RNA id: TCONS_00006898


Basic Information

Item Value
RNA id TCONS_00006898
length 2628
RNA type mRNA
GC content 0.44
exon number 17
gene id XLOC_003527
representative True

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 29770966 ~ 29790222 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GTCTGCAGAGATGGCTGGAGAAACAGAAGATGAAATCCCCGagtCCGGAGCTGTCTTCACTTTTGGAAAGAGTAAATTTGCAGACAACGCCCCTAGTAAATTCTGGTTAAAAAATGATGTACCTTTGCGAATTTCCTGTGGAGATGAGCACACAGCACTAGTCACAGagaaTGGGAAGCTGTTTATGTTTGGCAGCAATAACTGGGGACAGCTGGGCCTCGGAACAAAGACCACTGTGAATAAACCCACTTGTGTAAAAGCTCTGAAGTCAGAGAGGGTGAAGCTCACAGCCTGTGGAAGAACTCACACACTTGTTTTTACATCTCGTGGTAACCTGTATGCCTGTGGAGGGAATAATGAAGGACAGCTCGGCCTTGGCGACTGTAATGACAGAACATCCTTTCACCTGGTCGAATTCTTCAACAAACAAGGACCAATCAAAATGCTCGCTGCTGGTTCCAATACATCTGCTGCCTTGACACAGGACGGTAGGCTCTACATGTGGGGTGATAACTCTGAGGGCCAGATTGGATTGGGAAAAGAAAGTAATGCACTGACTCCTCAGGAGGTTTCTGTGGGGAAACGAGTCTTCTGGGTGTCCTGTGGATATTATCATTCTGCCTTTGTTACCGTGGACGGGGCCTTGTACACTTTTGGTGAAAAAGACAGTGGGAAGCTGGGCTTATCGACAGAGAAGCTGGCCAATCATAAAGTGCCTCAACAGGTGACTGACATCCCTGATAGGGTGGTCCAGGTGGCCTGTGGAGGAGGGCACACGGTGGCGCTTACAGAGAATGAGGTGTATTCTTTTGGCCTGGGTCAGTTTGGACAACTCGGTCACGGCACCTTCATATTCGAGTCTCGCTTGCCCAGAGTGGTTGAGCATTTCAGGAAGGGCAGAGTTAAACATGCGGCATGTGGAGAGAACCATACTGCGCTGATTACAGACAATGGCCTTTTGTACACTTTTGGTGATGGTCGGCATGGAAAACTGGGGCTTGGAGAGGAAAACTTCACCAACCAGTTCAAACCAACGTTGTGTCCGAGATTTCTTGACTACCACGTACATTCTGTTACTTGTGGTGGGTGTCACATGCTTGTTTTGGCAAAGCCCAGAACTGAAAGACCAGATGACTTAATCTTAGAGGAGGATGACGTCACTGAAGACTACCTTGAGAAGTCTTATACTGAATTACTGGGGGACACACACAGTCAGACCACCCTAAACAGGAGTCTCTCAGCTCGGGTCAGACGCAGAGAAAGGGAACGTTCACCAGATCAGTTTGGACAGATGTTTCGAACACTTCCAGCACTGAGTGGGAATCAGAGTGCATCTCTATCTGTTCCCAGCCAGATACGTCCCTCCAGCAAGCAACTTGGAAAGATTCCTCACAATAGCCTTAAAACTCCTGGAATTAGAGCGAAGTCTTTTGATGACAGAAGCAGTGTGGAGGATAGCGAGAGTGTAAAAGACCTTGGAGAAACCACTGACTTATTAAACCTGACTCACATAATGAAGATGGACCCTAGCGATAATACACTTACATTGTCTCCCATGGAGAAGTCTCTACAGTTCCAGACAGATGAGATGAGGAATGGAGAAGCAGAAGAACATGAAGAATATTtagatgatgaggaggaggaagaagatgaagaggaggaagaagaagaggaagagcacCCAAGGGGAAAAGAGGAGGAAAAGTGTGAAGAGAGGGAAGATATTGCAGACAAGATGAGAAAAGAGACTGAAGAGCAGGAGCAAAACACTACAGATCCAGATGTACAGAAAAAGCAGATTATAGAAGAAGAATCTGTCCCTGATGGACCAATGAAAGTGAATTCTGTAGATTCTGACCCTGCTGCCCTTAAGAAGGAGGAGACGTGGTCTGAGAGAAATGAAGTTACGGACGACAAACTAAAAACCATTTTTGGCTCTAAAAACAGGCTTTCTCTTTTCAAAAGGTCTTCCACCAAAGGCAGTCAGCCAGAGAGCGGCACATCAGGCAAACCAGCATCTGGTGCTCCTCAAATCTCAGAGACTCGAGATCCAGAGAGTTCTAGCAGTGAAACACAGACAGCAGGCCAAACAAAAACATCCAGTCGATCACGCTCAGCCACTTGCAGTCTGCTTTGACACCTCTCAGCTGCGAGGAAACTGTCTTAATTGGAAACCTGGAATTAATGAAGCAACATTACGTTAGTGTTACCAGTACTGTGCCTTTGTGCTGCAATGCAGACGACAGAAAGCAACTAGCTTTAACAGTAAACAACTTTAATTGGCATTTAAGTGTGTTTTTGTTTCGGCACTACATCGTATAATGTTATGTCCAATGTATATTTGCAGTGTCTGAATTTTGCAAATGTTTATCAAATGCATTCACATAAAAAAGTCATTACGTGGGAGTGAATTTACTAATGTGCCGTATGTCtagaaatataattatatatgtatgtgtgtgtgctttttatacctatttatttatatttgactaAAGACTTTTGATGAAGCACCTGTgcactttatatatttaaaatcttgTATTATTTCAgggtaattttttttcaattacatttttgtaaacatcTCAAAATCTTTGTATTTGATGTGAAGTAAATATTAACTCC

