RNA id: TCONS_00001920


Basic Information

Item Value
RNA id TCONS_00001920
length 842
lncRNA type retained_intron
GC content 0.45
exon number 6
gene id XLOC_001196
representative True

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 21540453 ~ 21563040 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

atgGTGGAGAAGTCGGAATATCGAGCCAGTGGATCTCAAGCCGTTGGAAAGCTGATGGCTAAGATGCCATGTCAGGACTACGCAGCCACCATTAAGTGGCTCTATAACTACTCTCGAAACAACAAGGTGGCATTCAGAATGTTTGCGCTGGATGTTTCCATGGTCCTGCTGGAGCAGACTGAGAGAGATGTGGATGACACTGTGGACCCTGAGCTGGCTGTGTTCCTCTCACATAGGTTCCTGGTGCATAACATTGTATACAATCATCGTAATGACGTCTCCCCCACAGTCAGAGGTCATGCATTGCACTGCCTGGCACAGTGTCTGGAGCTGGGTTCCCAGAATGCCACAAAATGTGTCCATGAGCTCTTTTCCAACAGTGCTCATACTATGATGGAATCAGACCGCTCTGAGCAAACTCTGAAGAGAAGAGAGACTGGTCAAAAAACAGCACTGACTTTCAGAACCATCGAGCTCACAAAACACAAGAGCATGACCACAACCCACAGGAGCGTTATGAATACTTCTTTACAGAatgATGAAAGTATGACTCTGTTTAAAAAGCATGTCAGCGATCCAAAAACCAATGCTAGAAAAAGTGCACTGGAGacTGTCATGAGTCTGCTAAAGCATGGAGTGATCGCATGCAGTTTGGAGAATCTGAGTATGCTGTCAGATCGCTGCAGGGATCCTGCTGTCTCAGTGAAGAAGAAAGCCTTGCAGTGCCTTATGGAACTTCTTAATGTGAGCAAAGCCTCCAACCTCATGTTACAATAGTATTACTGCTAATGCTGtacaataatataaatgttatatgAATATAATAGGTTAGCACAGGTCGC

Function

GO:

id name namespace
GO:0007049 cell cycle biological_process
GO:0030261 chromosome condensation biological_process
GO:0007076 mitotic chromosome condensation biological_process
GO:0051301 cell division biological_process
GO:0051304 chromosome separation biological_process
GO:0010032 meiotic chromosome condensation biological_process
GO:0000779 condensed chromosome, centromeric region cellular_component
GO:0005634 nucleus cellular_component
GO:0042393 histone binding molecular_function
GO:0003682 chromatin binding molecular_function

KEGG:

id description
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-040426-737 Predicted to enable chromatin binding activity and histone binding activity. Predicted to be involved in meiotic chromosome condensation and mitotic chromosome condensation. Predicted to act upstream of or within cell division and chromosome condensation. Predicted to be located in nucleus. Predicted to be active in condensed chromosome, centromeric region. Human ortholog(s) of this gene implicated in primary autosomal recessive microcephaly. Orthologous to human NCAPD3 (non-SMC condensin II complex subunit D3).

Ensembl:

ensembl_id ENSDART00000134857

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00001908 lncRNA downstream 235109 21320823 ~ 21321435 (-) True XLOC_001192
TCONS_00001904 lncRNA downstream 395133 21160650 ~ 21161411 (-) True XLOC_001190
TCONS_00001898 lncRNA downstream 540614 21010689 ~ 21015930 (-) False XLOC_001189
TCONS_00001895 lncRNA downstream 550611 21000784 ~ 21005933 (-) False XLOC_001188
TCONS_00001892 lncRNA downstream 560518 20990877 ~ 20996026 (-) False XLOC_001187
TCONS_00003410 lncRNA upstream 163421 21721834 ~ 21723360 (-) True XLOC_001200
TCONS_00001926 lncRNA upstream 321842 21880255 ~ 21881768 (-) True XLOC_001201
TCONS_00003411 lncRNA upstream 441368 21999781 ~ 22001050 (-) True XLOC_001204
TCONS_00001938 lncRNA upstream 1093166 22651579 ~ 22652026 (-) True XLOC_001210
TCONS_00001950 lncRNA upstream 1286876 22845289 ~ 22851419 (-) True XLOC_001217
TCONS_00001912 mRNA downstream 17871 21495850 ~ 21538673 (-) False XLOC_001195
TCONS_00001913 mRNA downstream 18215 21500200 ~ 21538329 (-) False XLOC_001195
TCONS_00001915 mRNA downstream 18215 21516481 ~ 21538329 (-) False XLOC_001195
TCONS_00001918 mRNA downstream 18215 21537266 ~ 21538329 (-) False XLOC_001195
TCONS_00001917 mRNA downstream 18215 21537266 ~ 21538329 (-) True XLOC_001195
TCONS_00001921 mRNA upstream 18261 21576674 ~ 21599219 (-) True XLOC_001197
TCONS_00001922 mRNA upstream 52058 21610471 ~ 21714025 (-) True XLOC_001198
TCONS_00001924 mRNA upstream 163238 21721651 ~ 21723329 (-) False XLOC_001200
TCONS_00001925 mRNA upstream 302974 21861387 ~ 21881818 (-) False XLOC_001201
TCONS_00001927 mRNA upstream 334876 21893289 ~ 21901589 (-) True XLOC_001202
TCONS_00001916 other downstream 29173 21526672 ~ 21527371 (-) False XLOC_001195
TCONS_00001899 other downstream 543330 21011062 ~ 21013214 (-) True XLOC_001189
TCONS_00001897 other downstream 543702 21010689 ~ 21012842 (-) False XLOC_001189
TCONS_00001896 other downstream 553235 21001157 ~ 21003309 (-) True XLOC_001188
TCONS_00001894 other downstream 553607 21000784 ~ 21002937 (-) False XLOC_001188
TCONS_00001923 other upstream 121951 21680364 ~ 21680478 (-) True XLOC_001199
TCONS_00001929 other upstream 633539 22191952 ~ 22192067 (-) True XLOC_001205
TCONS_00001939 other upstream 1105310 22663723 ~ 22674613 (-) True XLOC_001211
TCONS_00001973 other upstream 1764589 23323002 ~ 23330066 (-) False XLOC_001223
TCONS_00001976 other upstream 1781551 23339964 ~ 23340503 (-) False XLOC_001223

Expression Profile

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