RNA id: TCONS_00039739


Basic Information

Item Value
RNA id TCONS_00039739
length 803
lncRNA type retained_intron
GC content 0.53
exon number 5
gene id XLOC_019919
representative True

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 661505 ~ 665371 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CAGAAGCTGCGGCCCTGGAGACAGTAAACCTGAGCGGCTATTCTTCTATTGTTAGAGGCGTCTCGTCATGTCAGGTGTGATTGAGGCTAAATGTGCTCCCGTTCTCCGGCAGGCTCCTGGGACCAGGTGAACCCGCAGATGTGGAGCAGGCAGAACGTTCTGGAGTGGATCGGCTTTCACGTGGAGGAGAGCAGATTCGACGCCGGCTTGCTGAATCTGAACTACTGCACCATGGATGGGCTCACACTTTGCGCAACATCCAAGGAAGCGCTGATGAGCATGTTCGGGCCGGAGTTGGGCAATCTGCTACACCACAGTCTGGAGAGCCTGAAGGCGAGATATGTTAATGACCTATCTGAGAACACCGTCCTGAGCGAATCCGAGTTTGAGCTACTAGACAACATCCTGCAGAACTCATTTCCCTCCATGCATGGACCAGGCCTGGGGCCTCTGCTGGAAACTGTGGTGGTCCAGTCTACAATTCCAACAGACAATTCAGACGCCAAATACAGCTACTTCGATGAGTACACCAGCCAGCTGACCCCAGAGAGTGACCACGGCTACGACTCTCTCACGGAGAGCTTTCAGAGTTCCCATGCTGGCAGCTTCCTGAACCCGAGCTCACCTGAGTCCAACAGCAGTGATTCTGACCCTGAATACTCGGAGACTCCTTACTCCATCAGCTCCAAGAACTTTTCAAAACAAGAGCCAGAAAAGACCAAGAGAGGCAGAGGACGACCTCCCAAGCTCAGGGATAGTGACGGATTTGATCACTTCATTCAGTCCAAGAAAAGCAAACATGG

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:0006366 transcription by RNA polymerase II biological_process
GO:0030154 cell differentiation biological_process
GO:0006954 inflammatory response biological_process
GO:0030855 epithelial cell differentiation biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG:

id description
ko04712 Circadian rhythm - plant
ko03000 Transcription factors

ZFIN:

id description
ZDB-GENE-030131-8760 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific. Predicted to be involved in cell differentiation and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including inflammatory response; regulation of transcription, DNA-templated; and transcription by RNA polymerase II. Predicted to be active in nucleus. Is expressed in post-vent region. Orthologous to human ELF3 (E74 like ETS transcription factor 3).

Ensembl:

ensembl_id ENSDART00000150211

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00042005 lncRNA upstream 352899 240168 ~ 309204 (+) True XLOC_019910
TCONS_00042004 lncRNA upstream 374914 219167 ~ 287189 (+) True XLOC_019909
TCONS_00042002 lncRNA upstream 601735 51545 ~ 60368 (+) True XLOC_019902
TCONS_00042003 lncRNA upstream 605363 53914 ~ 56740 (+) True XLOC_019903
TCONS_00042001 lncRNA upstream 634259 24421 ~ 27844 (+) True XLOC_019901
TCONS_00042006 lncRNA downstream 139650 803504 ~ 808457 (+) False XLOC_019923
TCONS_00039751 lncRNA downstream 143599 807453 ~ 808457 (+) True XLOC_019923
TCONS_00042007 lncRNA downstream 147746 811600 ~ 817627 (+) True XLOC_019924
TCONS_00042008 lncRNA downstream 259657 923511 ~ 938827 (+) True XLOC_019927
TCONS_00039763 lncRNA downstream 391864 1055718 ~ 1058553 (+) False XLOC_019931
TCONS_00039736 mRNA upstream 24548 635813 ~ 637555 (+) True XLOC_019918
TCONS_00039734 mRNA upstream 77493 567733 ~ 584610 (+) False XLOC_019917
TCONS_00039735 mRNA upstream 80414 569565 ~ 581689 (+) True XLOC_019917
TCONS_00039732 mRNA upstream 94180 558287 ~ 567923 (+) False XLOC_019917
TCONS_00039733 mRNA upstream 97873 560776 ~ 564230 (+) False XLOC_019917
TCONS_00039740 mRNA downstream 33077 696931 ~ 701105 (+) False XLOC_019920
TCONS_00039741 mRNA downstream 33170 697024 ~ 701105 (+) True XLOC_019920
TCONS_00039742 mRNA downstream 60785 724639 ~ 733339 (+) True XLOC_019921
TCONS_00039743 mRNA downstream 73357 737211 ~ 753392 (+) True XLOC_019922
TCONS_00039744 mRNA downstream 122702 786556 ~ 808881 (+) False XLOC_019923
TCONS_00039750 other downstream 139650 803504 ~ 807514 (+) False XLOC_019923
TCONS_00039759 other downstream 354747 1018601 ~ 1019152 (+) True XLOC_019929
TCONS_00039761 other downstream 375694 1039548 ~ 1039749 (+) True XLOC_019930
TCONS_00039775 other downstream 585934 1249788 ~ 1262272 (+) False XLOC_019938
TCONS_00039776 other downstream 586385 1250239 ~ 1251660 (+) False XLOC_019938

Expression Profile

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