Function

GO:

id name namespace
GO:0046548 retinal rod cell development biological_process
GO:0007018 microtubule-based movement biological_process
GO:0060271 cilium assembly biological_process
GO:0060287 epithelial cilium movement involved in determination of left/right asymmetry biological_process
GO:0060041 retina development in camera-type eye biological_process
GO:0010842 retina layer formation biological_process

KEGG: NA

ZFIN:

id description
ZDB-GENE-081015-2 Acts upstream of or within cilium assembly; epithelial cilium movement involved in determination of left/right asymmetry; and retina morphogenesis in camera-type eye. Is expressed in several structures, including heart; liver; neural tube; optic cup; and pleuroperitoneal region. Human ortholog(s) of this gene implicated in X-linked atrophic macular degeneration; X-linked cone-rod dystrophy 1; X-linked retinitis pigmentosa and sinorespiratory infections; retinitis pigmentosa; and retinitis pigmentosa 3. Orthologous to human RPGR (retinitis pigmentosa GTPase regulator).

Ensembl:

ensembl_id ENSDART00000124471

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00008407 lncRNA upstream 179770 29590873 ~ 29591196 (+) True XLOC_003524
TCONS_00006892 lncRNA upstream 203332 29566746 ~ 29567634 (+) False XLOC_003523
TCONS_00008406 lncRNA upstream 562773 29207886 ~ 29208193 (+) True XLOC_003520
TCONS_00008631 lncRNA upstream 934267 28797267 ~ 28836699 (+) True XLOC_003519
TCONS_00008405 lncRNA upstream 1107570 28662904 ~ 28663396 (+) True XLOC_003518
TCONS_00008632 lncRNA downstream 115026 29905248 ~ 29906829 (+) True XLOC_003530
TCONS_00006903 lncRNA downstream 189035 29979257 ~ 29981972 (+) True XLOC_003532
TCONS_00006909 lncRNA downstream 284990 30075212 ~ 30078971 (+) True XLOC_003533
TCONS_00008633 lncRNA downstream 300933 30091155 ~ 30103837 (+) False XLOC_003534
TCONS_00006917 lncRNA downstream 459829 30250051 ~ 30251936 (+) True XLOC_003536
TCONS_00006896 mRNA upstream 15824 29739348 ~ 29755142 (+) True XLOC_003526
TCONS_00006894 mRNA upstream 93252 29671661 ~ 29677714 (+) False XLOC_003525
TCONS_00006895 mRNA upstream 93273 29671669 ~ 29677693 (+) True XLOC_003525
TCONS_00006891 mRNA upstream 230933 29537756 ~ 29540033 (+) True XLOC_003522
TCONS_00006889 mRNA upstream 1139624 28620683 ~ 28631342 (+) True XLOC_003516
TCONS_00006899 mRNA downstream 404 29790626 ~ 29794308 (+) True XLOC_003528
TCONS_00006900 mRNA downstream 65810 29856032 ~ 29877090 (+) True XLOC_003529
TCONS_00006901 mRNA downstream 175600 29965822 ~ 29972154 (+) True XLOC_003531
TCONS_00006902 mRNA downstream 185608 29975830 ~ 29981758 (+) False XLOC_003532
TCONS_00006904 mRNA downstream 209192 29999414 ~ 30077305 (+) False XLOC_003533
TCONS_00006893 other upstream 199438 29566747 ~ 29571528 (+) True XLOC_003523
TCONS_00006890 other upstream 418745 29352101 ~ 29352221 (+) True XLOC_003521
TCONS_00006865 other upstream 2250393 27520456 ~ 27520573 (+) True XLOC_003503
TCONS_00006853 other upstream 3156379 26604611 ~ 26614587 (+) False XLOC_003495
TCONS_00006838 other upstream 3692905 26077947 ~ 26078061 (+) True XLOC_003488
TCONS_00006949 other downstream 1181812 30972034 ~ 30997832 (+) False XLOC_003549
TCONS_00006950 other downstream 1184549 30974771 ~ 30974892 (+) True XLOC_003550
TCONS_00006952 other downstream 1225297 31015519 ~ 31024572 (+) True XLOC_003549
TCONS_00006967 other downstream 1834949 31625171 ~ 31671413 (+) False XLOC_003561
TCONS_00006968 other downstream 1856722 31646944 ~ 31668072 (+) True XLOC_003561

Expression Profile

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