RNA id: TCONS_00039786


Basic Information

Item Value
RNA id TCONS_00039786
length 2239
RNA type mRNA
GC content 0.43
exon number 3
gene id XLOC_019946
representative True

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 1352192 ~ 1361148 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GATGACGTCATCAGGAGTGCGCGTTCCTGGATCTTCCAAAGGCGTCCGAAGCGAGACGAGGTGCGCGTTTTACGCTATTTCGCTTGCTTTTCCGGAGTATAAAGTTACTTTTTGGACAGTTTTAAGCAGCATTGGTTTACTGATAAATCTCCGAACGAGTTTCTTCGACGCAATTATGGTTTGATGTATCTGTTTGTCCTCAATCAGTTCAGCTGTAAATATTGGAGTATTCTCATCAGTCTACAAGTAAAGATGAGCACGAGGAAGAAGTGAAATCTGCAAGTTTTTTGCACAGAGAGatgatgagtgatccagaaccctgcagaattaaagaGGAAGAATCCAGTGGAATTAAAGATGAAGAGTCTGAGGAACAAATAGaCATTATGATGGAGAATGGGGAGAAACCTCGTCATGTCAGAAAATGTCTGCCCTGCACTGAATGTGGAAAGAGTTTAACATCCAAACGGAATCTAATGCTTCATATGAgcatccacactggagagaatcCATTCGCATGTGatcagtgcgggaagagtttcaggcGGTCGTCATCTTTTAATCAACACATGCTGATTCACTCTGGAGAAAAGCCGTTCActtgtactcagtgtgggaagagtttcagactcTCGTCATTCCTTAATCAACAcacgaggatccacactggagagaaaccgttcacgtgcgctcagtgtgggaagagtttcaggcaAAAAGCAACCCTTTGGGCTCACATGAAcatccacactgaagagaaacgACACAAGTGTGATCAATGCGGCAAGACATTTGTAAGGGCTTCAGAACTGAACGAGCATCTTAGAGTtcatacaaaggagaagccttatCTATGTTCtttgtgtggaaagagttttgcacatcaaaacaatttaaaaacacatGAGAAGGtgcacactggtgtgagagagtttgtgtgctttgagtgtgaaAAGACTTTTACCACAGCTGAACATTTGAAACtccaccagaggattcacactggagagaaaccttacaagtgttcacactgcaacaaGGGGTTCAGCCGGTTAGGAAACCTCAAAACACATGAGagggttcacactggagagaaaccgtacaagtgttcgcTCTGTTACATGAGATTTAGCCAGCCAGATTCCATGAAGgtacatgagaggattcacactggagagaaaccgtacaagtgttcacactgcgacgtGACATTTACTCAGATAGGAAACCTGAAAACACAcgagaggatccacactggagagaaaccgtacaagtgttcacattGTGACAAGAGGTTCAGTCGGTCGGAATGCCTGAAGATACATCAgcggattcacactggagagaagccgtacaaGTGTTCATATTGCAACAAGAGATTTAATATGTTAGGGAACGTGAGagcacatgagaggattcacactggagagaaaccctacAAGTGTTCACAGTGTGACATGAGATTCAATCAGTTAGGAAACCTCAAAGTACAcaagagaattcacactggagagaaaccgtactaATGACACTGGTGCAGCAAAAGATTTTAATGTGTGGAAATACTTTTCATTTcagaaaatgtttgtaaatagTAGCATGAATAGTTACGCAACTAGGTACTGTGGTTAAAGTAGCTACTGAAAATTACTGTTCACTTTTAGGTAATGTATTGCGTGCATTTATATAGGTCATTTATCATGTATGACCTTACACCAAGAGCGCTTcataatcatgaggggggtctctccacaccatcacTAGTGAGTGGTGGGTGATGCTCTGGCAGCCGCAGGACAACAGCCCCAGCGCACTCACAACACACTAGCTctagagcataggtctcaaactcgattcatgtagggccgcagctctgtacagttttgctccaacccttattaaacacatctgatccaAATAATtgaggtgttcaagactactcgACACTACTAGATCAGCTGTATTTGATTTAAGCATGTATTTAAGCATGGGTTGAGAGTAGGGATTTGCTTGACCAGTTAGGCCATCACCTTTAGTCATAGCTCATGCACAGACAGTATTGAAGTTGTGCCAGTCTGTTTTTCTATCATGTTTCATAATTCCCTTGTTCACGATCGAAAATCCAAGATGCTTGAAATTCTTCCAAATGGGCCAAGAACTCTTCTCCAACAGGGAGAAGACAAGTAACACTTTTCTTGTCGAACAGCATGCCCTTGAACTTGGAGGTGCTAATTTTCAC

