RNA id: TCONS_00040876


Basic Information

Item Value
RNA id TCONS_00040876
length 867
lncRNA type retained_intron
GC content 0.46
exon number 3
gene id XLOC_020670
representative False

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 613265 ~ 622967 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCTGGTATGAGATCTTAGGCAAGCAGACTGATGGGGAGCCCAAACGGAGGTTCAGGTTACATAGGAAGCGTGGGCTTTGAGAGCTGCTCTTGCTTTCTTTCATTGTCTTCATTCTGTGGGATTGTTTGCAGTGCGTTTGTGTTGAGTTTGTCCTCTTGCTAGTGCACTACTGTGTAGACTGGAGCGTAGCGCTCTTAGCAAGGTTCTCGAGCGCTCATTGCGACTCCACCCCTGTATCAGGGCGGTGACGAGTGCGTTTGACTGTTAGCAGGCTGGAGTTTCAGGGAATTTGAGCTGCGTCTGTGTCTCGATTTGCACGTTCACTCGCTCTGCTTCTCTTCTTTCTTCAGATCTCCCAGGAGGAGGAGCTTCAGTCGTAGTCGCAGCAGATCTTTCTCCAGAGAACGCAGAAGGGAGCGATCTCTGTCCCGCGAGAGGAACCACAAACCATCACGATCTTTCTCCCGGTCGAGGAGTCGTTCCAGATCTAATGACCGGAAATGAGCGTCGATGTTTGTGACTGAAACCTTGATCAAACATGTTGGAGAACTTTGGAGAGACAGTTTATTGCCCGtgtaaattttgtttttttattatctttattttagCAGTTCTTTCACCTTCAGTAGCTGCGGTTATGAGTGTTTTATGTGATGGCATCTCACCTTTTTTTAAGACtcgttttatttgtatttctgaTGACGATTGTGATTGGTCCTGCTGCACTGCGCGCGAGTGTTTGGTTTATTTGTGCGATCAGAAGCAAAGCGATGGAATGGCAACATCATGGCAGTAGCGCGAGGAATCAAGGACGGCTTTCgttcttatgtttattttatttcccttGTAGTGTTTGTAAGGTTTATA

Function

GO:

id name namespace
GO:0000381 regulation of alternative mRNA splicing, via spliceosome biological_process
GO:0045292 mRNA cis splicing, via spliceosome biological_process
GO:0005634 nucleus cellular_component
GO:0016607 nuclear speck cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-071005-2 Predicted to enable RNA binding activity. Predicted to be involved in mRNA splicing, via spliceosome. Predicted to be active in nuclear speck. Orthologous to human SRSF3 (serine and arginine rich splicing factor 3).

Ensembl:

ensembl_id ENSDART00000144737

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00042233 lncRNA downstream 217398 392619 ~ 395900 (-) False XLOC_020664
TCONS_00042232 lncRNA downstream 217398 392619 ~ 395900 (-) False XLOC_020664
TCONS_00042231 lncRNA downstream 217398 392619 ~ 395900 (-) True XLOC_020664
TCONS_00042230 lncRNA downstream 218560 392619 ~ 394738 (-) False XLOC_020664
TCONS_00042229 lncRNA downstream 241244 371564 ~ 372054 (-) True XLOC_020661
TCONS_00040879 lncRNA upstream 921 617530 ~ 621624 (-) True XLOC_020670
TCONS_00042234 lncRNA upstream 43308 659917 ~ 697504 (-) True XLOC_020672
TCONS_00042235 lncRNA upstream 83604 700213 ~ 704907 (-) True XLOC_020673
TCONS_00042236 lncRNA upstream 116635 733244 ~ 735244 (-) True XLOC_020675
TCONS_00042237 lncRNA upstream 122691 739300 ~ 760886 (-) True XLOC_020676
TCONS_00040871 mRNA downstream 5486 603719 ~ 607812 (-) True XLOC_020669
TCONS_00040870 mRNA downstream 7231 603382 ~ 606067 (-) False XLOC_020669
TCONS_00040869 mRNA downstream 13282 591809 ~ 600016 (-) True XLOC_020668
TCONS_00040868 mRNA downstream 55333 550828 ~ 557965 (-) True XLOC_020667
TCONS_00040867 mRNA downstream 65538 539681 ~ 547760 (-) True XLOC_020666
TCONS_00040878 mRNA upstream 160 616769 ~ 621609 (-) False XLOC_020670
TCONS_00040880 mRNA upstream 24733 641342 ~ 651719 (-) True XLOC_020671
TCONS_00040881 mRNA upstream 94150 710759 ~ 718615 (-) True XLOC_020674
TCONS_00040882 mRNA upstream 153392 770001 ~ 775776 (-) False XLOC_020677
TCONS_00040883 mRNA upstream 153392 770001 ~ 784110 (-) True XLOC_020677
TCONS_00040857 other downstream 265884 344918 ~ 347414 (-) False XLOC_020658
TCONS_00040885 other upstream 196311 812920 ~ 817407 (-) True XLOC_020678
TCONS_00040895 other upstream 541460 1158069 ~ 1159749 (-) False XLOC_020686
TCONS_00040899 other upstream 613297 1229906 ~ 1230022 (-) True XLOC_020689
TCONS_00040924 other upstream 2978659 3595268 ~ 3680725 (-) True XLOC_020748
TCONS_00040930 other upstream 3695194 4311803 ~ 4313118 (-) True XLOC_020752

Expression Profile

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