XLOC_003689


Basic Information

Item Value
gene id XLOC_003689
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 42042559 ~ 42069664 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00008685
AATAGAGttgaaaaaagtttatttttctcTTCATATAGAAAATATTTCTCATACACATTACTTTCGCAGTGGAAAGCATCCGTTGTGAAACAATACGCCTCATCAAACTGAAGCAGAAACACACCAGAGAGGACATCATCTgaataaatgcaaacatttgcACATTATGAGCTGGGCAtagaccaacacaatctcacggcaattcgtaactttttcattcagtggctaattcgtatgaattcgtacgatctaattcgtacaattcagtacgatttgcttatcccccaatgacggttggggttaggggtggggtcaggtgccacgcctcctttttaaaatcgtaccatttcgtacgactgaactcgtacgaattcgtatgaattagccactaaactggcaaaacgtaaaatacttacgttttctcgtgagatcaggctgcatagACAGCAGATCTGCAATAATGCAAATACAGAGTACATATACAGCAGTATATAGAGGATACATGTATAGATCTCTATACTTAATGAACTAAAGAGTTTAACATAAACCCATTGAGAATGATAGAAATGACATTTCATTTGTTCAAATCCTCATAGAGGAGATAGACACTGATACAGGGATCGTTTTCAGACACAAGTATAATCAAAAATGATCAATTAATGCttttcacaataaaaacaaatgcagtttCAACATGAAGCAGAACTAATACTGATTTGACTTCAGTCACATTAAGCATCAGCACAATAGTGAACATTATACCCAGAGGATATTTCCTTAAACTACAAATAGTATTTTCTCAAAATGAGAATTACAAGTCTTGAAGATCAGATGTGTCCGAACTGGAGCTCCTGAAAGTCTTCCTCAGCTTGTAGAATGAAGCCGTATAAACACCCTTTAAACTAAAGAGATTTATCTGATGATGCATCAAGTGTTtaacatttgctttaataaaagcAACTTCTGATCAGAAATATCAATCAAAACAACAAGATTTAGTAAATAAATCACAGGTCTCCTCACAGCAATCTTCACTGAAGatcaacatttacacacactttcCCACAACAGGAAGAACACACTTTGTCCAGATACAAGTTGCTGTATAAATAAGCAGCAGCAGATTCAGGATCAGCACTTAAGAGAGTGATGCACTCATGTTCGTCTCTCGGTCCTGAAACAGGACAATAAGAACAGTCACATCTCATGAAGATGCAGCTGAAGTAAGTCAGAGTTGTCTAATATAGACATTATTATCAGGAGCTCTGCTCATTGAGTCTCTTCACAGAAGTCTTGATGATCAGAGCAGATGATTCTCCTGAACTCCTGAAAGTCTTCATCTCCTCATACACTGAGAGTCTGAGCGTCTGCTGTAGACGTGGAGCTGCTGGAAGCCTCTTCAACTCCAGCTCTTGTTGACTTTGCTGAAGCTCTCGTGCTCAGATGATGAAGTAAGTCTGCAGCTTCTAGTTCAGCTCCAGCAGTCTTCATCTCCGCCTCTTCATCTCCTCTCTGGACAGAAAGAGCTCAATCTCAGCATGTCAAGTGGAGCGTCTCTGCTTTCTTTCTCCAGCTTGGAGGAACTCTGGAGCCAGAAGAGCTGCTGTGGAGAGCTGATCATCAGCTCTCCAGAGTTCCTCCAAGCTGGAGAAAGAAAGCAGAGACGCTCCACTTGACATGCTGAGATTGAGCTCTTTCTGTCCAGAGAGGAGATGAAGAGGCGGAGATGAAGACTGCTGGAGCTGAACTAGAAGCTGCAGACTTACTTCATCATCTGAGCACGAGAGCTTCAGCAAAGTCAACAAGAGCTGGAGTTGAAGAGGCTTCCAGCAGCTCCACGTCTACAGCAGACGCTCAGACTCTCGCTGTATGAGGAGATGAAGACTTTCAGGAGTTCAGGAGAATCATCTGCTCTGATCATCAAGACTTCTGTGAAGAGACTCAATGAGCAGAGATCCTGATATAATAATGTCTATATTAGACAACTCTGACTTACTTCAGCTGCATCTTCATGAGATGTGACTGTTCTTATTGTCCTGTTTCAGGACCGAGAGACGAACATGAGTGCATCACTCTCTTAAGTGCTGATCCTGAATCTGCTGCTGCTTATTTAGCGACTTGTATCTGGACAAAGTGTGTTCTTCCTGTTGTGGgaaagtgtgtgtaaatgttgatCTTCAGTGAAGATTGCTGTGAGGAGACCTGTGATTTATTTACTAAATCTTGTTGTTTTGATTGATATTTCTGATCAGaagttgcttttattaaagtaaatgttACACACTTGATGCATCATCAGATAAATCTCTTTATTTTAAAGGGTGTTTATACGGCTTCATTCTACAAGCTGATAGTGTCTATTGTCGTGTGAAATGTTTTCATTTCTCGATATTGATGTGCTGTTTATATAAAGTGGCTCAGATTGAGCTTGTATTTGGCTTATTGTACTATGATGATCTTCTATTTGAGATGATCTGCATTCAGAGGCTTTATGATTCAGATTGAATCTTTTCTCTTTGGTCTATATTAGACCACATACATGTACCCTGCTTTAAGGGTTTGTTGATTCTCAACATGTGTTGAATATTCTCCTGTACTGTATACAGCAGTCGCCGTTCCTTCTGTGAAGGTTTTTATATTTGATGATTGTCATTTTAATTGATCGCATGATCATTTGTGCTTCTGTAAAGTCTGAAAAGATTAAAGCAGCTCACTGAATGTATTTCTGCTGCGAAATAAAACAATCAACTGAAC
>TCONS_00008426
TGCAAACCAGAGCCCGAGATCTCCAGCAGATCCACACATCAACACCTACAATCATCTCAAAGCTCAACATTCAGCAACATCACTGCAGCGTCCGGCTCTTCTCCATCTGAAGGACACTTTCCTGACACTCGTCTGTCTCCATCTGCAGctgagaaagaagaagaagaagcagagaTGAAGATCAGCTCTCCAGAGTTCCTCCAAGCTGGAGAAAGAAAGCAGAGACGCTCCACTTGACATGCTGAGATTGAGCTCTTTCTGTCCAGAGAGGAGATGAAGAGGCGGAGATGAAGACTGCTGGAGCTGAACTAGAAGCTGCAGACTTACTTCATCATCTGAGCACGAGAGCTTCAGCAAAGTCAACAAGAGCTGGAGTTGAAGAGGCTTCCAGCAGCTCCACGTCTACAGCAGACGCTCAGACTCTCGCTGTATGAGGAGATGAAGACTTTCAGGAGTTCAGGAGAATCATCTGCTCTGATCATCAAGACTTCTGTGAAGAGACTCAATGAGCAGAGATCCTGATATAATAATGTCTATATTAGACAACTCTGACTTACTTCAGCTGCATCTTCATGAGATGTGACTGTTCTTATTGTCCTGTTTCAGGACCGAGAGACGAACATGAGTGCATCACTCTCTTAAGTGCTGATCCTGAATCTGCTGCTGCTTATTTATACAGCGACTTGTATCTGGACAAAGTGTGTTCTTCCTGTTGTGGgaaagtgtgtgtaaatgttgatCTTCAGTGAAGTTTGCTGTGAGGAGACCTGTGATTTATTTACTAAATCTTGTTGTTTTGATTGATATTTCTGATCAGaagttgcttttattaaagtaaatgttACACACTTTGCATTAGATGCATCATCAGATGAATCTCTTTATTTTAAAGGGTGTTTATACGGCTTTATTCTACAAGCTGATAGTGTCTATTGTCGTGTGAAATGTTTTCATTTCTCGATATTGATGTGCTGTTTATATAAAGTGGCTCAGATTGAGCTTGTATTTGGCTTATTGTACTATGATGATCTTCTATTTAAGATGATCTTCATTCAGAGGCTTTATGATTCAGATTGAATCTTTTCTCTTTGGTCTATATTAGACCACATACATGTACCCTGCTTTAAGGGGTTTGTTGATTCTCAACATGTGTTGAATATTCTCCTGTACTGTATACAGCAGTCGCCGTTCCTTCTGTGAAGGTTTTTATATTTGATGATTGTCATTTTAATTGATCGCATGATCATTTGTGCTTCTGTAAAGTCTGAAAAGATTAAAGCAGCTCACTGAATGTATTTCTGCTGCGAAATAAAACAATCAACTGAAC

