RNA id: TCONS_00042760


Basic Information

Item Value
RNA id TCONS_00042760
length 1750
RNA type mRNA
GC content 0.36
exon number 5
gene id XLOC_021521
representative False

Chromosome Information

Item Value
chromosome id NC_007134.7
NCBI id CM002907.2
chromosome length 46223584
location 12840080 ~ 12897815 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CTTGAGTGTATTATAATGGTTTAGTTTAAATTTTGTTCTGCTGTGGAGCCCGGTtattttagtgaaatatttgttaGTGTTTGTCTAAATTTGACGTGTCTGAGTTATTACTTTGTTCTCATTGTTCGTGCTAGCAATAGACACTCAGGCCGTATTCAGACAGTTCAcgttttattatttgtataatcaAAGTCCTTGAAGTAAGTGGTTCAGCATGGGCTACTTAAAGTTGATAGAAATCGAAAACTTTAAGTCTTACAAAGGTAGACAGATAATCGGGCCTTTCCACAAGTTTACTGCCATTATTGGGCCGAACGGATCGGgaAAATCCAATCTCATGGATGCTATCAGCTTTGTTCTGGCAGAGAAGACCAGCAATTTACGTGTAAAAACGCTAAAGGATTTGATTCATGGAGCTCCTGTGGGAAAACCTGCTGCTAACCGAGCATTTGTGACCATGGTGTACCAGCAGGATGGAGGACAGGAGCTTTCATTTTCCAGAATCATCATAGGTTCCTCTTCAGAGTACCGCATCAATAATAAAGTGGTGGGTCTGTCTGACTACAGTGAGGAACTGGAGAAACTAGGAATCCTCATCAAGGCCAGAAACTTCCTTGTCTTTCAGGGTGCTGTAGAGTCAATTGCAATGAAGAACCCCAAAGAGAGAACAGCTCTGTTTGAAGAGATTTCTCGCTCTGGAGAGCTTGCCCAAGAATATGACAGATGCAAAAAAGAAATGGTCAAGGCTGAAGAGGACACGCAGTTTAACTACCATCGCAAGAAAAACATAGCTGCTGAACGAAAAGAAGCCAAACAGGAAAAAGAGGAGGCAGAGCGTTATCAACGCCTGAAGGATGAGGTGGTGCGAGCTCATGTACAGTTACAGCTGTTTAAACTGTACCACAATGAATCAGAGATTGAGAAACTTAACAGAGAGCTGGCCCACCGCAATAAAGAGATTGATAAAGACAGAAAGCGCATGGACCGTGTGGAGGAAGAGTTAAAAGACAAAAAGAAGGAGCTTGGCAGAATGATGAGAGACCAACAGATGATTGAGAAAGAGATCAAGTGAGTTTAAACCTTCTAAAAATCTCCCAATTAATCTTAAGAACAAAATAacaatttttaattgtttaataaattttgtAGTGTTTGGCCTCAATTCATTGttgtattttacatattaaagGGGTTACAAAAGGCAGTGCCTTACAACAGTGTgtgtaagtaaaaaaacaaacaaacaaaaaaacattgagcATGTGGAAGAAAACAAAGTGTATCAATTTGTGTAAAGTATGTTTAAACATCACTCTACTGAACTGctgacaacaaaataaacaatttaaatagagTTGTGTTGCGTCAAACTGAGTGCTCATAAGAATTTTCACTTGATTTAGTAGTTAATATTATAGCCTACATAACTAAATGATAAAGTGTAATATTAAACGATAGCTTCATTTTGtctatataatacatattttcaTTTGCACAGCCATAATAAACAGCaattaatgcattcattttgaAAATACTCTTATTTACCCTGACAATTTTTAAGAACCATAACAAATATTAGCAAAAGTtagtgtataaatgtataaattttgCATTTTGTACATATCATATTATGcactttttttaaactgaaatttATTTTGTATGAAAAATGCATTAATTCTGATGTAACCAAAAAAGCACTTATAAGCACCCTGCAGTAACTATATTACTATGTAGAGTAAAACta

