RNA id: TCONS_00001171


Basic Information

Item Value
RNA id TCONS_00001171
length 3659
RNA type mRNA
GC content 0.54
exon number 26
gene id XLOC_000700
representative True

Chromosome Information

Item Value
chromosome id NC_007112.7
NCBI id CM002885.2
chromosome length 59578282
location 53919110 ~ 53941906 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCGCATGCGCAGTTCTATTATGACGCGTATTGTGTGCGCGCCTGACTTCAGTGAGCGCGCGGTAAACGGCTTTTCCCGATTTTGTATCGCATTTCGTCGCTTCTGAACGCTTTCTGCTGGTTGTAAACGGACTGTGGACCGGGTATGTTTTCTCCCCGCGGCACACCGGGCTCAGGCCGCAGACAGGCGCCCCGGACCGGCGGACGGAGGAGTGTGAGCGCAGTTCAGCCCGGACTGCTGTTTTCTCCACGCCGCTCCGCTGTGACAGCACgATCTACTCCCACGCGAGTTCAGAGTCATGCTGTCGTCGAATCTTATAATTTTGATGTCCAGACTTTCGGATCATCTCTACCTGTTAAAGTCATGGAGGCGCTGACCATGGCTGATGTGGACGATCAGATCTCAGTGAAGGTGGAGGCATCTGGTTGGGCTTGGATGGTTTGTGGAGAACGGCTGATCGTCTGGAAAGTGTCTCAGACGTCTGTGGCGAAGCTGTCGGTGTGTAAGGACCTGCAGCTGCCGTCCAGTGAGTTTGCATACAGTGCTGATCTGGTCTCCATCAGTTCCTCCGGGCCGCTCGATCTGGCTCCCATTCAGtCCATCAGTGTTTTGGCTGTGTCTCCTGATGGTCTGGTCCGCTTCTGGCCCAGTCTGGCGCATGAGGGCTCTTACACTGAGATCTCTCTGGACCTGAGCGGACACTTGTCCAACTATGTGGCCGCTGTTAAGGGTGGGAGTTTCATCGTGTCCTCGTACCGTGGTCACCTGCTCCGGCTCTCTGCAGATTCCTCTGGGAAACTGCATCACAGGCCTGTCCAGCAGGGTCAGGGGATGCTGTCAGGCATCGGCCGCAGGGTTTCCAGCCTGTTTGGGATCCGTGGCCAACCAGCCGACCTCTCTGTGTTCAGTGTGCTGTGGGTGAAGGCATCCAGCTGTCTCTACTCTCTCAGCTCATGTGGTCTCAGTAAATGGGAGGTGGATGAGAACAGCGAGACGCAGGTTTTGAGCTGGAGCACAAATCAGATCATCACTGACAGCATCACCGACGCCATCTGGGATTCAGAAAGCAATTACTCGGAGATCAAGAAAGGAGTGAACGTCTTGTATCTGGACATGCAGCCCAGCAACGCAGGGCTGGTGGTGCTAGCAGCCGCCTGGTATCCGGGCGATACTCCATGTGTGGCGTATTTCTGTCTGGTCACGCTTGCAGAAAGCATAGTGCCGTCGCCAGACCTGCTCACAGTGGAGGTCACCAAATACAACCCACCATTCCAGAGTGAGGAGGAGCTGTTGAAGACACGTTTGGTGTTGCCGGATCCGTCGAGTCCGGCTGCGTATCTCTATAATGAGGAGCTGGTGTTCGCCTGCAGCACTGGAGCCGGACGAGGAGGACTCGCCGAGGAGAAAATCCTCTTCAGCTCTCCAGgtgacCGTGTGCGTGGCGGTGGGGTCTGCGCTGATCTGCCGGTGTTTTTCTCACAGAACAGTGGACTGGTTGCTGTTTTAGCCAGAGAAACTGCTTCTCTTCTGCCCGAGACCATGGAGGACTCGCTCTGCACTTCAGTTGCTGGACCTGGACCTGAGggcACTCCATTAGAGACGCCACCCAAAATAGACATGGTGGCCCAGGAGGACAAAACCAAACTTCTGAAGCAAGCGTTCCTGCAGTTCTGCCGTCATGATCTGGTCGGAGCTCAGAGTATGGTGGACGAGCTTTTCCCCAGTGATGGAGAAGGATCTGCTGATCTGGATACTGTGGTCACTCAGATTGATCTGGATCTGGTGGATGATTATCCTGCATGTGACCCTCGCTGGGCCGAATCTGTTCCTGACGaggGCGCTGGATTCACACTGACGTCCCTGATCCTGCTCCATCAGTTGGAGGATAAGATGAAGGCTCACCGTTGCCTCATGGACTTCCTGCTTCAGACGGGCCTTCTAGACCGTCTCACCTCCACAAAGGTGCGCTCGTGCCCAATGGCAACACGACTGCTGCTCTGCGAACATGCGGAGAAGCTCTCGGCCGCCATCGTGCTGAAAAACCATCATGCTAAACATCCCGAACTGGTGAACACAGCCATCCAGACGGCATTGAAGAAGAACAGCACAGACACTCCGACCAACCTGACGCCAGCGGATGTGTTCTTCAGAGAGGTGTCTCAGATCTCCTCCATCTTCGAGTGTCTGCTGGATGAGGAGGAGAAAGCTTTGAAAGAGCATCCGGACGCGGCTCGATGGGGCGAGGTGGTGCTCAGCGTTAATGACATCATCAAGGATATGCTTCAAGCAGCAGCGCAATACCGAGAGACCAAAGCATCTCTGTACAGAGCGCCAGAAAACTGCAGCCCCGAGCCCGAGTACATCCCCTGGACAGCCTCTGGAGGAGTGGGTGGAGTTCGAAGCGTCATCTCTCGGCAGCACGAGCTAATCCTGCGGGCGGCGTATCCTCACGCAGACGCGGAGCTGCGCAGTGTCCTCTGTGAGCAGCTGGTGGCGCTGTTGGACTCACTGCTGAGCGGTTACGTGGCTCAGCTGACGTCTCTGAGGCGCGGCGGACAGCAGGAGCGATACGACACACTGGAGAATGAGTACACGCAGAAACGTTCAGAGCTACTTAAGCCACTCTTGGAGTTGGGTCAGCATCAGTGGGTTGCAGCGCTGGCAGAAAAATACTGTGATTTTGACATACTGGTGCAGTTGTGTGAACGGACGGATAATCAGAGTCGACTGCAGCAGTACATGGTCAAATTCGCTGATCAGAACTTTGCTGACTTCCTGTTCCGCTGGTACATGGAGAAAGGCAAGAGAGGGAAGCTGCTCTCTCAGCCAATGGCGACGCACCAACAGCTGGCCAGCTTCCTGCAGGCCCACGATCACCTCAGCTGGCTGCATGACATACATGTGCAGGATTACCAGAGAGCTCATCGTACTCTATATAATCAGGCCAACATGGAGACCAGATACTTCAGCAAGAAGAAGACCCTGCTGGCCCTCAGCAAACTCACAGCTCTGGCGTCAGACATGCCTGAACCCGTACACCGCAGACAGCTCAATGACATAGTGGAGCAGGAGAGGTTTCTCCTTCATCAGGAGACGCTTCCTAAACAGCTACTGGAGGAGAAGCAGCTGAACCCAGACAGCATGCCCTTACTGAGCCCTCAAAACCTCATTAGTCTGTACATCTGCGACGAGAACCGTGGAGCCAACGAGTACGACTTCAAGAAAGCTCTCGATCTGCTGGAGTACTTTGAGGAGGAGAACGGCATTGATGTTGATGCTTTAAAGCGAGAGATCTTCAGTAAAGCCTTGAAGAAAGATTGGAAGGAGAGcTGGTCCTCTtctgatgataatgatgatcCACTAGAAGCGGCCAGAGACAGCACTTTCGTCAAGATCCTACAGAAACTCATACAAGAACGTGTTTCTCTGCAGACATACCTGCCGGACATAAAGGATCTTCTGCAGGAAGACGAGCTGGAGAGTCTCAAATCAAAGCCATACTTCGAGTTCCTCCTGCGAGCCAATTACGAGCACTACCTGAAAGTGCAGATATGATGCGTGTTTCCTTGTTAATATTCCaactttttgtaaacattttttgtttcataattaaaacaattacatGATCCAACACTTTCTGAATAAACTGTATTTCTGTA

