RNA id: TCONS_00005165


Basic Information

Item Value
RNA id TCONS_00005165
length 600
lncRNA type retained_intron
GC content 0.46
exon number 3
gene id XLOC_002789
representative True

Chromosome Information

Item Value
chromosome id NC_007121.7
NCBI id CM002894.2
chromosome length 45420867
location 25402463 ~ 25570647 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CTACTGAACTTGCGACAACCACGTAATCTTTTCACAACTTAGGTTCCTGCTGGAAAGACTTTCAAAAAAGAGGCATCTTTGAGACACGGGAAAATGAACCTGTCAGTATGGATGAACTCGCCTTTAAATTTGCTGTTACAAGTATCAATCGAAACAGAACTTTGATGCCAAACACCACGTTGACCTACGACATCCAGAGAGTAAACCTCTTTGACAGCTTTGAAGCCTCCAGAAGGGTGTGTGACCAGTTGGCCCTGGGGGTTGCGGCAGTCTTCGGCCCTTCTCACAGCTCCTCGGTCAGTGCCGTTCAATCCATTTGCAATGCCCTAGAGGTGCCGCACATCCAGACACGCTGGAAACACCCGTCTGTGGACAATAAAGACAATTTTTACATTAACCTCTACCCCGAGTACACCTCCATAAGCAGGGCTATCCTGGACATTGTCATTTTCTACAAATGGAAGTGCGTTactgtggtttatgaggacagcACAGGTAAGTGACTGCTGTAGTTTTAGAAATGTGTGAGTTTTAGAAAAAGGTTATCTGAAGGGCGGCTCAATGAGCTTTTTTGAGGTTTTGTTGAGAGCCGTTTTGAAG

Function

GO:

id name namespace
GO:0035249 synaptic transmission, glutamatergic biological_process
GO:0006811 ion transport biological_process
GO:0050804 modulation of chemical synaptic transmission biological_process
GO:0045202 synapse cellular_component
GO:0005886 plasma membrane cellular_component
GO:0045211 postsynaptic membrane cellular_component
GO:0030054 cell junction cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0038023 signaling receptor activity molecular_function
GO:0015276 ligand-gated ion channel activity molecular_function
GO:1904315 transmitter-gated ion channel activity involved in regulation of postsynaptic membrane potential molecular_function
GO:0005216 ion channel activity molecular_function
GO:0004970 ionotropic glutamate receptor activity molecular_function
GO:0008066 glutamate receptor activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-030131-6502 Predicted to enable glutamate receptor activity and transmitter-gated ion channel activity involved in regulation of postsynaptic membrane potential. Predicted to be involved in glutamatergic synaptic transmission and modulation of chemical synaptic transmission. Predicted to act upstream of or within ion transport. Predicted to be located in membrane and synapse. Predicted to be integral component of membrane. Predicted to be active in postsynaptic membrane. Human ortholog(s) of this gene implicated in childhood absence epilepsy. Orthologous to human GRIK1 (glutamate ionotropic receptor kainate type subunit 1).

Ensembl:

ensembl_id ENSDART00000147876

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00006053 lncRNA downstream 27432 25494173 ~ 25496256 (-) False XLOC_002790
TCONS_00006052 lncRNA downstream 28404 25494173 ~ 25495284 (-) False XLOC_002790
TCONS_00005162 lncRNA downstream 113158 25402892 ~ 25410530 (-) False XLOC_002789
TCONS_00005161 lncRNA downstream 113176 25402892 ~ 25410512 (-) False XLOC_002789
TCONS_00006051 lncRNA downstream 117875 25402892 ~ 25405813 (-) False XLOC_002789
TCONS_00005168 lncRNA upstream 3928 25574557 ~ 25575573 (-) False XLOC_002791
TCONS_00005763 lncRNA upstream 116272 25686901 ~ 25687218 (-) True XLOC_002792
TCONS_00005764 lncRNA upstream 120243 25690872 ~ 25691670 (-) True XLOC_002793
TCONS_00005171 lncRNA upstream 126530 25697159 ~ 25699359 (-) False XLOC_002794
TCONS_00006054 lncRNA upstream 561840 26132469 ~ 26142597 (-) False XLOC_002799
TCONS_00005157 mRNA downstream 180167 25325808 ~ 25343521 (-) False XLOC_002787
TCONS_00005158 mRNA downstream 180167 25328662 ~ 25343521 (-) False XLOC_002787
TCONS_00005156 mRNA downstream 194874 25312337 ~ 25328814 (-) False XLOC_002787
TCONS_00005155 mRNA downstream 306341 25214270 ~ 25217347 (-) True XLOC_002786
TCONS_00005154 mRNA downstream 319654 25108853 ~ 25204034 (-) True XLOC_002785
TCONS_00005166 mRNA upstream 1743 25572372 ~ 25657506 (-) False XLOC_002791
TCONS_00005167 mRNA upstream 2140 25572769 ~ 25628555 (-) False XLOC_002791
TCONS_00005169 mRNA upstream 11312 25581941 ~ 25591194 (-) True XLOC_002791
TCONS_00005170 mRNA upstream 123766 25694395 ~ 25699454 (-) False XLOC_002794
TCONS_00005172 mRNA upstream 127007 25697636 ~ 25716953 (-) False XLOC_002794
TCONS_00005164 other downstream 24214 25494173 ~ 25499474 (-) True XLOC_002790
TCONS_00005133 other downstream 1067956 24455616 ~ 24455732 (-) True XLOC_002771
TCONS_00005130 other downstream 1140307 24383266 ~ 24383381 (-) True XLOC_002768
TCONS_00005129 other downstream 1143912 24377417 ~ 24379776 (-) True XLOC_002767
TCONS_00005104 other downstream 2692259 22828366 ~ 22831429 (-) True XLOC_002753
TCONS_00005183 other upstream 561840 26132469 ~ 26141081 (-) False XLOC_002799
TCONS_00005187 other upstream 625655 26196284 ~ 26202523 (-) False XLOC_002800
TCONS_00005203 other upstream 1172967 26743596 ~ 26744131 (-) True XLOC_002804
TCONS_00005214 other upstream 1435642 27006271 ~ 27009124 (-) False XLOC_002814
TCONS_00005218 other upstream 1599327 27169956 ~ 27170072 (-) True XLOC_002817

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
bowfin (Amia calva) AMCG00016083 True 423 mRNA 0.48 2 CM030122.1 6783537 ~ 6787509 (-)