RNA id: TCONS_00014280


Basic Information

Item Value
RNA id TCONS_00014280
length 4413
RNA type mRNA
GC content 0.42
exon number 15
gene id XLOC_007237
representative True

Chromosome Information

Item Value
chromosome id NC_007125.7
NCBI id CM002898.2
chromosome length 52660232
location 20156477 ~ 20191281 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CTTGTGTTTACATCAATGCATTCAACAGCGGCCGCTGCAGACCGTCTACTCATCAATGTTTTGCTTTCATTTCTTTGAAAACGAGTTCGCTAATCGGCACACACGGTAGTTCCGACCCCGTCCGAGCACAACACCGCTGCGTGAAATAGAAAGCGCGCGCCTGCTGCAGCTGTGGTCTGTTGTGTATTAAATTACTGGCGTCATGGACGAGCTCGCGGTGGAAGTGCGAGGAGCGAGTGGAGCTTTCTACAAGgcTTATATTAAGGATGTTCATGAGAGTACTGTCACAGTGGCTTTTGAGAACAATTGGCAGCCAGAACGACAGATTTCTTTCCAGGATGTTCGGTTTCCACCTCCAACCGGTTTTCAGAAAGAAATAAATGAGAGCGATGAAGTGGAGGTGTACTCTAGGGCTAATGATAAGGAACCCTGTGGATGGTGGCTTGCCAAAGTTCGCATGGTGAAAGGAGAATTTTACGTTATAGAATATGCAGCCTGTGATGCCACCCTAAATGAAATCGTCACATTAGAGAGGCTACGACCTGTGAACCCCAACAAAGCAGCAACAAAGAACACCTTTCTCAAAACCAGACTAGATGTTCCTGAAGACTTGAGACAGATgTGTGCAAAAGACTCAGCacataaagattttaaaaaagcaattgGAGCGTTTAATGTCACTTACGACTCTGAAGAAAAGCAGTTGGTTATTTTGTCTGTTAATGAGGTTACAGCAAAGCGAATATCCATGTTGAGTGACATGCACTTTAGGAGTCTGCGCACAAAGCTGGCGCTGATACTGAGGAATGAGGAAGCAACCAGACAGCTGGAGAGTTCTCGGCAGCTGGCCTCAAGGTTTCATGAACAGTTTGTGGTGCGGGACGATCTCATGGGATTGGCCATTGGCACCCATGGAGCAAACATCCAGCAAGCCAGAAAGATTTCTGGAGTTACAACCATTGATCTCGATGAAGAGACATGCACGTTTCACATCTATGGAGAGGACCAGGAGGCTGTACGGAAGGCCCGAAGCTACCTGGAATTTTCAGAAGATGTTATCAAAGTTCCTAGGAATTTAGTCGGAAAAGTCATTGGCAAGAGTGGGAAGCTGATTCAAGAGGTTGTGGATAAATCGGGTGTTGTCAGAGTACGAGTGGAACCTGAAAATGACAAAAAGCCTTCTCCGTTAGAGGAGGGTATGGTGCCATTTGTGTTTGTGGGAACAAAGGAGAGCATTTCTAATGCACGTATTCTGCTGGACTACCATCTGAACTATTTAAAGGAGGTAGATCAGCTACGAATGGAGAGACTGCAGATCGATGAGCAGCTTAGACAGATCGGTGGAGGACCCAGAGCTTTGCCGGGACGACCCGAGAAAGAAAAGTCTTTCATGGCTGATAATGGAATGGGACCCTCGCGAGGTGGAGGCAAACCTTTTGGTCGAGGAGGACGAGGAAGACGAGGCCCAACGCTGGCTTCAGGCACCAACTCCGAGGCATCTAATGCATCTGAGACTGAATCAGACCACAGAGATGAGCTCAGTGACTGGTCTCTAGCCCCCACAGATGAGGAGTCTATGGGTTATCCCAAAAGGGCCCCTGATGGACGCAAAAGGGGTGGGGGGCCCCGTGGTCGTGGGGGTAGAGGAAGAGGAGGATACAAAACTGAGGACATGCACTGGAATGATTCCCGCTCCCGTAGTTCCAGAGACTCCAAGCTACGACCCCAGGAAGAGTCACTGCAGATCCGCATCGACAGCAATAACGAGAGGAGCATCCACACCAGCCGAAGCTCTCAAGCTATGGCAGGAGACAGCGGAGGGAACCGGCAGAGACCCATAAAGGAACGCGTGATGAAGAAAGAAAAGCAGGACGGCTCCGACAGCCAGGCCGTAGTGAACGGCGTTTCGTAGAGAATAACAAGCCCCCCTTCCCCTCATTCTCCCACTCAGCTCCACCAATCCAGATGCTTCTTCATTAGAGACACATTAGGCCAAAGAGAACCAGGTCAGTAGGGCTGTCGCAAGACATGACATAAAGCACACTTTGTAATTGTTAGCGGGGTTAAAAGACGAGGTCTCTTGGTGTACGGTGTGTTGAATTTGGTAGTCTTCACGGATTAGAGAGACCGGTCTCTAAATCTCAACTGAAGCTACAGGTTTTCTAATTGACTTTCTAAATAACTACCTAAAGAAGCTGTGGATAAAATGTCTCTCATAAatggaataaaaacaaaaaaaagagcttTTCCAAGAAATTggtttttaaagtttgttttccaCAATGTccaaaaaaaagggaaagaaacGCATTGGAGGATGAACTCAAGCTCTCGACGCCCAAGTTTATGCCACATCTCATGGCATACATTGTTTTTACACGCTTTGGTGTCCATGGTTTCTCGAGCCCATTCTGATGTGAGATCTTAACCACATCATtagcaaaaaaatacaaaaaaaatacaaaaaaaatttaaaaaacgaagagaaaaaaaaagtaaaaaataaaaaaaatgctcctGTCTGGATCTGTGCCTTTAACTAGTGTGGATAGTATCATAATTTGGATGTTTAAATCAGGGAAGAAGGCGTGAACAACACCTGTCACCTGAGCAGAGTTTGTTGCAATCTCAGCCGacaactttaaaaacaaacaaaaaaaggtgtttctttttttttctctgtgctgcatgtatttcacaaacattttgTATGTCTGAAAAGCAGGATTGGAAATCTATTTTGCCATAGCTGAGTTGTGAGTAGTAAAGGTATTAGCCTAACTAAACTAGTCAACTGTGGAAGTCATTGATTGTAACTAACCACCCGAGTTGAATATCAATGCTAATTCAACAATGAAAGcattaatgaagattaatttgATGTAAAGCATATCTTTGCATTTTAGaacaattgttttttgttttcaatagAGGTAGCAAAGCAGTTTCCTTTAAACAAAAtgtcttttgttttttacttgttttacctCCATCATGATATAAAGGTGAATTTGCTCAGATGTTTTCTCACAAACAGGGTGGAAATGctctattttgtttcattttttttttttgttcatgctGGCCACAGTAAACTGCCATCTTTCCTGCTGTATTTTTCAGCATCAGGTGTGAAGCACTTATATCAGATTATATCTGTAACATTGTCTTTGTCCTAACAATGGCTCATCATAGACTGAAAATGTTGAACTGTGGGAttgcatactgtatattattaCATCATCCGTTAAGAGATTGTTGCTGTTCTTTTTAGATTGAACTTTAAATGTGCACTTATCATGTTTGTGTTACTCTGCAAGTACTTTATAATCTATAAACCTATAATAAACTAGAATGTGATAAGACTTCTTCAGCAGGTGAATCACATGTATGCTGTCAACATAACTAAACTGAAGTTTAGATCTCTTCGCTAATTTTGAGTCTACTGTACTTTTGCAGCTTCGAGAGGGACGAGATTTGGGGGAAACACAACGTTAACTTTGATATGAGGAGAACAAAATGTCTATCTTATCCGATTAGTGCTTGTGCATTAAACTTTAGTTTACAATTTTGAGAAGACGCAAAGCTGTTCTAAACCCACGATTCTTTTGAAACCTACTGTGACGGTAAACATGGTAGTTTTTTTGACTGTACAGCAAGAAAGCCAGTCAGTTGTATCCTCTTTGCTCCTTTTTCTTAACAACTCTTTTTCATTTTATGCTCGCTAGTCAAATATCCAGCTCTACCTGTAAAGCTTACACCAGTTTCAAAGTGATTTTGCCTTGATCAGTGTCCTGTGAAAACCAAACGGAAGGGGTTACGTTTCACGCGAAATGCAAAAAAAACCTGTGACTGGCAGAGGATTTGCAGCTCTGTGGGATGGGAATGATAAACCACTCGAACGGGGCGTCCTGGCTGCATCCGGCCCCCTTTTAAAATTTAGCCTTTATTTGGAAGTAAGGTGTTAAAATGGTTTACtctcagtatttttaaaaaaacttgcaCATCTACGGTGTGCAGTAAACTGGCAAGATGGCAGAGTTCaccagtctgttaaaaaaaaaaaaaaaaaaaaaactttgaagtgTTGCCAAACAGactgttttctagttatttattttttggaatgtATATGAAAAATGACAAATTGTAAAACCATCTCTTGCACACATCGTTAGGCTATTGTGATTTGAATAAAGAGctgaaaaggaataaaaacaaacaaaaaacatgaaataCTGTAGATACTGAACCGAGGTAGACTGACCTTGTATGTTACTGCACTTTGGGTAATAATTTCTTTGTACATAATAGCAGAACAGACTGGGTTTTATGTTGACATTGTTTGGTTATAGTGCAATATATTTTGTATGCAAGCAGTTTCAATAAATAAAGGTTGATCTTCCTCTGCAA

