RNA id: TCONS_00023856


Basic Information

Item Value
RNA id TCONS_00023856
length 658
RNA type processed_transcript
GC content 0.46
exon number 2
gene id XLOC_012099
representative True

Chromosome Information

Item Value
chromosome id NC_007128.7
NCBI id CM002901.2
chromosome length 53461100
location 23650534 ~ 23674495 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AATAAAGCCCTTCTGCGAGGATCTCGACCAGTGGCTGTCCGAGGATGAGAACCATGTGGCTGCCATCCACTGCAAGGCAGGCAAAGGTCGCACAGGTGTCATGATATGTGCCTATCTGCTGCATCGCAAGAAGTTCGCAGAGGCTCAAGAGGCACTGGACTTTTATGGGGAAGTCAGAACCAGGGataaaaagGGGGTGACAATTCCCAGCCAGCGCAGGTATGTGTATTACTACAGCTACCTGCTGAAGAACAAGCTGGACTATAAACCCGTTGCCCTCCTCTTCCATAAAATGGTGTTCCAGACTTTGCCCATGTTCAGTGGGGGCACCTGCAGTAAGTCTTATTCTCCTTTAAACCTCTCCAAAAACACAACAGCGTGCTGCAGTTTAGCTTTTCTGAATGTTGTTGTGGTTTTAAAAGCATGCGTGTTTGTGGCATACACATTAAAGCCTGCAGAACAAGCAGAGAACATGTTATTTGATGTAACTGACATGCTTATGCTGTCATGTGGGGTTGTGGTCGCACTCACAAGTGAGCTGCCGttgtgttttgtcattttaacCCTGTACCACAACCTTCGCCTCTGTCCCTAACATTCTAACACTCATGGGTACACTGTCTTTCTCTgttccttttttcttctttttttaaaaagt

Function

GO:

id name namespace
GO:0001704 formation of primary germ layer biological_process
GO:0048729 tissue morphogenesis biological_process
GO:0001707 mesoderm formation biological_process
GO:0045995 regulation of embryonic development biological_process
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0016070 RNA metabolic process biological_process
GO:0035775 pronephric glomerulus morphogenesis biological_process
GO:0007498 mesoderm development biological_process
GO:0048762 mesenchymal cell differentiation biological_process
GO:0080090 regulation of primary metabolic process biological_process
GO:0072102 glomerulus morphogenesis biological_process
GO:0018130 heterocycle biosynthetic process biological_process
GO:0006351 transcription, DNA-templated biological_process
GO:0065007 biological regulation biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0060896 neural plate pattern specification biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0060897 neural plate regionalization biological_process
GO:0001756 somitogenesis biological_process
GO:0043009 chordate embryonic development biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0048785 hatching gland development biological_process
GO:0048513 animal organ development biological_process
GO:0035282 segmentation biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0003154 BMP signaling pathway involved in determination of left/right symmetry biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:2000223 regulation of BMP signaling pathway involved in heart jogging biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0097659 nucleic acid-templated transcription biological_process
GO:0031323 regulation of cellular metabolic process biological_process
GO:0060429 epithelium development biological_process
GO:0035050 embryonic heart tube development biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0048562 embryonic organ morphogenesis biological_process
GO:1905330 regulation of morphogenesis of an epithelium biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:0048568 embryonic organ development biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:1901360 organic cyclic compound metabolic process biological_process
GO:1903506 regulation of nucleic acid-templated transcription biological_process
GO:1901362 organic cyclic compound biosynthetic process biological_process
GO:0021915 neural tube development biological_process
GO:0033504 floor plate development biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0010467 gene expression biological_process
GO:0010468 regulation of gene expression biological_process
GO:2000027 regulation of animal organ morphogenesis biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:2000826 regulation of heart morphogenesis biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0060485 mesenchyme development biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0048332 mesoderm morphogenesis biological_process
GO:0007369 gastrulation biological_process
GO:1900094 regulation of transcription from RNA polymerase II promoter involved in determination of left/right symmetry biological_process
GO:0048646 anatomical structure formation involved in morphogenesis biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0050789 regulation of biological process biological_process
GO:0061053 somite development biological_process
GO:0061311 cell surface receptor signaling pathway involved in heart development biological_process
GO:0050794 regulation of cellular process biological_process
GO:0061312 BMP signaling pathway involved in heart development biological_process
GO:0039021 pronephric glomerulus development biological_process
GO:0060795 cell fate commitment involved in formation of primary germ layer biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0019438 aromatic compound biosynthetic process biological_process
GO:0007417 central nervous system development biological_process
GO:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0007420 brain development biological_process
GO:0021999 neural plate anterior/posterior regionalization biological_process
GO:0003303 BMP signaling pathway involved in heart jogging biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0060562 epithelial tube morphogenesis biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0072045 convergent extension involved in nephron morphogenesis biological_process
GO:1901213 regulation of transcription from RNA polymerase II promoter involved in heart development biological_process
GO:0060322 head development biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003690 double-stranded DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000976 transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function
GO:0000987 cis-regulatory region sequence-specific DNA binding molecular_function
GO:0140110 transcription regulator activity molecular_function
GO:0001067 regulatory region nucleic acid binding molecular_function
GO:1990837 sequence-specific double-stranded DNA binding molecular_function

