RNA id: TCONS_00060580


Basic Information

Item Value
RNA id TCONS_00060580
length 1770
lncRNA type lincRNA
GC content 0.39
exon number 3
gene id XLOC_031194
representative False

Chromosome Information

Item Value
chromosome id NC_007116.7
NCBI id CM002889.2
chromosome length 72500376
location 32560580 ~ 32737158 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CACAAAAAGGACGGAAGCATCTAAAGTGGATGATTAGATCTGAAACGCTCggaagacacacacaaacacactaaagaTTCTGAGTCTGAAATCACAAGCCATGTGCTGTAAAGGAGCTGTTCTCACACATGTGTCTTCAGACAAGAAAGAGAACGACAACAGGTCTCCACAGCTGCCACCTCTCCGGCAACAACACCCCCGACAACAAGCACACACCCACCTACCCCCACCCCGAGCGTCTCTTTGTGCCCGGCTAGAGGCTCTCCTTTCCAGCCACGCTTGCCTTTTGTTCCCTCTCGGTCCTCCCTCCTCTGGTTCTCCTCGGCGAGAAGCAGACGGCTGGTTGTGTTTGGGACTCAGctgaacaaacacacaccagGTCTGAGCAGGATGAGAAGGGGGAGGAGAACACACCTGACACCTCCACATCCTCCATGGTCTCCCTTGTAAAAGTGGTCTGTTGTTCAGCGAGTTGTGTTTGTTGAGTTGTTTACCTTGTTGTGTTTGGGTGGAAATGTCTTGTTTTGCATGTAATGTAGGTATCTTCTAAATGGTCTCTAGGGGTGTAACGGTATACAAAAATGATCAATTAATGTGGAGCTCTGTTTTAAAGTCAAGGTTTGGTTTcgaaacaacaaatattttacatttgttctCACTGAATAAACTATGCATGTCTTTATGTAGTCTATAAATGTTGAGTTTACAACAACAAACTTAACAAAGTTTGCAAAACACTATCTACATGGGACACTCTGCATAATAAAACTTAGAGGACAGTGTTAAACTGAATATAATTGGTGCTATTAAACATTGTCCAGTTTGTGACTGGTAACAAACAGAAACATGGATGTAGATGATGTTTTTTGGTGCTATATTTTTGTTTGAAGAAACAACACACAATATTCTGACTACACAGTGAAAATGGTGAAAATGTCAGCCCATGAGGTTAGTCTAGCACCAATATATCCACCAGCACATTCAGAAGCTCTACAGAAATGTGCGTGATTGGTTGTATGGCCCGCGCTGCAAAGAAATTCATTGAAGATCTTAACTTTAAAGCAACATGTTCAAATCTCAAATGAAATGTAACCCATTGacactgtttattattttaaagtttaatttaattgtttgttttagtttagttggGCATTTGTTTGCCTCATATGTTCTGACCCTAGTTTTATTTTGTCATATTGCTCTTTAGTTTGTAAGATTGgccaaaatattttgactacTGATAGAGTCATAAAATGGGATTAATGGTTGaagtcaaattttattttgatggtctgtttgttgaatttaggctACATTGcacctacatgccaactaattctcattagattatgagttgactgttaggttggggttagggttaaggttggggttagggttagtgtaagttgacatgtacttgcaaagtttcttatagtcagttcaatgtctgttgaaagaacagtatcaacagatattaagcagacagtctactcaaatggaccatcaaaataaagtgttaccttggtCGATATTGATCTGCCATTATTTATTGGAACATTCCTGATTTAAAAGTAAGTATCTACCTTGGTTTCATTATGGAATAAACAGTTTTCTATGAATTACAACATATTCAACTAACTGCTATTGACCTTAATCTTCACGTACGTTGAATCACGAAttgttctatttttatttttttgttgtttatttaatggggacaatacacttgacgtTGCTATACATGCTATACAGAGCCACAAACAGAAA

Function

GO:

