RNA id: TCONS_00019666



Basic Information


Item Value
RNA id TCONS_00019666
length 1649
RNA type mRNA
GC content 0.43
exon number 2
gene id XLOC_009853
representative True

Chromosome Information


Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 20910186 ~ 20913003 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence


AGGGCAATCTTCTTCCACCGTCAAATTATACCACAAAGATGTCATGCTCCGATAGTCCATCTGGAAATTCGTTTTTGGTAGATTCTTTGATCCACGGAAGGTCCGAGGGAAGTGGACACTACTACCAAAACAGCGGAGTTTACTTGCAGCCGACCTCCGAATATTCTTATGGACTGTCTAACTGTGGCTATTTTTCGGGACTCAAGCGGAACGAGAGCAACTCGCAAAATGTAGTACCTACATGTGGTCCATATCAAGGCATGGAAACATGGTTGGAGACGTCGAGGTCCTGTCGCATTGAACAGCCTAACAACCAAATTACCCCACGGTCGTTCTCGCCCACCATAAAAGAGGAAAACTCTTACTGCTTATATGAGTCTGAGAAGTGCCCAAAAGAAACCATTACAGAGGATATATCGTACTCGCGGCTGACACCAAACTCATGTCCATCTAGCAACAATAACGGCTGTGTTCCGGTGCCCGGTTACTTCCGTCTGTCTCAGACATGCACCACATCTAAGGGTTTTACAGACAACCAGACTATACCGACTCATGTAGTGGCTCAACGTTCAACTCGATTTGACAGCTCTCTTTCAGCTATAGCAGCCGAAGCAAGCCGGGACGAGAGCGACGAGCCCCCCACATGCGCACCATGTGCCCCGGGAAGAAACAAGGAGCTAAGGGGGTCCACTGGCACCGCTTCATCTCCAGAACCACCGGACAGCCCGGAGAAGGCGGTCACTGTAACTAAAGCAGGAGATTCCAAAAGTGAGAGTACAGCTAACTGGCTGACGGCGAAGAGTGGCCGCAAGAAGCGTTGCCCTTACACCAAACATCAGACATTAGAGCTGGAGAAGGAGTTTCTCTTCAACATGTACTTGACACGAGAACGTCGCCTCGAGATTAGCCGCAGTGTTCACCTCACAGACAGACAAGTCAAAATATGGTTTCAAAACCGACGGATGAAGCTGAAGAAGATGAGTAGAGAAAACCGAATCCGCGAGTTGTCAGCCAACTTCAGTTTTTCATGAAGCGTCTAGCTTTATAGATCTCTGGCGCCCTCCTCCATCAGCTGCAGTGGTAGTCTACTTGCATCCAACCGTCTACGTAGATGTGTGCATATATGACTTGTGCAAGATACTATTGATAACTTATTGTGTGTCGTATACTGTTGACGtttttatatgtttatgtataattttatttgacAACCCAGTCGTCATAACATGTCATGGTTATTTATAAACTGTCAAGAGCACTTCACTGTAAAGCAAGAGAGGAAAATATCGAATGCTAAAGGTGTTCATTGTACATAGCATTCTGATTATAttgtacatttattgtatataaatGCGATATTTGCATGttgtaataataactattatgaaTCGATTTTTAAATAATAACGTTTGTTTATAAGTACGACCTTGTCATGTATTTGCTGTTCTGGGCATAATTGGAGGAGTCCAATTctttaaaatgtagaaatgtgTATAATTGCAGACACGACGGAATTCCTGTATTAGACTATTACCAGCATCCAAATGTACCATCTTTCTGGAAATACAGGCCGAGAAGATGGACTCGGGTGTAAAATAAATATACgtgacagaaaataaataaaggcatGTACATGAAAATCATCATAA

Function


GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism development biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-990415-97 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in several structures, including CNS interneuron; chondroblast; mesenchyme; myoblast; and pectoral fin bud. Orthologous to human HOXA10 (homeobox A10).

Ensembl:

ensembl_id ENSDART00000046766

JBrowse2


Loading

Neighbor


RNA id RNA type direction distance location representative gene id
TCONS_00019662 lncRNA upstream 22762 20871044 ~ 20887424 (+) False XLOC_009850
TCONS_00019660 lncRNA upstream 29981 20871015 ~ 20880205 (+) False XLOC_009850
TCONS_00019663 lncRNA upstream 35686 20873723 ~ 20874500 (+) True XLOC_009850
TCONS_00021920 lncRNA upstream 214669 20684940 ~ 20695517 (+) False XLOC_009848
TCONS_00021708 lncRNA upstream 214669 20688916 ~ 20695517 (+) True XLOC_009848
TCONS_00021921 lncRNA downstream 228045 21141048 ~ 21142516 (+) True XLOC_009859
TCONS_00021922 lncRNA downstream 721384 21634387 ~ 21634836 (+) True XLOC_009862
TCONS_00019681 lncRNA downstream 785992 21698995 ~ 21703320 (+) False XLOC_009863
TCONS_00019683 lncRNA downstream 786086 21699089 ~ 21703817 (+) False XLOC_009863
TCONS_00019684 lncRNA downstream 786092 21699095 ~ 21703511 (+) False XLOC_009863
TCONS_00019665 mRNA upstream 2808 20904754 ~ 20907378 (+) True XLOC_009852
TCONS_00019664 mRNA upstream 12350 20895904 ~ 20897836 (+) True XLOC_009851
TCONS_00019661 mRNA upstream 20670 20871021 ~ 20889516 (+) False XLOC_009850
TCONS_00019659 mRNA upstream 109688 20738740 ~ 20800498 (+) True XLOC_009849
TCONS_00019656 mRNA upstream 394380 20496691 ~ 20515806 (+) False XLOC_009846
TCONS_00019668 mRNA downstream 2316 20915319 ~ 20917584 (+) True XLOC_009855
TCONS_00019669 mRNA downstream 13670 20926673 ~ 20929183 (+) True XLOC_009856
TCONS_00019670 mRNA downstream 21350 20934353 ~ 20977701 (+) False XLOC_009857
TCONS_00019671 mRNA downstream 34436 20947439 ~ 20977706 (+) True XLOC_009857
TCONS_00019672 mRNA downstream 103817 21016820 ~ 21055136 (+) True XLOC_009858
TCONS_00019658 other upstream 405321 20496773 ~ 20504865 (+) True XLOC_009846
TCONS_00019655 other upstream 605911 20296823 ~ 20304275 (+) True XLOC_009845
TCONS_00019651 other upstream 739358 20167834 ~ 20170828 (+) True XLOC_009843
TCONS_00019642 other upstream 1205648 19704424 ~ 19704538 (+) True XLOC_009838
TCONS_00019630 other upstream 1781715 19065345 ~ 19128471 (+) False XLOC_009830
TCONS_00019667 other downstream 410 20913413 ~ 20913484 (+) True XLOC_009854
TCONS_00019682 other downstream 786003 21699006 ~ 21703679 (+) False XLOC_009863
TCONS_00019718 other downstream 2484798 23397801 ~ 23399160 (+) False XLOC_009882
TCONS_00019728 other downstream 2694228 23607231 ~ 23607352 (+) True XLOC_009889
TCONS_00019735 other downstream 2924917 23837920 ~ 23854611 (+) False XLOC_009892

Expression Profile


Expression of TCONS_00019666 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 40.
End of interactive chart.
//

Expression of TCONS_00019666 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 40.
End of interactive chart.

Homologous


species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000016_08299340_08301616.mRNA True 996 mRNA 0.50 2 CI01000016 8299340 ~ 8301616 (+)