Function

GO:

id name namespace
GO:0051276 chromosome organization biological_process
GO:0007064 mitotic sister chromatid cohesion biological_process
GO:0048703 embryonic viscerocranium morphogenesis biological_process
GO:0006281 DNA repair biological_process
GO:0008278 cohesin complex cellular_component
GO:0005634 nucleus cellular_component
GO:0005694 chromosome cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0005524 ATP binding molecular_function
GO:0003682 chromatin binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-040426-57 Predicted to enable DNA binding activity. Acts upstream of or within embryonic viscerocranium morphogenesis. Predicted to be located in chromosome and membrane. Predicted to be integral component of membrane. Predicted to be part of meiotic cohesin complex. Predicted to be active in nucleus. Is expressed in several structures, including cranium; digestive system; nervous system; optic cup; and otic vesicle. Used to study Cornelia de Lange syndrome. Human ortholog(s) of this gene implicated in Cornelia de Lange syndrome 2 and developmental and epileptic encephalopathy. Orthologous to human SMC1A (structural maintenance of chromosomes 1A).

Ensembl:

ensembl_id ENSDART00000121697

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00044789 lncRNA upstream 9910 12673403 ~ 12830266 (+) False XLOC_021518
TCONS_00044790 lncRNA upstream 9910 12674050 ~ 12830266 (+) True XLOC_021518
TCONS_00044792 lncRNA upstream 139762 12698971 ~ 12700414 (+) True XLOC_021520
TCONS_00044791 lncRNA upstream 164755 12674927 ~ 12675421 (+) True XLOC_021519
TCONS_00044788 lncRNA upstream 561128 12259536 ~ 12279048 (+) True XLOC_021514
TCONS_00042762 lncRNA downstream 52504 12916059 ~ 12919734 (+) False XLOC_021522
TCONS_00044793 lncRNA downstream 761358 13624913 ~ 13625531 (+) True XLOC_021528
TCONS_00044659 lncRNA downstream 792480 13656035 ~ 13656319 (+) True XLOC_021529
TCONS_00044794 lncRNA downstream 981002 13844557 ~ 13847704 (+) False XLOC_021532
TCONS_00044795 lncRNA downstream 981199 13844754 ~ 13850492 (+) True XLOC_021532
TCONS_00042756 mRNA upstream 227242 12545114 ~ 12612934 (+) False XLOC_021517
TCONS_00042757 mRNA upstream 277330 12545182 ~ 12562846 (+) True XLOC_021517
TCONS_00042753 mRNA upstream 350175 12454542 ~ 12490001 (+) False XLOC_021516
TCONS_00042763 mRNA downstream 52507 12916062 ~ 12934871 (+) True XLOC_021522
TCONS_00042764 mRNA downstream 260530 13124085 ~ 13332863 (+) True XLOC_021523
TCONS_00042765 mRNA downstream 511804 13375359 ~ 13516852 (+) True XLOC_021524
TCONS_00042767 mRNA downstream 664498 13528053 ~ 13600004 (+) False XLOC_021526
TCONS_00042768 mRNA downstream 664995 13528550 ~ 13599156 (+) False XLOC_021526
TCONS_00042749 other upstream 621801 12213967 ~ 12218375 (+) True XLOC_021513
TCONS_00042745 other upstream 689509 12134839 ~ 12150667 (+) False XLOC_021511
TCONS_00042743 other upstream 756505 12083557 ~ 12083671 (+) True XLOC_021510
TCONS_00042741 other upstream 904476 11935584 ~ 11935700 (+) True XLOC_021508
TCONS_00042731 other upstream 2233630 10601324 ~ 10606546 (+) True XLOC_021503
TCONS_00042766 other downstream 579053 13442608 ~ 13442722 (+) True XLOC_021525
TCONS_00042770 other downstream 740663 13604218 ~ 13604320 (+) True XLOC_021527
TCONS_00042779 other downstream 1604448 14468003 ~ 14470571 (+) True XLOC_021539
TCONS_00042786 other downstream 2489578 15353133 ~ 15353249 (+) True XLOC_021542
TCONS_00042789 other downstream 2886463 15750018 ~ 15751546 (+) True XLOC_021546

Expression Profile

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