XLOC_035953


Basic Information

Item Value
gene id XLOC_035953
gene name NA
gene type non-coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007119.7
NCBI id CM002892.2
chromosome length 54304671
location 45600915 ~ 45604655 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00072271
cttcatgcagtttttgtgacctaatctgaagtgaggactatttatgctttataaatcctttataaatgacacttttagatgctaatgcttaataaattattcatagtgtagagttattataaagtgttaccaaattgtCAATGTCACAGATgctaaaaaacaatatttatagaccagtgtgtgtgtgtgtgtgtacatgcattttttgttttattgaaggTGCCACATGAGGTGGTTGTGTAAAAAAATGCAGCTTTGTTTCAAAagctgttgttttttgtttgtctcACTTACGGCTCAAACATGGTAATGCTGGATGTTTATTGACACCTTAGcagcgtcccaaatcgcatacttgcattattctatgccattttgttgtATAAGTAGAGCGTTTACACTCAGagctggagcaagctgaactgccgctctaggcaaaggacggccacgccgccctcaaccctaaagtgaaaGGGGGGTTGTGGtttataactgagggcgtgggtgtTAAGGGTAGTGTTGCGACCGCTGCCCTCTCTTATTTTGccgccctagacacggatataactaaGGGCACGGGTTGTGAGGGTAGTGTTACTGACGCTGCCCTCACTATTCTGCTTCCCTAGACATGGATATAACTGATGGCGTGGGTGGTAAGGGTAGTATCAGGGacaccaccctctctattctgctgccctagggggccacctaggtcacctctatggacgtgccggccctgttCACAATGAAAGTGCACTTcaaatacccggatgatgcacttatttaaccATTAAAAAGAAGTGTGAAATGCtgaacacttcacgcactcaacggtCACAGATTTGATTGTTGCAGAAGGGGAGAGGCTAAATTGTTGGAAGATGGCGGATGATACCACATCATATAAATGTAAGCAGAATTAAAAATCATTATTGTCAAAATTTGAATGATACTTTTGAAAGCATATTCAGATGATTGGTTAATACCGCTCATCAGAATTGATATTGCTACAGTTTCATCCTCCTCTTGTGATCTTCAGACTTCCAGCCACTCAGCCtctctttgttgttgtttctctCTTCTGTGTTTTCAAATAAAACTGTTACTTGCATTTGGGTCCCtaacgtagactaaccatgttCCATACACTTTTCGCCTTTTTCCACATTCAAACAACCACTTCTCCGTCACTGAAACCAAGACAAGCATGTTTGTGTGACCATTCTCTGGGTGAAAGCCTATTGCACAGTCCACACTTTGATGTCTTTTGGACCAATAGGTTTTGAGAAAATTGAAGAAAAGTACATCCTCCGCACGTGTACGGAAGATGATTAGCGCTAACGGTGTTCCGTACAGGGCGCACGAGGTTGGTTCATCTTCAAATTTGGACATCGAACTGGTCAGCTATCAAGTTTTATTATAAGAAAACATGGATTACCAGGAAAGATGAGtaccattatttattttattttttttttcatttaagtgttaataatattgataacCAGTTGAATTAAACCTAATTGTGTTGTCATATTGATTATGGCACGTGCTTTAAGCAATAAACATGGCAAAACTAGTGAATATAGTTACAATATCTTTCTGAAGACAATGAAGAAGATGAAACACTTTGTGCTGGttaaaatcatttaataattgtgaaaattttgaaacaaatgatcaggtgtgtgtgtgtgtgtctaactaTGTAACAACTTATTAAAGGGATACTAAAATACCATTACTATAGAAATACATTTGCTAACTGTGCACTAATAAATttagtgtgcttgtgtgtgtttacaaCTATATACATTTAACTAAGTTACCAAGAAGTTTGCTTTCATGTGTGACAATgtgatattaattttatttatattttaggtgGACAGACAACATTTTTGATAAAGCCAGTCCGTTTCTGGCACCTCCTCCACCTCTATGCACTCGAGGTGAAACCAAAAAAGGCACAGGTCACACTGCACCCACTCATCAATGGTGTCATCCCGTGAGCCAGGTGGCAGGTCAAAATATTCTTCGCTGGTGATGACGCGGGCTGGCAAGGGAATGCGACGTCTCACCTTTTCCTTCCGCTCCAGAGCTGGACTCATTAAGCCATTTGCCAGGCTTTCAGGAATTACACCTGCTGCCAACAGGTAATTTTTGGGAGCCACTCTGTGGCATGTGGGGCAAGGTGTTTCGATTACAGTGGTTTGAGAGTTTGACGGTGTGGCAGGTGCACAGGATTGTGTCGCGGGAGAGCAGGAAGGTGTAGCAGGAGCGCAGGACGGCATGGCGGGAGCACAGGATGGCGTGGCGGGAGGGGTGGAGCATGTGCTGGATTGTATGGGATCTTCTGTAGATGGGAGCACTCTTACCACCTAATATAATCAACAAAACCGCCCATGACAACGGAAAGATGCCTGCTTTTCTGAATCCAGCCTTAATATTTTGTGCTGTGACTGCCGTTGGATAAACATGTTTGAGCAAGGATGAAAACTGCTTTTTCCCAACAATAACATCGCCTCGCACCAGACTCATCCTGGACGCCATGGTGGAGCAGGCAGTCTTCAGAGGGTTAAAAACGGCAATGTCCAGGGGCTGTAGGATGTGTGTTGTGTGGGCAGGTGCGTATTTATCAAAATGGCAGAGCCATTTAAAGAACAGCTCCGAATCCATATACCCTTTTTCCTGGACTCCATAGAGGGCGTTGGGGGGGTCCATCCAGCCTATTGCTTGGGAGGCATCAGGGTATATGATGAATGGTGGAATGCTTTCCCCGGCATTCACACAGCAGTGGATGGTGATGTGCTCCCTGATGATCTGCTGCTGCTGGTATTTATGCTTCCTTCCCGTTTGGCACAGAACCTTCTCCCTGGAACGAGGCTTGTCCCCAAAACCAGTCTCATCGCAGTTAAAAATAAGATGAGGCTTCTCCTCCAATTTATGCTCTGTGTATAGAGCCTCAAATAATTTGAAAAAGCCTTCAATGGCCTTGGGTGTAGCACCATGGACTTAGCCTCTGTCAAGGGAATCAGCTGTCCATGAGGATAGTCCTAGATGGCGGCCCTTAAACCTAGACCACCACACATCACTTGGCCCCCTCTCCAAGTTGACAGTGGTGGTCTCTGTTCGGCAACTTTCTTTGATAATCCCAGTTGCCAAAATCTTTACCAGGGTTCTGGTCACCGGAAAGCCATGGTCCGCCATCCAGAAAATGAAAGAAACTAACGCCTGTTCCTCTGCAGGTGTCAGGGCCAAATTAGGGTGAGGGTTGTGggaatattttgatttttttataatcttgAAGGGTTGTGTGGGGTATGCCAAATTTTTTTGATGTTGCCCTGAGACTTGCTCCTGCCTTCACTTCCTCTACTGCCTCGTTTAGCTGCTCTTTTGTGTACTTTTTTTCCCCCTGACATCTTTCTTCACTGACTTTCCTTTGAACAATATGgtgtaaatcaggggtcaccaatctcggtcctggagggccggtgtctctgcagggtttaggtccaacttgcttcaacacacctg

