XLOC_003690


Basic Information

Item Value
gene id XLOC_003690
gene name NA
gene type non-coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 42053251 ~ 42054601 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00008425
CCACTTGAAGATCAGACTTCAGCAGAATCAGCATCAGTCATGGCCACATACATGGACGTGTCTTTCCAGAGCAGCTTCAAGACTCAACATGTTCAACACGCAAGATGCGTTCTCACGTGTTTGGAGAGAAAGTGTGGCAGCAGCTTGGAGAAGCTCAGATGTGCTGTCGGAGAGTATCTTCAGGCCTCAGATCTGCTGGAGAGAGCCGTGTCTTTCCTCACGCTCAGAAGAGTCTTACTGTCTCATGACGGATACTCCAAATATTCCAGAGAAATCCTGCGGCTGTTTCCCGACCATGCAGAGGATGTAGCAGCGTTACTGTCTGAAGAATGAACACCGGATACTGAAACACTCAGACTGAACATCAAGAAGCCTTTAaagaaatgtacagttgaagtcagaataattcgccctcctgtgaaatatttcctaaatgatgtttaacagagcaaggaatttctcacagtatttcctataatattttttcttctggagaaagtcttatttcttttattttggctagaataaaagcagttttaaattttttaaacacaattttaaggtccaaatttttagcccccttaagcaatatttgcttTCTATTATCTACAGTACAAACCcctgttgtacaatgacttgcctaattaacctaattaagcctttaagtgccactttaagctgaatactagtatctgaatatctagtcaaatattatttactgtcattatgactaagataaaataaatcagttattagagatgagttattaaactattatgattagaaatgtgttgaaacatatcttctctctgttaaacagaattatacaggagggctaataactctgtcttcaactgtttataaaacACAGATGCCttaatttgagtttattttcttgcttcaaagaatatttttatacttttttgtttttacaaatgctCAGTTTTATGCATTGTGtgcattattattagcagttgCACTGCCTTATAGCTCTTTTGTTTGTAAATGTGATGCTTTATGCTGATATTTGTTTAATATGCATAAAGAAATTGAAACCAAAACTCCTCTAAATGggagtaaatgtttttttatatcagTATTGTGATTTAACAATGATCCTATTATTCTTAATGAGGATCTCAAGCCATACATCTGGACGACagtccaaaataaaatatgattttatacGAT
>TCONS_00008686
GAAGATCAGACTTCAGCAGAATCAGCATCAGTCATGGCCACATACATGGACGTGTCTTTCCAGAGCAGCTTCAAGACTCAACATGTTCAACACGCAAGGTGAGCCTCTGTTTTTTAGCATTATCAGTGTTGGTAAACCATGTCTTGTTAAATGTGTAACCCTGTAGAACGAATCCCCTCAAAAGACCACAGTGAAGTTGACAATAAGAGTAATAATGTCTGAAGTGCAGATGATTAACGTGAGCGTGTGTGTTTACAGATGCGTTCTCACGTGTTTGGAGAGAAAGTGTGGCAGCAGCTTGGAGAAGCTCAGATGTGCTGTCGGAGAGTATCTTCAGGCCTCAGATCTGCTGGAGAGAGCCGTGTCTTTCCTCACGCTCAGAAGAGTCTTACTGTCTCATGACGGATACTCCAAATATTCCAGAGAAATCCTGCGGCTGTTTCCCGACCATGCAGAGGATGTAGCAGCGTTACTGTCTGAAGAATGAACACCGGATACTGAAACACTCAGACTGAACATCAAGAAGCCTTTAaagaaatgtacagttgaagtcagaataattcgccctcctgtgaaatatttcctaaatgatgtttaacagagcaaggaatttctcacagtatttcctataatattttttcttctggagaaagtcttatttcttttattttggctagaataaaagcagttttaaattttttaaacacaattttaaggtccaaatttttagcccccttaagcaatatttgcttTCTATTATCTACAGTACAAACCcctgttgtacaatgacttgcctaattaacctaattaagcctttaagtgccactttaagctgaatactagtatctgaatatctagtcaaatattatttactgtcattatgactaagataaaataaa

Function

GO:

