RNA id: TCONS_00005427


Basic Information

Item Value
RNA id TCONS_00005427
length 753
RNA type processed_transcript
GC content 0.52
exon number 7
gene id XLOC_002940
representative True

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 36475860 ~ 36547128 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

agtAAACTCGGATACTGTGGACTATGAGGACTCGTGTCTCATTGTGCGATATCTGGCCTCCATGAGGCCGTTTGCACAGAGCTTTGATATTTATCTCACACAGATCTTGAGAGTTCTCGGTGAAAGTGCCATTGCAGTGAGAACTAAAGCGATGAAGTGTCTTTCTGAAGTGGTGGCAGTGGATCCCAGTATTCTTGCGCGGCTGGACATGCAGCGGGGCGTCCATGGGCGATTGATGGACAACTCCACCAGTGTGAGAGAAGCTGCAGTCGAGCTGCTGGGACGCTTCGTTCTGAGCCGACCGcagctcactgagcagtattaCGACATGCTGATCGAGCGCATCctgGACACGGGCATTAGCGTGaggaaaagagttattaaaatcCTGCGAGACATCTGTCTGGAGCAGCCCACCTTCAACAAGGACCTGAAGGAAATGGGCGACATCTCGTCCGGCATGAGCAGCTCCATCATGCAGCTCTACCTCAAGCAGGTGCTGGAGGCTTTCTTCCACACGCAATCCAGCGTCAGACACTACGCCCTCAACGTCATCGCCCTAACACTTAATCAGGGGCTCATTCACCCTGTACAGTGTGTCCCATATTTGATTGCGATGGGAACCGATTCAGAGCCCACAATGAGGAATAAAGCTGATCAACAGTTGGTGGAGATTGACAAGAAGTACACAGGCTTCATTCATATGAAGGCAGTGGCGGGGATGAAGATGTCATATCAGGTGCAGCAGGCCAT

Function

GO:

id name namespace
GO:0006302 double-strand break repair biological_process
GO:0007507 heart development biological_process
GO:0003146 heart jogging biological_process
GO:0070550 rDNA condensation biological_process
GO:1990414 replication-born double-strand break repair via sister chromatid exchange biological_process
GO:0007275 multicellular organism development biological_process
GO:0070050 neuron cellular homeostasis biological_process
GO:0048565 digestive tract development biological_process
GO:0071921 cohesin loading biological_process
GO:0048589 developmental growth biological_process
GO:0010468 regulation of gene expression biological_process
GO:0007049 cell cycle biological_process
GO:0071169 establishment of protein localization to chromatin biological_process
GO:0007064 mitotic sister chromatid cohesion biological_process
GO:0035118 embryonic pectoral fin morphogenesis biological_process
GO:0007076 mitotic chromosome condensation biological_process
GO:1905406 positive regulation of mitotic cohesin loading biological_process
GO:0034087 establishment of mitotic sister chromatid cohesion biological_process
GO:0003007 heart morphogenesis biological_process
GO:0071733 transcriptional activation by promoter-enhancer looping biological_process
GO:0007417 central nervous system development biological_process
GO:0007420 brain development biological_process
GO:0048703 embryonic viscerocranium morphogenesis biological_process
GO:0060828 regulation of canonical Wnt signaling pathway biological_process
GO:0000785 chromatin cellular_component
GO:0005634 nucleus cellular_component
GO:0090694 Scc2-Scc4 cohesin loading complex cellular_component
GO:0000228 nuclear chromosome cellular_component
GO:0003682 chromatin binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-6070 Enables chromatin loop anchoring activity. Acts upstream of or within several processes, including embryonic morphogenesis; neuron cellular homeostasis; and regulation of canonical Wnt signaling pathway. Predicted to be located in nucleus. Predicted to be part of Scc2-Scc4 cohesin loading complex. Is expressed in several structures, including Kupffer's vesicle; blastoderm; blastodisc; central nervous system; and lateral plate mesoderm. Used to study Cornelia de Lange syndrome. Human ortholog(s) of this gene implicated in Cornelia de Lange syndrome 1. Orthologous to human NIPBL (NIPBL cohesin loading factor).

Ensembl:

ensembl_id ENSDART00000140556

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00006097 lncRNA downstream 17723 36465343 ~ 36469895 (-) True XLOC_002939
TCONS_00006096 lncRNA downstream 394085 35811752 ~ 36093533 (-) False XLOC_002925
TCONS_00006095 lncRNA downstream 394085 35811752 ~ 36093533 (-) True XLOC_002925
TCONS_00006094 lncRNA downstream 394125 35811752 ~ 36093493 (-) False XLOC_002925
TCONS_00006093 lncRNA downstream 394125 35811752 ~ 36093493 (-) False XLOC_002925
TCONS_00006098 lncRNA upstream 93049 36595380 ~ 36610901 (-) True XLOC_002942
TCONS_00006099 lncRNA upstream 139835 36642166 ~ 36650904 (-) True XLOC_002944
TCONS_00005434 lncRNA upstream 151866 36654197 ~ 36662600 (-) False XLOC_002945
TCONS_00006100 lncRNA upstream 151866 36654197 ~ 36662611 (-) True XLOC_002945
TCONS_00005437 lncRNA upstream 177217 36679548 ~ 36682522 (-) False XLOC_002946
TCONS_00005423 mRNA downstream 81056 36363318 ~ 36406562 (-) False XLOC_002938
TCONS_00005424 mRNA downstream 81274 36369061 ~ 36406344 (-) True XLOC_002938
TCONS_00005422 mRNA downstream 227128 36259048 ~ 36260490 (-) True XLOC_002937
TCONS_00005420 mRNA downstream 233173 36251987 ~ 36254445 (-) False XLOC_002936
TCONS_00005421 mRNA downstream 233660 36253002 ~ 36253958 (-) True XLOC_002936
TCONS_00005428 mRNA upstream 56473 36558804 ~ 36591511 (-) False XLOC_002941
TCONS_00005429 mRNA upstream 56484 36558815 ~ 36592486 (-) True XLOC_002941
TCONS_00005430 mRNA upstream 110673 36613004 ~ 36625752 (-) False XLOC_002943
TCONS_00005431 mRNA upstream 110704 36613035 ~ 36633882 (-) False XLOC_002943
TCONS_00005432 mRNA upstream 113627 36615958 ~ 36618674 (-) False XLOC_002943
TCONS_00005410 other downstream 324324 36163179 ~ 36163294 (-) True XLOC_002926
TCONS_00005408 other downstream 833264 35654245 ~ 35654354 (-) True XLOC_002923
TCONS_00005406 other downstream 867169 35620333 ~ 35620449 (-) True XLOC_002922
TCONS_00005403 other downstream 1100376 35369837 ~ 35387242 (-) True XLOC_002918
TCONS_00005381 other downstream 1495204 34984618 ~ 34992414 (-) False XLOC_002907
TCONS_00005438 other upstream 179321 36681652 ~ 36682514 (-) True XLOC_002946
TCONS_00005456 other upstream 850149 37352480 ~ 37357303 (-) True XLOC_002957
TCONS_00005460 other upstream 1549321 38051652 ~ 38051766 (-) False XLOC_002962
TCONS_00005461 other upstream 1569746 38072077 ~ 38072168 (-) True XLOC_002963
TCONS_00005463 other upstream 1571981 38074312 ~ 38074391 (-) True XLOC_002962

Expression Profile

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