RNA id: TCONS_00019678



Basic Information


Item Value
RNA id TCONS_00019678
length 1977
RNA type mRNA
GC content 0.46
exon number 9
gene id XLOC_009861
representative True

Chromosome Information


Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 21425114 ~ 21441226 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence


ccagctGATCCTCAAAAGTCTTCTTGTCAGCATTGAAGATGTTTGCAAAAGCCACTAAGAACCTGCTCTCTGAGATAGACTCTGAAGGTTTCCTGATCCCAGTGTTGTGCCTGAATGACTCAGATGGTCTTAGTCCTCAGGCGCTGGTCATCAAGCGTAACCGATACTGGTTTTGGCAGCAACCCAAATACAAGCCAACAGACTTCAAACTGAGTGATGTTCTAGTTGGAGATCCCATAAATCCAGTTGTGGTTGAAACTGAATTTTTGACCTATAAAGGCAAAGTTATGGATACTAAAAGTGGAAGTGCTGTAGCAGAACTTGGGCCAGGGACCATTAATATAGGTGGCTCCGGATCCAGCAAACTGCAGTCATCATTTGGAAACTTAAAGAAACAGGAGCTGGATTTGCAGAAGCTCTTACATGATTCCAAATCCAGAGTTCTAGACATGCAGCACTCTCTGATCCAGCAGACACGGAACGCAAAGACGGAGGTGTTGGCGGTAGTGAAGGAACGAATCATTACCACTCAGCCCTGCACCATCACTGAGGAGGTTCAGGAAGGTGGTTCCTGCACTGGAATGTTTGGGTTCAATAAGACAATAAAGGTTTCATCTAATGATAAAGGAAAGCCTTCAATTGCGTACGACACTGATGTGTCTATCGACATCCCCCCCAAAACCACCCTTGCTTACAGCGTGATTGAATTAGACATTGCTCACACAGGACACTATGAACTGTGTCTGCTGCCAGCAGTCAAAGGTGGATTTGAAATTGATGGCCCAGTCAAGGTGAAACAAGCAGTCACAGTTAGTGCTGCACCAGGGAATCCAACCCACAACATGCAGAAAGAACTTGTAGGACTCGAAGGCCAGTTTAAAGTTCTGTCTAAACTGCCGTCTAGCACACGCTTCTCGTTATTCCAGCAGATCTCTCTACTCCTGCAGAACAGCGCAGTCATTAGCATTTTGGGGAGCACACTAGAGGACCTGTGTGGAGGGACACAGCCTGATCCCAGTACATTAGCCGAGGTGCCTGAACTGAAGGTTACACTGGAGCTCATACAGAAAAGTGCTGGTAAAAAACCCTCTGGACAACATCAGAAGCAAAGCACACTTACTGCCACACACCTGCTCATCAGTGCTCTAGACGAGATGAGTAAGCCAGCACTCTTCCTGCTCAAATCCTGCTGCAGTTACACAACCCTGCAAGCTCTGCTCCATCTTGTGCAGAATATGGCTTTAAATGAGAAATCCTCTCTGAAAGACGCTGCTCTGGATGTTTTAGCCGATGAGGTGGTTTTCAAAAACATTACATCACTCTTTAATTCCTGCAACGTGATGCTGCTCAAGGATGACAATTCACTTATTACAAAAATCAGCAACCCAGAAGATCGTCTTCCCCTCATGTTGTGCATTGCAGTCAAGGGTTTGGCTTCTCTTGCACCCCATGTTTGATAATCTGTTGTAACTTATGAAGACCAAAGGCCCCAAGAAGTTTCTCACTGCAGCCTGCAGTGGACATCCATCCCCACCAACATCCAAGTGTAAGCCACTGCTGCCTCACTGTAGACTACAGCATGATGACAAACTAGAACAAGTCCAATATGTAATGGACATGTATTtgtgatgggttgtagctagaaataagaattatttgtatttataaaattaCCCATTACAATGTGTGCTGTTATGCCTACACCTACCCCAAAGTTAAATTCAACCCTAACAGTTAAGCATGCGCATTACAATGCCCAATGTGACACTTGGATGAGTGCAGGGTTGCATGTCTACTGCTTGCTGCAGCGAGACCTACTTGAAGGTCCCCAAAGCCTGCAGGTGGACAATCTACAAACTGGGAAAGAAACAATAACAATCAAGCCCTACATTGCCTTAAAGCCCGAGTAATACTTTTGCCTTGCGACGCATCgtgcacctccgctgactgcTCATGCGCCTCACGAAacagacgagg

Function


GO:

id name namespace
GO:0042471 ear morphogenesis biological_process
GO:0042472 inner ear morphogenesis biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0008219 cell death biological_process

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-7662 Acts upstream of or within inner ear morphogenesis and regulation of biosynthetic process. Predicted to be located in plasma membrane. Predicted to be active in cytoplasm. Is expressed in several structures, including digestive system; heart tube; hematopoietic system; nervous system; and otic vesicle. Human ortholog(s) of this gene implicated in autosomal dominant nonsyndromic deafness 5 and sensorineural hearing loss. Orthologous to human GSDME (gasdermin E).

Ensembl:

ensembl_id ENSDART00000182869

JBrowse2


Loading

Neighbor


RNA id RNA type direction distance location representative gene id
TCONS_00021921 lncRNA upstream 284008 21141048 ~ 21142516 (+) True XLOC_009859
TCONS_00019662 lncRNA upstream 539100 20871044 ~ 20887424 (+) False XLOC_009850
TCONS_00019660 lncRNA upstream 546319 20871015 ~ 20880205 (+) False XLOC_009850
TCONS_00019663 lncRNA upstream 552024 20873723 ~ 20874500 (+) True XLOC_009850
TCONS_00021708 lncRNA upstream 731007 20688916 ~ 20695517 (+) True XLOC_009848
TCONS_00021922 lncRNA downstream 193461 21634387 ~ 21634836 (+) True XLOC_009862
TCONS_00019681 lncRNA downstream 258069 21698995 ~ 21703320 (+) False XLOC_009863
TCONS_00019683 lncRNA downstream 258163 21699089 ~ 21703817 (+) False XLOC_009863
TCONS_00019684 lncRNA downstream 258169 21699095 ~ 21703511 (+) False XLOC_009863
TCONS_00019690 lncRNA downstream 360793 21801719 ~ 21802475 (+) True XLOC_009864
TCONS_00019675 mRNA upstream 7749 21330634 ~ 21418775 (+) False XLOC_009860
TCONS_00019674 mRNA upstream 7749 21330634 ~ 21418775 (+) True XLOC_009860
TCONS_00019673 mRNA upstream 7869 21242491 ~ 21418655 (+) False XLOC_009860
TCONS_00019672 mRNA upstream 371388 21016820 ~ 21055136 (+) True XLOC_009858
TCONS_00019671 mRNA upstream 448818 20947439 ~ 20977706 (+) True XLOC_009857
TCONS_00019679 mRNA downstream 258054 21698980 ~ 21706709 (+) False XLOC_009863
TCONS_00019680 mRNA downstream 258058 21698984 ~ 21719111 (+) False XLOC_009863
TCONS_00019685 mRNA downstream 258286 21699212 ~ 21741877 (+) False XLOC_009863
TCONS_00019686 mRNA downstream 297268 21738194 ~ 21745336 (+) True XLOC_009863
TCONS_00019687 mRNA downstream 348777 21789703 ~ 21804638 (+) False XLOC_009864
TCONS_00019667 other upstream 513040 20913413 ~ 20913484 (+) True XLOC_009854
TCONS_00019658 other upstream 921659 20496773 ~ 20504865 (+) True XLOC_009846
TCONS_00019655 other upstream 1122249 20296823 ~ 20304275 (+) True XLOC_009845
TCONS_00019651 other upstream 1255696 20167834 ~ 20170828 (+) True XLOC_009843
TCONS_00019642 other upstream 1721986 19704424 ~ 19704538 (+) True XLOC_009838
TCONS_00019682 other downstream 258080 21699006 ~ 21703679 (+) False XLOC_009863
TCONS_00019718 other downstream 1956875 23397801 ~ 23399160 (+) False XLOC_009882
TCONS_00019728 other downstream 2166305 23607231 ~ 23607352 (+) True XLOC_009889
TCONS_00019735 other downstream 2396994 23837920 ~ 23854611 (+) False XLOC_009892
TCONS_00019751 other downstream 2519945 23960871 ~ 23962929 (+) False XLOC_009898

Expression Profile


Expression of TCONS_00019678 in the Zebrafish Sample from each Developmental Stage of PRJEB12982

Boxplot with 18 boxes. Box plot charts are typically used to display groups of statistical data. Each data point in the chart can have up to 5 values: minimum, lower quartile, median, upper quartile, and maximum.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 10.
End of interactive chart.
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Expression of TCONS_00019678 in the Zebrafish Sample of PRJEB12982

Bar chart with 360 bars.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 10.
End of interactive chart.

Homologous


species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000016_08553934_08565167.mRNA True 2589 mRNA 0.42 9 CI01000016 8552843 ~ 8565246 (+)
bowfin (Amia calva) TU121759 False 1195 TUCP 0.59 4 CM030132.1 8951793 ~ 8953675 (+)
mexican tetra (Astyanax mexicanus) TU121759 True 1135 lncRNA 0.52 7 NC_035906.1 13002722 ~ 13016527 (+)