Function

GO:

id name namespace
GO:0006606 protein import into nucleus biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006405 RNA export from nucleus biological_process
GO:0000972 transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery biological_process
GO:0015031 protein transport biological_process
GO:0051028 mRNA transport biological_process
GO:0000775 chromosome, centromeric region cellular_component
GO:0000776 kinetochore cellular_component
GO:0000777 condensed chromosome kinetochore cellular_component
GO:0031080 nuclear pore outer ring cellular_component
GO:0005634 nucleus cellular_component
GO:0005643 nuclear pore cellular_component
GO:0005694 chromosome cellular_component
GO:0017056 structural constituent of nuclear pore molecular_function

KEGG:

id description
ko03013 Nucleocytoplasmic transport
ko05014 Amyotrophic lateral sclerosis
ko03019 Messenger RNA biogenesis
ko03036 Chromosome and associated proteins

ZFIN:

id description
ZDB-GENE-040426-2941 Predicted to be a structural constituent of nuclear pore. Predicted to be involved in poly(A)+ mRNA export from nucleus; protein import into nucleus; and transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery. Predicted to act upstream of or within mRNA transport and protein transport. Predicted to be located in kinetochore and nucleus. Predicted to be part of nuclear pore outer ring. Is expressed in several structures, including heart; integument; liver; nervous system; and pleuroperitoneal region. Used to study Galloway-Mowat syndrome 1. Human ortholog(s) of this gene implicated in Galloway-Mowat syndrome and nephrotic syndrome type 18. Orthologous to human NUP133 (nucleoporin 133).

Ensembl:

ensembl_id ENSDART00000020680

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00003175 lncRNA upstream 53273 53864528 ~ 53865837 (+) True XLOC_000699
TCONS_00002880 lncRNA upstream 148371 53760797 ~ 53770739 (+) False XLOC_000697
TCONS_00002881 lncRNA upstream 148371 53765375 ~ 53770739 (+) True XLOC_000697
TCONS_00003174 lncRNA upstream 149363 53760848 ~ 53769747 (+) False XLOC_000697
TCONS_00003173 lncRNA upstream 151526 53760848 ~ 53767584 (+) False XLOC_000697
TCONS_00001173 lncRNA downstream 4094 53946000 ~ 53948508 (+) True XLOC_000701
TCONS_00003176 lncRNA downstream 40708 53982614 ~ 53988776 (+) True XLOC_000703
TCONS_00003177 lncRNA downstream 335337 54277243 ~ 54469289 (+) True XLOC_000712
TCONS_00003178 lncRNA downstream 460027 54401933 ~ 54404147 (+) True XLOC_000713
TCONS_00003179 lncRNA downstream 669932 54611838 ~ 54613479 (+) True XLOC_000715
TCONS_00001170 mRNA upstream 55802 53842344 ~ 53863308 (+) True XLOC_000698
TCONS_00001168 mRNA upstream 188574 53714734 ~ 53730536 (+) False XLOC_000696
TCONS_00001167 mRNA upstream 383545 53515089 ~ 53535565 (+) True XLOC_000693
TCONS_00001161 mRNA upstream 530196 53374454 ~ 53388914 (+) False XLOC_000690
TCONS_00001163 mRNA upstream 531671 53377432 ~ 53387439 (+) False XLOC_000690
TCONS_00001172 mRNA downstream 4028 53945934 ~ 53953532 (+) False XLOC_000701
TCONS_00001174 mRNA downstream 12324 53954230 ~ 53963933 (+) False XLOC_000702
TCONS_00001175 mRNA downstream 12329 53954235 ~ 53962640 (+) True XLOC_000702
TCONS_00001176 mRNA downstream 71551 54013457 ~ 54026180 (+) False XLOC_000704
TCONS_00001177 mRNA downstream 71559 54013465 ~ 54026352 (+) True XLOC_000704
TCONS_00001166 other upstream 531229 53387765 ~ 53387881 (+) True XLOC_000690
TCONS_00001160 other upstream 551076 53364510 ~ 53368034 (+) True XLOC_000689
TCONS_00001154 other upstream 857913 52999832 ~ 53061197 (+) False XLOC_000682
TCONS_00001126 other upstream 1783608 52130164 ~ 52135502 (+) False XLOC_000662
TCONS_00001119 other upstream 2235492 51683519 ~ 51683618 (+) True XLOC_000655
TCONS_00001180 other downstream 111198 54053104 ~ 54061210 (+) True XLOC_000705
TCONS_00001186 other downstream 244133 54186039 ~ 54186156 (+) True XLOC_000710
TCONS_00001221 other downstream 1186559 55128465 ~ 55128579 (+) True XLOC_000733
TCONS_00001233 other downstream 1351719 55293625 ~ 55297251 (+) False XLOC_000739
TCONS_00001304 other downstream 3405992 57347898 ~ 57355033 (+) False XLOC_000813

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000302_01051027_01061550.mRNA True 3498 mRNA 0.54 26 CI01000302 1051027 ~ 1061623 (+)
bowfin (Amia calva) AMCG00001518 True 4920 mRNA 0.53 26 CM030143.1 6753731 ~ 6770900 (+)