id name namespace
GO:0048731 system 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:0048468 cell development biological_process
GO:0010628 positive regulation of gene expression 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:0007219 Notch signaling pathway biological_process
GO:0008152 metabolic process 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:0030154 cell differentiation biological_process
GO:1990399 epithelium regeneration biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0019827 stem cell population maintenance biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0030182 neuron differentiation biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0007275 multicellular organism development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0002065 columnar/cuboidal epithelial cell differentiation biological_process
GO:0009891 positive 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:0031326 regulation of cellular biosynthetic process biological_process
GO:0031328 positive regulation of cellular biosynthetic process biological_process
GO:0006139 nucleobase-containing compound metabolic process biological_process
GO:1902680 positive regulation of RNA biosynthetic process biological_process
GO:0097150 neuronal stem cell population maintenance biological_process
GO:0051239 regulation of multicellular organismal process biological_process
GO:0048856 anatomical structure development biological_process
GO:0051252 regulation of RNA metabolic process biological_process
GO:0006725 cellular aromatic compound metabolic process biological_process
GO:0051254 positive regulation of RNA 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:1903508 positive regulation of nucleic acid-templated transcription biological_process
GO:0010467 gene expression biological_process
GO:0044237 cellular metabolic process biological_process
GO:0010468 regulation of gene expression biological_process
GO:0048869 cellular developmental process biological_process
GO:0045595 regulation of cell differentiation biological_process
GO:2000026 regulation of multicellular organismal development biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0043696 dedifferentiation biological_process
GO:0043697 cell dedifferentiation biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0045893 positive regulation of transcription, DNA-templated biological_process
GO:0050767 regulation of neurogenesis biological_process
GO:0070654 sensory epithelium regeneration 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:0061564 axon development biological_process
GO:0003002 regionalization biological_process
GO:0007389 pattern specification process biological_process
GO:0048666 neuron development biological_process
GO:0050793 regulation of developmental process biological_process
GO:0050794 regulation of cellular process biological_process
GO:0006807 nitrogen compound metabolic process biological_process
GO:0007399 nervous system development biological_process
GO:0048934 peripheral nervous system neuron differentiation biological_process
GO:0048935 peripheral nervous system neuron development biological_process
GO:0032501 multicellular organismal process biological_process
GO:0048936 peripheral nervous system neuron axonogenesis biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032502 developmental process biological_process
GO:0045935 positive regulation of nucleobase-containing compound metabolic process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0060284 regulation of cell development biological_process
GO:0034641 cellular nitrogen compound metabolic process biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II 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:0010557 positive regulation of macromolecule biosynthetic process biological_process
GO:0034645 cellular macromolecule biosynthetic process biological_process
GO:0060290 transdifferentiation biological_process
GO:0007420 brain development biological_process
GO:0007422 peripheral nervous system development biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0022008 neurogenesis biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0048699 generation of neurons biological_process
GO:0003310 pancreatic A cell differentiation biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0021510 spinal cord development biological_process
GO:0060322 head development biological_process
GO:0021514 ventral spinal cord interneuron differentiation biological_process
GO:0021515 cell differentiation in spinal cord biological_process
GO:0021517 ventral spinal cord development biological_process
GO:0051960 regulation of nervous system development biological_process
GO:0005901 caveola cellular_component
GO:0005634 nucleus cellular_component
GO:0044853 plasma membrane raft cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0005488 binding molecular_function
GO:0005112 Notch 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:0046983 protein dimerization 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

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00008425 False 1191 lncRNA 0.35 2 42053251 42054601
TCONS_00008686 True 899 lncRNA 0.39 1 42053257 42054155

Neighbor

gene id symbol gene type direction distance location
XLOC_003688 NA coding upstream 16262 42035787 ~ 42036989 (+)
XLOC_003687 NA coding upstream 35124 42014003 ~ 42018127 (+)
XLOC_003686 her15.1 coding upstream 68764 41981959 ~ 41984487 (+)
XLOC_003685 aldh4a1 coding upstream 92975 41936435 ~ 41960276 (+)
XLOC_003684 NA coding upstream 118632 41933100 ~ 41934619 (+)
XLOC_003691 NA coding downstream 43446 42098047 ~ 42098291 (+)
XLOC_003692 NA coding downstream 72814 42127415 ~ 42131907 (+)
XLOC_003693 CU138553.1 coding downstream 250488 42305089 ~ 42418374 (+)
XLOC_003694 dennd6aa coding downstream 367770 42422371 ~ 42459902 (+)
XLOC_003695 si:ch1073-165f9.2 coding downstream 420093 42474694 ~ 42477772 (+)
XLOC_003369 CR854846.2 misc upstream 25930169 16122786 ~ 16123082 (+)
XLOC_003318 CR450764.6 misc upstream 29341255 12711700 ~ 12711996 (+)
XLOC_003317 CR450764.16 misc upstream 29358988 12693967 ~ 12694263 (+)
XLOC_003316 CR450764.11 misc upstream 29367652 12685304 ~ 12685599 (+)
XLOC_003315 CR450764.18 misc upstream 29373223 12679732 ~ 12680028 (+)
XLOC_003680 BX571706.1 non-coding upstream 588015 41465107 ~ 41465236 (+)
XLOC_003677 CABZ01087025.1 non-coding upstream 818161 41223485 ~ 41235090 (+)
XLOC_003700 FP067440.1 non-coding downstream 517641 42572242 ~ 42572982 (+)
XLOC_003703 LO017916.1 non-coding downstream 570770 42625371 ~ 42625487 (+)

Expression


Co-expression Network