RNA id: TCONS_00000568


Basic Information

Item Value
RNA id TCONS_00000568
length 789
lncRNA type retained_intron
GC content 0.39
exon number 3
gene id XLOC_000333
representative False

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 28031697 ~ 28047242 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AAAAAGAAGAACAGCAGCGCAGTTATGTGTATCGATTCTGTACGTATCACAGAGAAAGGTACTAAGAACTGATTACGGATGCAACTAACATTAACGTTGAGCGGATTACAGATCCCGAAGTTACTTTGGGAGCTCCGACAAGAGAAGATTATAgaatattttcaatgaaaaggttTGGACTGGACTGTTTGCAATATGTAAGTTACAGGCGAGCAGTGAAAGgatttgtcAGCCAGTTTGTTTGCCAACGATGCGCCGTCATTGGTTGCTGGTTGGTGCTTGTGGCTGGGTGCTACTTATTCTTATGTTTGTCAGCAAGTTCATCAACTTCAGCTTCAGAATACCAGGTGGTATGTTTAACTATCCTGAGCAAAAAATTTAAAGATATACgcaattaaatgtgttttatggtTATTCTACTATTCTAATTTGTAACTtcattacaaattacaaattacaacTTCAACATTGACAATTTTGACATATAAATGGCATTAAGGCACTCCCAATGTTTCCCTTTGATTCATTTTTAGACTACGCAGGGAGGTCAGAGATATTTGTTTGGACTTTGTCATCTGTTACTACAAAACTTCCTTCAGTTGTGTGGCCGGAAAAGGGAGCATCACAGCCATATATATTGTCTTCAGTTAGTCCCTCTGTGGTGGAACCCATAGACTGGCACTTAGTGAACGAGAAGCGTTTGGAGCAGTTGTCAACAGTTTGCAGCAATTCATCTATTTGGAACCTTACTCACACAACTGTGCGCAAGTTTGTCTTGGACCGCATTTT

Function

GO:

id name namespace
GO:0006351 transcription, DNA-templated biological_process
GO:0008152 metabolic process biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0043009 chordate embryonic development biological_process
GO:0021575 hindbrain morphogenesis 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:0030166 proteoglycan biosynthetic process biological_process
GO:0009058 biosynthetic process biological_process
GO:0009059 macromolecule biosynthetic process biological_process
GO:0043043 peptide biosynthetic process biological_process
GO:1901576 organic substance biosynthetic process biological_process
GO:0009887 animal organ morphogenesis biological_process
GO:0007275 multicellular organism development biological_process
GO:0009889 regulation of biosynthetic process biological_process
GO:0006412 translation biological_process
GO:0097659 nucleic acid-templated transcription biological_process
GO:0031326 regulation of cellular biosynthetic 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:1903506 regulation of nucleic acid-templated transcription biological_process
GO:0048598 embryonic morphogenesis 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:0044249 cellular biosynthetic process biological_process
GO:0044260 cellular macromolecule metabolic process biological_process
GO:0044271 cellular nitrogen compound biosynthetic process biological_process
GO:0010499 proteasomal ubiquitin-independent protein catabolic process biological_process
GO:0071704 organic substance metabolic process biological_process
GO:0006518 peptide metabolic process biological_process
GO:0043170 macromolecule metabolic process biological_process
GO:0009987 cellular process biological_process
GO:0048663 neuron fate commitment biological_process
GO:0048665 neuron fate specification biological_process
GO:0006807 nitrogen compound metabolic process biological_process
GO:0007399 nervous system development biological_process
GO:2001141 regulation of RNA biosynthetic process biological_process
GO:0032502 developmental process biological_process
GO:0005975 carbohydrate metabolic 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:0030902 hindbrain development biological_process
GO:2000112 regulation of cellular macromolecule biosynthetic process biological_process
GO:0048699 generation of neurons biological_process
GO:0048704 embryonic skeletal system morphogenesis biological_process
GO:0048705 skeletal system morphogenesis biological_process
GO:0048706 embryonic skeletal system development biological_process
GO:0060322 head development biological_process
GO:0016051 carbohydrate biosynthetic process 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:0019773 proteasome core complex, alpha-subunit complex cellular_component
GO:1990904 ribonucleoprotein complex cellular_component
GO:0022625 cytosolic large ribosomal subunit cellular_component
GO:0022626 cytosolic ribosome cellular_component
GO:0022627 cytosolic small ribosomal subunit cellular_component
GO:0005794 Golgi apparatus cellular_component
GO:0044445 obsolete cytosolic part cellular_component
GO:0005829 cytosol cellular_component
GO:0005832 chaperonin-containing T-complex cellular_component
GO:0005839 proteasome core complex cellular_component
GO:0005840 ribosome cellular_component
GO:0101031 chaperone complex cellular_component
GO:0000139 Golgi membrane cellular_component
GO:1905368 peptidase complex cellular_component
GO:1905369 endopeptidase complex cellular_component
GO:0015934 large ribosomal subunit cellular_component
GO:0015935 small ribosomal subunit cellular_component
GO:0005634 nucleus cellular_component
GO:0000502 proteasome complex cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0008146 sulfotransferase activity molecular_function
GO:0070003 threonine-type peptidase activity molecular_function
GO:0016740 transferase activity molecular_function
GO:0019843 rRNA 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:0005198 structural molecule activity 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:0000987 cis-regulatory region sequence-specific DNA binding molecular_function
GO:0003735 structural constituent of ribosome molecular_function