Function

GO:

id name namespace
GO:0045727 positive regulation of translation biological_process
GO:0048755 branching morphogenesis of a nerve biological_process
GO:0050890 cognition biological_process
GO:0000381 regulation of alternative mRNA splicing, via spliceosome biological_process
GO:0048812 neuron projection morphogenesis biological_process
GO:2001022 positive regulation of response to DNA damage stimulus biological_process
GO:0051489 regulation of filopodium assembly biological_process
GO:0051216 cartilage development biological_process
GO:0006417 regulation of translation biological_process
GO:0021905 forebrain-midbrain boundary formation biological_process
GO:0090365 regulation of mRNA modification biological_process
GO:0017148 negative regulation of translation biological_process
GO:0014036 neural crest cell fate specification biological_process
GO:0043488 regulation of mRNA stability biological_process
GO:0007420 brain development biological_process
GO:0001934 positive regulation of protein phosphorylation biological_process
GO:0035770 ribonucleoprotein granule cellular_component
GO:0030424 axon cellular_component
GO:0030426 growth cone cellular_component
GO:0043025 neuronal cell body cellular_component
GO:0005844 polysome cellular_component
GO:0005634 nucleus cellular_component
GO:1902737 dendritic filopodium cellular_component
GO:0036464 cytoplasmic ribonucleoprotein granule cellular_component
GO:0014069 postsynaptic density cellular_component
GO:0043197 dendritic spine cellular_component
GO:0044326 dendritic spine neck cellular_component
GO:0098793 presynapse cellular_component
GO:0005737 cytoplasm cellular_component
GO:0045182 translation regulator activity molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0042803 protein homodimerization activity molecular_function
GO:0003723 RNA binding molecular_function
GO:0003729 mRNA binding molecular_function
GO:0003730 mRNA 3'-UTR binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-020731-6 Predicted to enable mRNA 3'-UTR binding activity; protein homodimerization activity; and translation regulator activity. Acts upstream of or within several processes, including nervous system development; neural crest cell fate specification; and regulation of mRNA modification. Located in nucleus. Is expressed in central nervous system; neurons; and testis. Used to study autism spectrum disorder and fragile X syndrome. Human ortholog(s) of this gene implicated in fragile X syndrome; fragile X-associated tremor/ataxia syndrome; and primary ovarian insufficiency 1. Orthologous to human FMR1 (FMRP translational regulator 1).