KEGG:

id description
ko03230 Viral genome structure
ko05164 Influenza A
ko03200 Viral proteins

ZFIN:

id description
ZDB-GENE-030131-3776 Enables lipid phosphatase activity. Acts upstream of or within several processes, including lifelong otolith mineralization; negative regulation of angiogenesis; and phosphatidylinositol dephosphorylation. Predicted to be located in PML body and cytoplasm. Predicted to be active in several cellular components, including cytosol; nucleus; and plasma membrane. Is expressed in several structures, including nervous system; oocyte; otic vesicle; presumptive neural retina; and ventral wall of dorsal aorta. Human ortholog(s) of this gene implicated in several diseases, including Cowden syndrome; breast cancer (multiple); gastrointestinal system cancer (multiple); nervous system cancer (multiple); and reproductive organ cancer (multiple). Orthologous to human PTEN (phosphatase and tensin homolog).

Ensembl:

ensembl_id ENSDART00000134713

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00024897 lncRNA downstream 10875 23650534 ~ 23652336 (-) False XLOC_012099
TCONS_00023851 lncRNA downstream 31800 23627576 ~ 23631411 (-) True XLOC_012098
TCONS_00024896 lncRNA downstream 177875 23483059 ~ 23485336 (-) True XLOC_012093
TCONS_00024895 lncRNA downstream 973424 22687170 ~ 22689787 (-) False XLOC_012086
TCONS_00023837 lncRNA downstream 973424 22687170 ~ 22689787 (-) True XLOC_012086
TCONS_00024898 lncRNA upstream 319395 23985873 ~ 23987510 (-) True XLOC_012103
TCONS_00024540 lncRNA upstream 356829 24023307 ~ 24026857 (-) True XLOC_012104
TCONS_00024899 lncRNA upstream 537221 24203699 ~ 24219682 (-) True XLOC_012105
TCONS_00024900 lncRNA upstream 629872 24296350 ~ 24301689 (-) True XLOC_012106
TCONS_00024901 lncRNA upstream 640888 24307366 ~ 24316946 (-) False XLOC_012107
TCONS_00023850 mRNA downstream 31811 23619924 ~ 23631400 (-) False XLOC_012098
TCONS_00023849 mRNA downstream 46585 23612616 ~ 23616626 (-) True XLOC_012097
TCONS_00023848 mRNA downstream 54001 23607195 ~ 23609210 (-) True XLOC_012096
TCONS_00023847 mRNA downstream 59948 23598205 ~ 23603263 (-) True XLOC_012095
TCONS_00023846 mRNA downstream 117495 23542115 ~ 23545716 (-) True XLOC_012094
TCONS_00023857 mRNA upstream 14608 23681086 ~ 23709347 (-) True XLOC_012100
TCONS_00023858 mRNA upstream 44181 23710659 ~ 23727978 (-) True XLOC_012101
TCONS_00023859 mRNA upstream 153972 23820450 ~ 23895026 (-) True XLOC_012102
TCONS_00023862 mRNA upstream 664570 24331048 ~ 24439672 (-) False XLOC_012108
TCONS_00023863 mRNA upstream 683087 24349565 ~ 24364527 (-) False XLOC_012108
TCONS_00023840 other downstream 737874 22925209 ~ 22925337 (-) True XLOC_012088
TCONS_00023839 other downstream 876920 22786174 ~ 22786291 (-) True XLOC_012087
TCONS_00023820 other downstream 1652543 22002857 ~ 22010668 (-) False XLOC_012077
TCONS_00023811 other downstream 1804047 21833724 ~ 21859164 (-) False XLOC_012072
TCONS_00023801 other downstream 2383026 21279873 ~ 21280185 (-) True XLOC_012064
TCONS_00023885 other upstream 1197233 24863711 ~ 24866653 (-) True XLOC_012119
TCONS_00023894 other upstream 1250872 24917350 ~ 24937879 (-) False XLOC_012122
TCONS_00023896 other upstream 1262665 24929143 ~ 24937535 (-) False XLOC_012122
TCONS_00023897 other upstream 1266213 24932691 ~ 24937684 (-) False XLOC_012122
TCONS_00023912 other upstream 1846446 25512924 ~ 25522751 (-) True XLOC_012130

Expression Profile

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