RNA id: TCONS_00003838


Basic Information

Item Value
RNA id TCONS_00003838
length 5900
RNA type mRNA
GC content 0.39
exon number 10
gene id XLOC_001957
representative False

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 11355841 ~ 11372541 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

cccacATAGACTTTACCGCCCTCTAGTGTGTTGTTCAGTTGTCGTCGGTTCTCTGTGTTGTGTGGCGCCCTCTGCTGGCCCGCAGGTTTCGCTGTTTAAGTGCGGAGGAAAATGGCGTCCGGCGTGAGGCAGGAGCTCGCACAGCTGATGAACTCTAGTGGCTCTCATAAAGATCTAGCTGGGAAATATCGTCAAATATTAGAAAAGGCTCTACAGTTTACTGATGCAGAACAACTTGAAGCACTGAAAGCATTTGTTGAAGCGATGGTCAATGAGAATGTCAGCCTGGTCATATCCAGACAGCTTCTGACAGACTTCTGCGCGCACCTTCCAAATCTTCCAGACGACATAGCGAAAGTTGTGTGTCACTTCACCCTGGAGAAGATCCAGCCCAGAGTCATCTCTTTTGAAGAACAGGTGGCATCCATCAGACAGCATTTAGCCACAATCTATGAGAAGCAGGAGGACTGGAGGAACGCTGCACAGGTTCTTGTGGGGATCCCACTGGAGACGGGTCAAAAACAGTATAATGTGGACTACAAATTAGACACTTACCTGAAAATTGCTCGTCTGTATTTGGAGGATGACGACCCGGTTCAGGCCGAGGCCTACATCAACCGAGCGTCTTTATTGCAGAATGAATCCACCAATGAACAGTTGCAGATTCACTACAAGGTCTGCTACGCCAGAGTTCTGGATTATCGAAGGAAATTCATCGAAGCAGCTCAACGCTACAATGAGCTCTCATACAAATCCATCGTGCATGAAACTGAGCGTCTAGAGGCTCTAAAACATGCACTTCACTGCACTATACTGGCCTCTGCAGGTCAGCAGCGCTCTCGTATGTTGGCTACTCTCTTCAAGGATGAACGATGTCAGCAGCTCGCCGCCTACGGCATCCTAGAGAAAATGTACCTGGATCGAATCATCCGAGGAAACCAACTGCAAGAGTTTGCTGCCATGCTGATGCCACATCAGAAAGCCACCACAGCCGATGGTAGTTCAAGTATTCTAGACCGAGCCGTTATTGAGCACAACCTGCTGTCTGCAAGCAAACTGTACAATAATATCACGTTTGAAGAGCTTGGAGCACTTTTGGAGATTCCTCCTGCAAAGGCAGAAAAGATAGCATCACAAATGATCACCGAGGGCCGCATGAACGGATTCATTGACCAGATTGATGGCATTGTGCATTTTGAAACACGAGAGCCGTTGCCCACCTGGGACAAGCAGATTCAGTCGCTGTGCTTCCAGGTCAACAACCTCTTAGAGAAGATCAGTCAGACCGCACCAGAGTGGACAGCACAGGCCATCGAGGCCCAGATGTCCCAATAAACCTTATTCATGCTCTTTTTGTCTACAAACTTCAATTCTTTGCTTTCTCTGCTCTCATTGGTCAAAACTGAAACGACTCTGAATTGAATTTAAGCCAGCACATATTGATGTTCTGTTGAAGGGATAGTTTAgccaaaatgtaaattttgtcatcatttattcattctccaaacctcttagagtttttgtcttgtgttgaacacaaaggaagatattttgaacaatgttgggaaaaaaaacaggaaCTTGCAtagctgttttgtttttactataaATGTGAATGAttgctttttccaacattcttcagaatatgttGTTTTGTGAGAGGGAAAAAGagcaaaaaagcataaatagaaCTACTTGaatgtgaataaatgatgagaaAATGTTCGCTTTTGGATTAATTATTTCTTTTaagttttacttttttgtttgtgaatttaatattttcatagtTATGGTCTTTGAGTATTAGATGCTGAATAAAcatctggaaaaaagtcttagtttctaaattttgttttattatattttgggtTTTACAACCCTGTGTCTCATCCATCACCCTTTgcatcattcattcgtttttaaAGTTAGACATCAACCTCCTTAGTATTACACTATTTATTATCAACATgaacattatattttaatttaaaccaaccaaaaatataaagttaggccataaatatttggacatcaacaTAATTCTAATATTTTTAACTCTATGCACCAGCACAATGGAATTGAAATGAAACAAAGAGGATTAaagtgctttaactgcagactgtcagctttaatttgagggtatttatatCCAAATCAGGAGAATGGTGTAGGAATAACAACAGTTTGCAAAtctgcctcccacttgttaagaggccaaaagtaattggacaactGGCTTATAAGCAGAAAATCAGCAGATAAAAGgttcagagttcatttcaagtttgctatttgcatttggagtTTGTTACTGTTAATTCTCAGGATGAGATCCAAACAGCTGTCACTAttagtcaagcaagccatcattaggctgaaaaaacaaaacaaacccatcagagaaATAGCAAAAACATCAGGCGTGGCCAAAACAACTatttggaacattcttaaaaaggaAGAACGCACCAGTGAGCTTAGCAATACCAAAAGACCTAGAACACCatggaaacaactgtggtggatgacTAAAGAATTCTTTCCCTagtgaagaaaacacccttcacaagATCAAGAACTCTCTCTaggaggtaggtgtatgtgtcagagtcaacaatcaagagaagactacacgagtgaatacagagggttcaccacaagatgtaaaccgcTGAGCCTCAAAACCAGGAAGGCCAATTTATACTGTAGTTCTAAAAAAGCCTCCACATGGCTGGAACAACATCCTTTGGACAGTTGAAACAAGATCAGCTTGTACCAGAGTAATGGGAAGTAaagagtatggagaaggaaaggaactgctcatgatcctaagcagtaaAGCATGATGGTAGTAGTGGCATGTAGTGGCCATGTATGGCTTTTaatggaactggttctcttgtgtttattgatgatgtgactgctgacaaaagcagcagtatgaattctgaagtgtttcagggaatattttctgctcatattaaaGGGTATCTATAATGAAAAATCAACTTTTCAAggtgtttggacagacgtgtgtaggtaCAGTgaatagaccgtcatattggggtaatgtaaacacacagtccttttttttacaatttaacaacataaaaatggtggaccaattggatcggttttcagagcgaccgcaacttgacgtaggagtgcagtgcccccacccaccaatattgattgacaggcgcatcaccatatccttagtttgttgtttcacgtccgccattttccgCATGTAAGTCAAAGCGGCATCTCTAAAGGAACATTCTTgcttatttttagatgtaaggctcattgggctcaacacaagatcaatattctccacaatATCACTCTAAtctgaattattgtttgtacctttaggtaggtttgcaaacgtgtacttttcattgcgtctaccttcaacttcagccatttgcatttcGCGCAATTACAGAAGCTTCCTGTCATCTTAACTAGatgcagctggaaaagtgcaatCGCGTTGCCTCGTGCACGTCTCtccaatggaaataaaataatgaacttaCCTGCAGGTCGCATACCAGAAGCGCCGAGCGTCGCGCcatgcagcaccatgcattttagaattctaaacgaAGGTTTCTAAcagggtacacacaacggcgCTTCAAGTCGTCGGCGGTTCGCCGCGGACAGCCATCGACTTCAAGCGCTGTTGTGAGTACCCTGATCGAAACCTATGTTCTAAAATGTGTGACGCGACTTCATGTTTCTgcgtctcggtgtacaagcttggCACTTGAAACTAGTACActgttggctgtaaaactatacaaagacacaaatgattttgtactctctgcttggtctgtgtccgagtcgtacatgtacggctgaatgctgatcctctcactcatgtAGCTTAGCTTTTCTTtgcctgcctgtctgttgcaaacacagagcgtggaAGCTCTTGTCTCTGCCCCTTTGTTACGTTGGACGGGAAGCTAAAACTAATTTTCATgcgaagcaacacacccctaaaacagcgagctttGTACGCGCCCCCCAAATGACACAAATTTTAACACAttgtaataaaaacatctgaactgtgtgttgtactgaacctaaactggcacactcagaagaaccataatattaatagagttattttaaggtaaagaagtgaaatgttatgcaatggccaagtcaatcacctgatctaAATCTGATTGAGCTTACAGTTGAGGACAGTTGCAGAGGTCTGGCAGAGCaccaacaggaaaaaaaaaaaaaactcagcatccAGTGATGTCTATGCATTCCAGACTTCAAGCTGTAATtaactgcaaaggatttgcaaccaagtattatgATTATCATAGTATTATGACTATGATTATGATTATCAAATTATACCAATTACTTTTGGCCCCTTAACAAGTTGgatgcacatatgcaaactgttgtaattcctacactgtTCACCTGATTTAGATGTAAATGCCCTGAACTTAAAGCTGACAATCTACAGTTatagcacatcttgtttgttttatttcaaaaatgttagaattgtgttgtgtccaaatatttatgaacctaattgtatatataaaaataaagttttgtgaATCTATCTGTGGTCTCATAATGGatttatattaacaaatataCAAACAACATAACAAGCATATTTTTAGAGTGACTGAtggattttcatttgttttgttcccTAAATTACTGGTAACCTCAAAAAATGCAAAGGCTTTCATAATAATGTTATAGTTCATATACTTCCTACTGTGATGTTTTCAGGATTTAACACAAAGGCTGTAAGGACATTGTGAGCTTTCAACAGCTCTGATAAATTAAGTGATATGCTGCCTGTGTTCAATTTTATTGAGGGGAGTTAATGATATGTCTGAATCATAAAATGGCGCCTATGGCTGGAAGGGTTTAATTTTTGATTTACGGAAATTGTTGTCATTGAAATCAATGAGATCATGAATGTTGCAAGATGGAAttggaaatgtaatttaaaacatCAGAATTGAACACTATGCAGTGgcggaaaaaagtattgaacatctCACCATTTTTCtgagaaaacatatttctaatggTGCCGTTGACTTGggattgtattgtttgggtttctaccaaaatctggttcagttCCATGTCAagagctcctttagaaatattattcccaggaaaaacatgacatgttcaatactttaaTTCCCTACTGTATATAATGGTTTTCCACATAGAATCAATGAGCTTATGCTAAATCatctcttcaaaaaaaaaaaaaaaagcacatttttaaatttctgttttattttttgcattggaaGACTTTATAGCTAGTAACTTTACTACATTTACAAATGATAAAAAAGCATATTTACAAAGtaatgttgttataaataaatgacTACCAAGAACCTGACATTCATTGACATGATGCAAATTAGTAATAAATTAATTGCAAGAACACAGCAACCAACATGTTAATTAGCTCTCTACATTATTGCACCTATATCATAAAATACAGCTGGATGTTATGAGAAACATGATGTCTGTTATCAGTCTAATACCAACAGCCTGTACTTTCATACTGAATGAAGCCATAAAGTTTGATTAGCGTATCTATTTGCTTATACCACATCTTAGTCTTTAGATATTAGACACTAGTGTATTGTAGATAGACTGCTTAAAAGCATTTTTCTCTGTTGCCTTTAAAAAGCAGACCAACTCTGTTCACTGCTTTTGAATCTTTGAAAAAAGTTTTCTCAGAACTGTCCTAAGCGCTTCCTAATTTCGATGTCTCTCTTCAACTGGCAGGCTGCACAAGGCATGCAGTTGTAAACGATACAAAAGTCAGTACACATCGAaccctggaaaac