Ensembl:

ensembl_id ENSDART00000123434

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00014279 lncRNA upstream 344992 19806641 ~ 19811485 (+) True XLOC_007236
TCONS_00014278 lncRNA upstream 347353 19806641 ~ 19809124 (+) False XLOC_007236
TCONS_00015968 lncRNA upstream 440139 19712262 ~ 19716338 (+) True XLOC_007235
TCONS_00015967 lncRNA upstream 1156161 18992168 ~ 19000316 (+) True XLOC_007233
TCONS_00016193 lncRNA upstream 1160516 18992153 ~ 18995961 (+) False XLOC_007233
TCONS_00016194 lncRNA downstream 76730 20268011 ~ 20269394 (+) False XLOC_007238
TCONS_00016195 lncRNA downstream 77512 20268793 ~ 20269394 (+) True XLOC_007238
TCONS_00016196 lncRNA downstream 539265 20730546 ~ 20737102 (+) True XLOC_007239
TCONS_00015969 lncRNA downstream 568348 20759629 ~ 20761559 (+) True XLOC_007240
TCONS_00016197 lncRNA downstream 650263 20841544 ~ 20845040 (+) False XLOC_007241
TCONS_00014277 mRNA upstream 894744 19258702 ~ 19261733 (+) True XLOC_007234
TCONS_00014276 mRNA upstream 895211 19258702 ~ 19261266 (+) False XLOC_007234
TCONS_00014272 mRNA upstream 1366696 18781082 ~ 18789781 (+) False XLOC_007231
TCONS_00014274 mRNA upstream 1366696 18785727 ~ 18789781 (+) True XLOC_007231
TCONS_00014273 mRNA upstream 1369420 18782610 ~ 18787057 (+) False XLOC_007231
TCONS_00014281 mRNA downstream 151272 20342553 ~ 20736925 (+) False XLOC_007239
TCONS_00014282 mRNA downstream 151291 20342572 ~ 20411073 (+) False XLOC_007239
TCONS_00014283 mRNA downstream 701784 20893065 ~ 20898499 (+) True XLOC_007242
TCONS_00014284 mRNA downstream 709708 20900989 ~ 20908036 (+) True XLOC_007243
TCONS_00014285 mRNA downstream 720029 20911310 ~ 20917866 (+) True XLOC_007244
TCONS_00014275 other upstream 1356919 18799434 ~ 18799558 (+) True XLOC_007232
TCONS_00014213 other upstream 5246807 14909553 ~ 14909670 (+) True XLOC_007192
TCONS_00014209 other upstream 5310318 14844916 ~ 14846159 (+) True XLOC_007189
TCONS_00014206 other upstream 5319207 14837073 ~ 14837270 (+) True XLOC_007188
TCONS_00014169 other upstream 7953284 12189837 ~ 12203193 (+) True XLOC_007167
TCONS_00014313 other downstream 1047401 21238682 ~ 21245773 (+) False XLOC_007253
TCONS_00014315 other downstream 1479826 21671107 ~ 21678917 (+) False XLOC_007255
TCONS_00014324 other downstream 1548335 21739616 ~ 21745484 (+) True XLOC_007257
TCONS_00014351 other downstream 2124953 22316234 ~ 22319001 (+) False XLOC_007271
TCONS_00014367 other downstream 2884846 23076127 ~ 23155656 (+) False XLOC_007280

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000110_02652077_02664329.mRNA True 1834 mRNA 0.50 15 CI01000110 2652077 ~ 2664450 (+)
rainbow trout (Oncorhynchus mykiss) TU1376230 False 2941 lncRNA 0.40 2 NC_048578.1 2318315 ~ 2321283 (-)