Function

GO:

id name namespace
GO:0010604 positive regulation of macromolecule metabolic process biological_process
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:0021536 diencephalon development 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: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:0051173 positive regulation of nitrogen compound metabolic process biological_process
GO:0030154 cell differentiation biological_process
GO:0048513 animal organ development biological_process
GO:0090304 nucleic acid metabolic process biological_process
GO:0019827 stem cell population maintenance biological_process
GO:0048522 positive regulation of cellular process biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0030182 neuron differentiation biological_process
GO:0048812 neuron projection morphogenesis biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0007275 multicellular organism development biological_process
GO:0009888 tissue 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:0009893 positive regulation of metabolic 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:0031325 positive regulation of cellular metabolic process biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0120036 plasma membrane bounded cell projection organization biological_process
GO:0031328 positive regulation of cellular biosynthetic process biological_process
GO:0120039 plasma membrane bounded cell projection morphogenesis 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:0009653 anatomical structure morphogenesis 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:0048858 cell projection morphogenesis 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:0044238 primary metabolic process 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:0032990 cell part morphogenesis biological_process
GO:0044249 cellular biosynthetic process 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:0010499 proteasomal ubiquitin-independent protein catabolic process biological_process
GO:0071698 olfactory placode development biological_process
GO:0050767 regulation of neurogenesis biological_process
GO:0021953 central nervous system neuron differentiation biological_process
GO:0071704 organic substance metabolic process 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:0061564 axon development 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:0030030 cell projection organization biological_process
GO:0048666 neuron development biological_process
GO:0050793 regulation of developmental process biological_process
GO:0048667 cell morphogenesis involved in neuron differentiation 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:0007409 axonogenesis 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:0007420 brain development biological_process
GO:0007422 peripheral nervous system development biological_process
GO:0007423 sensory organ development biological_process
GO:0034654 nucleobase-containing compound biosynthetic process biological_process
GO:0022008 neurogenesis biological_process
GO:0030902 hindbrain development biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0048699 generation of neurons biological_process
GO:0031175 neuron projection development biological_process
GO:0046483 heterocycle metabolic process biological_process
GO:0042668 auditory receptor cell fate determination 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:0009790 embryo development biological_process
GO:0021517 ventral spinal cord development biological_process
GO:0051960 regulation of nervous system development biological_process
GO:0022624 proteasome accessory complex cellular_component
GO:0005838 proteasome regulatory particle cellular_component
GO:0005839 proteasome core complex cellular_component
GO:0008540 proteasome regulatory particle, base subcomplex cellular_component
GO:1905368 peptidase complex cellular_component
GO:1905369 endopeptidase complex cellular_component
GO:0005634 nucleus cellular_component
GO:0000502 proteasome complex cellular_component
GO:0043226 organelle 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:0008134 transcription factor binding molecular_function
GO:0005112 Notch binding molecular_function
GO:0070003 threonine-type peptidase activity molecular_function
GO:0005515 protein binding molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0004298 threonine-type endopeptidase activity 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_00008685 False 2754 lncRNA 0.40 3 42042559 42069664
TCONS_00008426 True 1327 lncRNA 0.41 2 42057856 42069664

Neighbor

gene id symbol gene type direction distance location
XLOC_003688 NA coding upstream 5570 42035787 ~ 42036989 (+)
XLOC_003687 NA coding upstream 24432 42014003 ~ 42018127 (+)
XLOC_003686 her15.1 coding upstream 58072 41981959 ~ 41984487 (+)
XLOC_003685 aldh4a1 coding upstream 82283 41936435 ~ 41960276 (+)
XLOC_003684 NA coding upstream 107940 41933100 ~ 41934619 (+)
XLOC_003691 NA coding downstream 28383 42098047 ~ 42098291 (+)
XLOC_003692 NA coding downstream 57751 42127415 ~ 42131907 (+)
XLOC_003693 CU138553.1 coding downstream 235425 42305089 ~ 42418374 (+)
XLOC_003694 dennd6aa coding downstream 352707 42422371 ~ 42459902 (+)
XLOC_003695 si:ch1073-165f9.2 coding downstream 405030 42474694 ~ 42477772 (+)
XLOC_003369 CR854846.2 misc upstream 25919477 16122786 ~ 16123082 (+)
XLOC_003318 CR450764.6 misc upstream 29330563 12711700 ~ 12711996 (+)
XLOC_003317 CR450764.16 misc upstream 29348296 12693967 ~ 12694263 (+)
XLOC_003316 CR450764.11 misc upstream 29356960 12685304 ~ 12685599 (+)
XLOC_003315 CR450764.18 misc upstream 29362531 12679732 ~ 12680028 (+)
XLOC_003680 BX571706.1 non-coding upstream 577323 41465107 ~ 41465236 (+)
XLOC_003677 CABZ01087025.1 non-coding upstream 807469 41223485 ~ 41235090 (+)
XLOC_003700 FP067440.1 non-coding downstream 502578 42572242 ~ 42572982 (+)
XLOC_003703 LO017916.1 non-coding downstream 555707 42625371 ~ 42625487 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) G243477 NA non-coding CI01000057 null 420836 ~ 421940 (+)