Function

GO:

id name namespace
GO:0001704 formation of primary germ layer biological_process
GO:0001706 endoderm formation biological_process
GO:0001707 mesoderm formation biological_process
GO:0019219 regulation of nucleobase-containing compound metabolic process biological_process
GO:0001711 endodermal cell fate commitment biological_process
GO:0019222 regulation of metabolic process biological_process
GO:0001714 endodermal cell fate specification biological_process
GO:0016070 RNA metabolic process biological_process
GO:0007492 endoderm development biological_process
GO:0007498 mesoderm development biological_process
GO:0080090 regulation of primary metabolic process 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:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0051171 regulation of nitrogen compound metabolic process biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:1901576 organic substance biosynthetic process 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:0031326 regulation of cellular biosynthetic process biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:1903224 regulation of endodermal cell differentiation biological_process
GO:0010453 regulation of cell fate commitment 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:0010467 gene expression biological_process
GO:0044237 cellular metabolic process biological_process
GO:0010468 regulation of gene expression biological_process
GO:0044238 primary metabolic process biological_process
GO:0010470 regulation of gastrulation biological_process
GO:2000027 regulation of animal organ morphogenesis biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0071704 organic substance metabolic process biological_process
GO:0060255 regulation of macromolecule metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0050789 regulation of biological process biological_process
GO:0050794 regulation of cellular process biological_process
GO:0006807 nitrogen compound metabolic process 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:0010556 regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0035987 endodermal cell differentiation biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0042659 regulation of cell fate specification biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0042663 regulation of endodermal cell fate specification biological_process
GO:0000785 chromatin cellular_component
GO:0044427 obsolete chromosomal part cellular_component
GO:0005634 nucleus cellular_component
GO:0005694 chromosome cellular_component
GO:0043227 membrane-bounded organelle cellular_component
GO:0043229 intracellular organelle cellular_component
GO:0043231 intracellular membrane-bounded organelle cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0046872 metal ion 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:0097159 organic cyclic compound 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:1901363 heterocyclic compound binding molecular_function
GO:0000987 cis-regulatory region sequence-specific DNA binding molecular_function
GO:0140110 transcription regulator activity molecular_function
GO:0043169 cation binding 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

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00072271 True 3543 lncRNA 0.44 3 45600915 45604655

Neighbor

gene id symbol gene type direction distance location
XLOC_035952 NA coding upstream 128698 45468994 ~ 45472217 (+)
XLOC_035951 NA coding upstream 149505 45448870 ~ 45451410 (+)
XLOC_035950 CU695141.2 coding upstream 155885 45444493 ~ 45445030 (+)
XLOC_035949 NA coding upstream 160344 45439621 ~ 45440571 (+)
XLOC_035948 NA coding upstream 163699 45433272 ~ 45437216 (+)
XLOC_035954 BX088696.2 coding downstream 3885 45608540 ~ 45610783 (+)
XLOC_035955 NA coding downstream 126537 45731192 ~ 45742905 (+)
XLOC_035956 CU137648.2 coding downstream 136389 45741044 ~ 45779978 (+)
XLOC_035957 CU137648.1 coding downstream 162998 45767653 ~ 45772619 (+)
XLOC_035958 nudt18 coding downstream 337287 45941942 ~ 45952598 (+)
XLOC_035960 NA non-coding downstream 440508 46045163 ~ 46146702 (+)
XLOC_035970 NA non-coding downstream 1103565 46708220 ~ 46709848 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) G504874 NA non-coding CI01000347 null 1626767 ~ 1630957 (-)
rainbow trout (Oncorhynchus mykiss) G510115 NA non-coding NC_048570.1 CM023224.2 43377773 ~ 43378044 (-)