RNA id: TCONS_00004172


Basic Information

Item Value
RNA id TCONS_00004172
length 759
lncRNA type retained_intron
GC content 0.39
exon number 2
gene id XLOC_002163
representative True

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 26515946 ~ 26569350 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GAGCATTCCAACGCTGTGAAAATGTTGAACTTTGACTATCATCAGATGGTTAAAGGAGGGAAGACTGAGAAGCTTCAGACTGTGCTGAAACCTCAGATCAGCAAGTTTGTGGAGGATTGTGATTTCTTCTACTACTCAGGGGAAACCGGCATTCAGAGATGTCGTTATATATGAATATGTACAATgtattaaaacgtttaaaattcGTAGCAAATGCGTTTTTCACTTCACTGTTTCAGGTAAAGTTTCTTTGGTTTCTGTGTTTGTGGTCACGGTTTATGGGATCAGTCTGCTGTAGTGGACTGATTTCAACATGTGGATATGGATTTGAATGAGTTTCCTAATGCTAGCGTGCTAATCTGCGGCTCCCGGCTGCTTTGGGTGTGAGATTAGCTCTGAACCAGAGGGCTAATGCTGTTATCTGTCTAACGGCTAACTgttaacctctctctctctctctccctttcttttCTCTTCAATGCTTGCAACGTTAGTCTCTGAGCCAATTTTACAGTCAGGTATAGTATACACAAACCGACCATAAATCCATAACTGTTTATGGTTCCCTGTTTCATAAAATCAGTGTTTATTTTGGCGCTGCTGACTCTGTGCTGTGTGTTTGTACTTCGTGTAGCCTTTTACTATGGTGTGTTGtcttgttttttatatttctatccaacttttaaggacaaaattctGTCTTTTTGTTGTCTCTCATAGTGGTTTGATTAATGTCATCAAGATCTAATATGTTCTAGA

Function

GO:

id name namespace
GO:0048488 synaptic vesicle endocytosis biological_process
GO:0046549 retinal cone cell development biological_process
GO:0046855 inositol phosphate dephosphorylation biological_process
GO:0046856 phosphatidylinositol dephosphorylation biological_process
GO:0009584 detection of visible light biological_process
GO:0007268 chemical synaptic transmission biological_process
GO:0099518 vesicle cytoskeletal trafficking biological_process
GO:0050808 synapse organization biological_process
GO:0060041 retina development in camera-type eye biological_process
GO:0016787 hydrolase activity molecular_function
GO:0003676 nucleic acid binding molecular_function
GO:0017124 SH3 domain binding molecular_function
GO:0003723 RNA binding molecular_function
GO:0042578 phosphoric ester hydrolase activity molecular_function
GO:0034595 phosphatidylinositol phosphate 5-phosphatase activity molecular_function
GO:0034596 phosphatidylinositol phosphate 4-phosphatase activity molecular_function
GO:0004439 phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-9180 Enables phosphatidylinositol phosphate 4-phosphatase activity and phosphatidylinositol phosphate 5-phosphatase activity. Acts upstream of or within several processes, including detection of visible light; retinal cone cell development; and vesicle cytoskeletal trafficking. Is expressed in brain; hair cell; inner ear; and retina. Human ortholog(s) of this gene implicated in Parkinson's disease; Parkinson's disease 20; and developmental and epileptic encephalopathy 53. Orthologous to human SYNJ1 (synaptojanin 1).

Ensembl:

ensembl_id ENSDART00000139056

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00005901 lncRNA upstream 258729 26269060 ~ 26273148 (+) True XLOC_002161
TCONS_00005900 lncRNA upstream 766306 25762203 ~ 25765571 (+) True XLOC_002156
TCONS_00005899 lncRNA upstream 829470 25687634 ~ 25702407 (+) True XLOC_002154
TCONS_00005898 lncRNA upstream 1696432 24834759 ~ 24835445 (+) True XLOC_002148
TCONS_00005713 lncRNA upstream 1712718 24815304 ~ 24819159 (+) True XLOC_002147
TCONS_00005714 lncRNA downstream 25584 26564221 ~ 26564521 (+) True XLOC_002164
TCONS_00004176 lncRNA downstream 73684 26612321 ~ 26617605 (+) False XLOC_002166
TCONS_00005715 lncRNA downstream 90156 26628793 ~ 26629282 (+) True XLOC_002167
TCONS_00004188 lncRNA downstream 227748 26766385 ~ 26771677 (+) True XLOC_002174
TCONS_00005716 lncRNA downstream 247732 26786369 ~ 26786785 (+) True XLOC_002175
TCONS_00004169 mRNA upstream 403698 26118122 ~ 26128179 (+) True XLOC_002160
TCONS_00004167 mRNA upstream 415241 25982212 ~ 26116636 (+) False XLOC_002159
TCONS_00004168 mRNA upstream 419748 25982330 ~ 26112129 (+) True XLOC_002159
TCONS_00004164 mRNA upstream 569819 25947946 ~ 25962058 (+) False XLOC_002157
TCONS_00004163 mRNA upstream 803133 25726694 ~ 25728744 (+) True XLOC_002155
TCONS_00004173 mRNA downstream 32537 26571174 ~ 26589086 (+) False XLOC_002165
TCONS_00004174 mRNA downstream 32556 26571193 ~ 26597800 (+) True XLOC_002165
TCONS_00004175 mRNA downstream 59353 26597990 ~ 26621189 (+) False XLOC_002166
TCONS_00004177 mRNA downstream 73684 26612321 ~ 26620946 (+) True XLOC_002166
TCONS_00004178 mRNA downstream 95835 26634472 ~ 26637493 (+) True XLOC_002168
TCONS_00004170 other upstream 225534 26306229 ~ 26306343 (+) True XLOC_002162
TCONS_00004166 other upstream 567478 25964284 ~ 25964399 (+) True XLOC_002158
TCONS_00004165 other upstream 571129 25948242 ~ 25960748 (+) True XLOC_002157
TCONS_00004149 other upstream 1858948 24668774 ~ 24672929 (+) False XLOC_002143
TCONS_00004147 other upstream 1867428 24660142 ~ 24664449 (+) False XLOC_002143
TCONS_00004210 other downstream 524537 27063174 ~ 27063257 (+) False XLOC_002190
TCONS_00004211 other downstream 524717 27063354 ~ 27063438 (+) True XLOC_002190
TCONS_00004216 other downstream 1621660 28160297 ~ 28162247 (+) True XLOC_002194
TCONS_00004217 other downstream 1714041 28252678 ~ 28252795 (+) True XLOC_002196
TCONS_00004234 other downstream 2728154 29266791 ~ 29268413 (+) True XLOC_002204

Expression Profile

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