Function

GO:

id name namespace
GO:0008180 COP9 signalosome cellular_component
GO:0005829 cytosol cellular_component
GO:0045202 synapse cellular_component
GO:0005634 nucleus cellular_component
GO:0031410 cytoplasmic vesicle cellular_component
GO:0008021 synaptic vesicle cellular_component
GO:0030054 cell junction cellular_component
GO:0005737 cytoplasm cellular_component
GO:0019784 NEDD8-specific protease activity molecular_function

KEGG:

id description
ko04121 Ubiquitin system

ZFIN:

id description
ZDB-GENE-030131-4317 Predicted to be located in nucleus and synaptic vesicle. Predicted to be part of COP9 signalosome. Predicted to be active in cytosol. Is expressed in liver. Orthologous to human COPS4 (COP9 signalosome subunit 4).

Ensembl:

ensembl_id ENSDART00000193067

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005834 lncRNA upstream 93955 11260154 ~ 11261886 (+) False XLOC_001955
TCONS_00003828 lncRNA upstream 368539 10980233 ~ 10987302 (+) True XLOC_001952
TCONS_00005833 lncRNA upstream 532393 10816914 ~ 10823448 (+) False XLOC_001951
TCONS_00003824 lncRNA upstream 532393 10816914 ~ 10823448 (+) False XLOC_001951
TCONS_00003822 lncRNA upstream 538211 10801705 ~ 10817630 (+) False XLOC_001951
TCONS_00005688 lncRNA downstream 140845 11513386 ~ 11518739 (+) True XLOC_001960
TCONS_00005835 lncRNA downstream 280053 11652594 ~ 11665963 (+) False XLOC_001961
TCONS_00005836 lncRNA downstream 280208 11652749 ~ 11665963 (+) True XLOC_001961
TCONS_00005690 lncRNA downstream 553532 11926073 ~ 11927986 (+) False XLOC_001964
TCONS_00005689 lncRNA downstream 553532 11926073 ~ 11927986 (+) True XLOC_001964
TCONS_00003834 mRNA upstream 43499 11282883 ~ 11312342 (+) False XLOC_001955
TCONS_00003835 mRNA upstream 43499 11286741 ~ 11312342 (+) False XLOC_001955
TCONS_00003837 mRNA upstream 45072 11309814 ~ 11310769 (+) True XLOC_001956
TCONS_00003836 mRNA upstream 57238 11286925 ~ 11298603 (+) True XLOC_001955
TCONS_00003833 mRNA upstream 72602 11265387 ~ 11283239 (+) False XLOC_001955
TCONS_00003840 mRNA downstream 25570 11398111 ~ 11501424 (+) True XLOC_001958
TCONS_00003842 mRNA downstream 395250 11767791 ~ 11788565 (+) True XLOC_001962
TCONS_00003845 mRNA downstream 1144518 12517059 ~ 12730451 (+) True XLOC_001967
TCONS_00003846 mRNA downstream 1627829 13000370 ~ 13063743 (+) False XLOC_001968
TCONS_00003847 mRNA downstream 1628128 13000669 ~ 13038542 (+) False XLOC_001968
TCONS_00003830 other upstream 239871 11115854 ~ 11115970 (+) True XLOC_001954
TCONS_00003827 other upstream 368539 10972810 ~ 10987302 (+) False XLOC_001952
TCONS_00003825 other upstream 532393 10822755 ~ 10823448 (+) True XLOC_001951
TCONS_00003821 other upstream 552485 10801705 ~ 10803356 (+) False XLOC_001951
TCONS_00003803 other upstream 1442664 9913063 ~ 9913177 (+) True XLOC_001940
TCONS_00003841 other downstream 126152 11498693 ~ 11498809 (+) True XLOC_001959
TCONS_00003843 other downstream 401864 11774405 ~ 11774519 (+) True XLOC_001963
TCONS_00003844 other downstream 960712 12333253 ~ 12333369 (+) True XLOC_001966
TCONS_00003853 other downstream 2484251 13856792 ~ 13894856 (+) True XLOC_001972
TCONS_00003854 other downstream 2558307 13930848 ~ 13931718 (+) True XLOC_001973

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
rainbow trout (Oncorhynchus mykiss) TU2659219 False 5028 lncRNA 0.41 2 NC_050572.1 37066304 ~ 37071478 (-)