLOC_028412
TCONS_00055185 other upstream 1726330 2675106 ~ 2686090 (-) False XLOC_028423
TCONS_00055220 other upstream 3543790 4492566 ~ 4496791 (-) True XLOC_028449
TCONS_00055225 other upstream 3597433 4546209 ~ 4570805 (-) True XLOC_028452
TCONS_00055239 other upstream 3981635 4930411 ~ 4932524 (-) True XLOC_028460

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
bowfin (Amia calva) AMCG00016280 True 2301 mRNA 0.56 11 CM030122.1 14306299 ~ 14324175 (-)