id name namespace
GO:0048731 system development biological_process
GO:0051674 localization of cell biological_process
GO:0001708 cell fate specification biological_process
GO:0072359 circulatory system development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006928 movement of cell or subcellular component biological_process
GO:0043009 chordate embryonic development biological_process
GO:0030154 cell differentiation biological_process
GO:0043603 cellular amide metabolic process biological_process
GO:0048513 animal organ development biological_process
GO:0043604 amide biosynthetic process biological_process
GO:0016477 cell migration biological_process
GO:0035295 tube development biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0043043 peptide biosynthetic process biological_process
GO:0090596 sensory organ morphogenesis biological_process
GO:0001501 skeletal system development biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0045165 cell fate commitment biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0007275 multicellular organism development biological_process
GO:0009888 tissue development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0006412 translation biological_process
GO:0060429 epithelium development biological_process
GO:0031326 regulation of cellular biosynthetic process biological_process
GO:0048562 embryonic organ morphogenesis biological_process
GO:0048568 embryonic organ development 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:1903506 regulation of nucleic acid-templated transcription biological_process
GO:0048598 embryonic morphogenesis biological_process
GO:0010467 gene expression biological_process
GO:0048869 cellular developmental process biological_process
GO:0048870 cell motility biological_process
GO:0044249 cellular biosynthetic process biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0040011 locomotion biological_process
GO:0006518 peptide metabolic process biological_process
GO:0007389 pattern specification process biological_process
GO:0007399 nervous system development biological_process
GO:0032501 multicellular organismal process biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032502 developmental process biological_process
GO:0032774 RNA biosynthetic process biological_process
GO:0034641 cellular nitrogen compound metabolic 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:0060322 head development biological_process
GO:0009790 embryo development biological_process
GO:0009792 embryo development ending in birth or egg hatching biological_process
GO:0044391 ribosomal subunit cellular_component
GO:1990904 ribonucleoprotein complex cellular_component
GO:0022626 cytosolic ribosome cellular_component
GO:0022627 cytosolic small ribosomal subunit cellular_component
GO:0044445 obsolete cytosolic part cellular_component
GO:0005840 ribosome cellular_component
GO:0015934 large ribosomal subunit cellular_component
GO:0015935 small ribosomal subunit cellular_component
GO:0043228 non-membrane-bounded organelle cellular_component
GO:0043232 intracellular non-membrane-bounded organelle 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:0005198 structural molecule activity 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:0003735 structural constituent of ribosome 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
ko05016 Huntington disease
ko03200 Viral proteins

Ensembl:

ensembl_id ENSDART00000194970

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00062032 lncRNA downstream 89261 32516671 ~ 32536749 (-) False XLOC_031193
TCONS_00062033 lncRNA downstream 89278 32535596 ~ 32536732 (-) True XLOC_031193
TCONS_00060570 lncRNA downstream 269008 32342243 ~ 32357002 (-) True XLOC_031187
TCONS_00062031 lncRNA downstream 276298 32342243 ~ 32349712 (-) False XLOC_031187
TCONS_00060555 lncRNA downstream 489651 32135202 ~ 32136359 (-) False XLOC_031179
TCONS_00062038 lncRNA upstream 45576 32782667 ~ 32784800 (-) True XLOC_031195
TCONS_00062039 lncRNA upstream 148088 32885179 ~ 32885874 (-) True XLOC_031198
TCONS_00062040 lncRNA upstream 185565 32922656 ~ 32923569 (-) False XLOC_031200
TCONS_00062041 lncRNA upstream 185565 32922656 ~ 32927919 (-) True XLOC_031200
TCONS_00060599 lncRNA upstream 532345 33269436 ~ 33274415 (-) False XLOC_031207
TCONS_00060578 mRNA downstream 120730 32499070 ~ 32505280 (-) False XLOC_031192
TCONS_00060579 mRNA downstream 120901 32500353 ~ 32505109 (-) True XLOC_031192
TCONS_00060577 mRNA downstream 136214 32460453 ~ 32489796 (-) True XLOC_031191
TCONS_00060575 mRNA downstream 180175 32402026 ~ 32445835 (-) False XLOC_031190
TCONS_00060576 mRNA downstream 201608 32402887 ~ 32424402 (-) True XLOC_031190
TCONS_00060581 mRNA upstream 56795 32793886 ~ 32814417 (-) False XLOC_031196
TCONS_00060582 mRNA upstream 60799 32797890 ~ 32813956 (-) False XLOC_031196
TCONS_00060583 mRNA upstream 61311 32798402 ~ 32813933 (-) True XLOC_031196
TCONS_00060584 mRNA upstream 128273 32865364 ~ 32882162 (-) True XLOC_031197
TCONS_00060585 mRNA upstream 151028 32888119 ~ 32890807 (-) True XLOC_031199
TCONS_00060574 other downstream 229101 32395893 ~ 32396909 (-) True XLOC_031189
TCONS_00060558 other downstream 455724 32170170 ~ 32170286 (-) True XLOC_031181
TCONS_00060554 other downstream 489589 32135202 ~ 32136421 (-) True XLOC_031179
TCONS_00060551 other downstream 494573 32129563 ~ 32131437 (-) True XLOC_031178
TCONS_00060550 other downstream 495494 32129482 ~ 32130516 (-) False XLOC_031178
TCONS_00060593 other upstream 494773 33231864 ~ 33232766 (-) False XLOC_031204
TCONS_00060608 other upstream 547465 33284556 ~ 33284626 (-) False XLOC_031208
TCONS_00060611 other upstream 547817 33284908 ~ 33284983 (-) True XLOC_031208
TCONS_00060612 other upstream 548435 33285526 ~ 33285597 (-) True XLOC_031209
TCONS_00060613 other upstream 549496 33286587 ~ 33286658 (-) True XLOC_031210

Expression Profile

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