KEGG:

id description
ko00230 Purine metabolism
ko00240 Pyrimidine metabolism
ko00515 Mannose type O-glycan biosynthesis
ko03020 RNA polymerase
ko05169 Epstein-Barr virus infection
ko05016 Huntington disease
ko01003 Glycosyltransferases

ZFIN:

id description
ZDB-GENE-040808-40 Predicted to enable sulfotransferase activity. Predicted to be involved in proteoglycan biosynthetic process. Predicted to act upstream of or within carbohydrate biosynthetic process. Predicted to be located in Golgi membrane. Predicted to be integral component of membrane. Is expressed in intermediate reticular formation; region of the nucleus of the medial longitudinal fascicle; and spinal cord. Orthologous to human CHST10 (carbohydrate sulfotransferase 10).

Ensembl:

ensembl_id ENSDART00000133844

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00000566 lncRNA upstream 36644 27977389 ~ 27995053 (+) False XLOC_000332
TCONS_00003079 lncRNA upstream 315446 27713379 ~ 27716251 (+) False XLOC_000329
TCONS_00003078 lncRNA upstream 1290548 26740115 ~ 26741149 (+) True XLOC_000327
TCONS_00003077 lncRNA upstream 1361594 26664689 ~ 26670103 (+) False XLOC_000325
TCONS_00000545 lncRNA upstream 1361812 26668026 ~ 26669885 (+) True XLOC_000325
TCONS_00003080 lncRNA downstream 436051 28472199 ~ 28473413 (+) True XLOC_000335
TCONS_00000576 lncRNA downstream 867622 28903770 ~ 28904635 (+) True XLOC_000336
TCONS_00000577 lncRNA downstream 1032501 29068649 ~ 29071356 (+) False XLOC_000337
TCONS_00000585 lncRNA downstream 1138047 29174195 ~ 29180648 (+) True XLOC_000340
TCONS_00000588 lncRNA downstream 1141997 29178145 ~ 29179934 (+) False XLOC_000341
TCONS_00000563 mRNA upstream 11655 27977297 ~ 28020042 (+) False XLOC_000332
TCONS_00000564 mRNA upstream 12472 27977331 ~ 28019225 (+) False XLOC_000332
TCONS_00000561 mRNA upstream 136880 27867706 ~ 27894817 (+) False XLOC_000331
TCONS_00000562 mRNA upstream 137676 27868294 ~ 27894021 (+) True XLOC_000331
TCONS_00000560 mRNA upstream 170549 27825980 ~ 27861148 (+) True XLOC_000330
TCONS_00000575 mRNA downstream 53555 28089703 ~ 28195267 (+) True XLOC_000334
TCONS_00000578 mRNA downstream 1032506 29068654 ~ 29093562 (+) False XLOC_000337
TCONS_00000580 mRNA downstream 1034513 29070661 ~ 29092999 (+) True XLOC_000337
TCONS_00000581 mRNA downstream 1060733 29096881 ~ 29100923 (+) True XLOC_000338
TCONS_00000582 mRNA downstream 1104736 29140884 ~ 29164911 (+) False XLOC_000339
TCONS_00000565 other upstream 29760 27977370 ~ 28001937 (+) False XLOC_000332
TCONS_00000567 other upstream 36086 27984393 ~ 27995611 (+) True XLOC_000332
TCONS_00000557 other upstream 300717 27713349 ~ 27730980 (+) False XLOC_000329
TCONS_00000518 other upstream 1912073 26111385 ~ 26119624 (+) True XLOC_000317
TCONS_00000495 other upstream 2911492 25120089 ~ 25120205 (+) True XLOC_000301
TCONS_00000579 other downstream 1032514 29068662 ~ 29080336 (+) False XLOC_000337
TCONS_00000608 other downstream 1795611 29831759 ~ 29860373 (+) False XLOC_000356
TCONS_00000617 other downstream 2129805 30165953 ~ 30166065 (+) True XLOC_000360
TCONS_00000618 other downstream 2191243 30227391 ~ 30227505 (+) True XLOC_000361
TCONS_00000628 other downstream 2919777 30955925 ~ 30965004 (+) True XLOC_000366

Expression Profile

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