Function

GO:

id name namespace
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0046872 metal ion binding molecular_function
GO:0003676 nucleic acid binding 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

KEGG: NA

ZFIN:

id description
ZDB-GENE-050320-63 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 be active in nucleus. Is expressed in pharyngeal arch 3-7.

Ensembl:

ensembl_id ENSDART00000169629

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00042011 lncRNA upstream 23042 1317461 ~ 1329150 (+) False XLOC_019943
TCONS_00039777 lncRNA upstream 84372 1261725 ~ 1267820 (+) True XLOC_019938
TCONS_00042009 lncRNA upstream 156844 1194871 ~ 1195348 (+) True XLOC_019937
TCONS_00039764 lncRNA upstream 285348 1062851 ~ 1066844 (+) True XLOC_019931
TCONS_00039763 lncRNA upstream 293639 1055718 ~ 1058553 (+) False XLOC_019931
TCONS_00039787 lncRNA downstream 16183 1377331 ~ 1384069 (+) True XLOC_019947
TCONS_00041847 lncRNA downstream 299039 1660187 ~ 1665471 (+) False XLOC_019971
TCONS_00041848 lncRNA downstream 365902 1727050 ~ 1732110 (+) True XLOC_019977
TCONS_00042012 lncRNA downstream 544854 1906002 ~ 1909424 (+) True XLOC_019993
TCONS_00039862 lncRNA downstream 592002 1953150 ~ 1954788 (+) False XLOC_019999
TCONS_00039785 mRNA upstream 18627 1330477 ~ 1333565 (+) True XLOC_019945
TCONS_00039782 mRNA upstream 29224 1313046 ~ 1322968 (+) False XLOC_019943
TCONS_00039781 mRNA upstream 45049 1300587 ~ 1307143 (+) True XLOC_019942
TCONS_00039780 mRNA upstream 57293 1291651 ~ 1294899 (+) True XLOC_019941
TCONS_00039779 mRNA upstream 62053 1285182 ~ 1290139 (+) True XLOC_019940
TCONS_00039788 mRNA downstream 22956 1384104 ~ 1397981 (+) False XLOC_019948
TCONS_00039789 mRNA downstream 35296 1396444 ~ 1407856 (+) True XLOC_019948
TCONS_00039790 mRNA downstream 60064 1421212 ~ 1424483 (+) True XLOC_019949
TCONS_00039791 mRNA downstream 70595 1431743 ~ 1433028 (+) True XLOC_019950
TCONS_00039792 mRNA downstream 79554 1440702 ~ 1441490 (+) True XLOC_019951
TCONS_00039784 other upstream 23046 1323514 ~ 1329146 (+) True XLOC_019943
TCONS_00039775 other upstream 89920 1249788 ~ 1262272 (+) False XLOC_019938
TCONS_00039776 other upstream 100532 1250239 ~ 1251660 (+) False XLOC_019938
TCONS_00039761 other upstream 312443 1039548 ~ 1039749 (+) True XLOC_019930
TCONS_00039759 other upstream 333040 1018601 ~ 1019152 (+) True XLOC_019929
TCONS_00039812 other downstream 215715 1576863 ~ 1577746 (+) True XLOC_019963
TCONS_00039818 other downstream 269538 1630686 ~ 1633449 (+) False XLOC_019968
TCONS_00039821 other downstream 288980 1650128 ~ 1653938 (+) True XLOC_019970
TCONS_00039822 other downstream 299267 1660415 ~ 1661346 (+) False XLOC_019971
TCONS_00039823 other downstream 300118 1661266 ~ 1665471 (+) True XLOC_019971

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) TU600236 True 1835 lncRNA 0.40 1 CI01000376 136871 ~ 138705 (-)
mexican tetra (Astyanax mexicanus) TU416678 True 1296 TUCP 0.42 2 NW_019172834.1 2165980 ~ 2168611 (+)