RNA id: TCONS_00006543


Basic Information

Item Value
RNA id TCONS_00006543
length 2424
RNA type mRNA
GC content 0.49
exon number 7
gene id XLOC_003343
representative False

Chromosome Information

Item Value
chromosome id NC_007122.7
NCBI id CM002895.2
chromosome length 45484837
location 14004236 ~ 14064984 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

TTCCACTTGCAGATGACGACTCGTATTCCTCCATCGGGATTAGTGGAGCTACTTCTGGCCGTTTTGCAGCGCAGTGGCTGGGAAGAGAGCATGGCAGTTCTTTGCCATGGTTGGGAGGATGCTGGTCTTCTGGATCTCCTAAAACTCCAAGGCCGCTTTGGCTGGGGACCTTCACAATGGCACCTGCGGGCCGCTCTTAATCTCTCTCACAGCACAGCTCGCATGGCTAACATTTCTGACTTCCTGTCTGAGCACTTTAATCTGGACCATTCTCCTCCTGCCTCAGTCCTGCTTTTTGGGGCTGACCCGGAGTGTGCCTCATCAGTTCTGCGCAGCGCGCATGACCTGGGGTTGACATTGCCCACTGTACATTGGATTATGGGACATCCTTTAAGCCCAGATGCTCTTCATTCCATTGGCCTGCCTTTAGGACTGCTGGCCTATGGAGAGGTCGACCACAAACCACTGGATTTCTACATTAGTGATGCCCTGCAGTTGATCAACAGAGCTGTTACAGCTGCAACTGTTGTACGGCCTGATCTAGCTCTTATCCAAAATATGGTCAACTGTTTTGACAAACCCAACAAACACGAACTACCCTCATCAGGACAATACATTGCCAGGTTCCTCTCTAATACATCCTTTGTAGGGTTGACAGGCCCTGTCATCGTTCAACGCAACCTTTCTCGTGTACACACGTCTCATAAGGTCCACATTTGGAGTCTTCGACGGGATGCCGTCGGTCAGCCTACGTGGGTAACTGTAGGTAGCTGGGAAGGTGGTAGGTTGAATGTGGAGGAACAGGGCTTATGGCAAGGCTCATCACCTCGGCAGCGCACGGAGGGCCAGATGGGCAGGGAAGGACGTAGATGGCGAGCTGGCTTTCCTGTGTCTGGGAGTCGTCTACGTGTGGTCACTCTGGTGGAGCACCCGTTCGTGTTCACTCGAGAGGTAGATGAGGATGGAAACTGTCCTGCTGGGCAATATTGTCTGGATGCAGGAACAAACAGTTCAGAAACCTTAGATCATTTGTACGCTGAGCGGGCTCAAGGCAACAAAAGCTTCTTGCCACCGGATTACAGCAAGTGTTGCTACGGATACTGTATTGATTTATTGGAGAAGCTGTCAGAAGACATGAACTTTGAGTTTGACCTGTACATAGTTGGAGATGGGAAATATGGGGCTGTCAAGGGAGGGCAGTGGACAGGTCTGGTGGGTGACCTCTTAAGTGGAGTAGCTGATATGGCTGTTACCAGTTTTAGCATCAACTCGGCTCGCAGTAAGGTGATTGATTTCACTAGTCCATTCTTTTCAACAAGTTTGGGAATACTGGTGCGCAGTAAAGACACAGCAGCACCTATTGGAGCATTCATGTGGCCTTTACACTGGTCCATGTGGATGGGAATTTTTGTGGCGCTGCACATTACAGCACTGTTCCTCACTCTCTACGAATGGAAGAGTCCCTTCGGCATGACGCCTCATGGACGAAACCGTGTAAAGGTCTTTTCCTATTCTTCAGCCCTCAACCTCTGCTACGCCATCCTCTTTGGCCGCACAGTCTCTAGTAAGACACCAAAGTGTTGGACTGGACGTTTCCTCATGAATCTATGGGCCATATTTTGCCTGCTGGTTTTGTCCAGTTACACAGCAAACCTAGCTGCAGTGATGGTTGGGGAAAAGACCTTTGAAGAAGTGTCGGGAATACATGATGCCAAGCTTCATCACCCCTCTCAGGGATTCCGATTTGGCACAGTTCGGGAAAGCAGTGCAGAGGATTATATGAAAAAGAGCTTTCCTGAGATGCACGAATATATGCGGAAATTCAATGAACCTACCACACCTGATGGAGTCGCCACTCTAAAgacagatccgCCTCAACTTGATGCGTTTATCATGGACAAAGCCCTGCTGGACTATGAGGTGTCCATTGATGCTGACTGCAAGTTACTGACAGTTGGTAAACCCTTTGCAATTGAAGGCTACGGGATCGGTCTTCCCCAGAACTCACCTCTAACCTCCAACATATCTGAATTCGTCAGCCGTTACAAGTCAGATGGCTACATGGACATGCTGCATGACAAGTGGTACAAGGTGGTGCCGTGCGGAAAGAGAGTTTTTGCTGTTACCGAGACACTGCAGATGGGGATTCGTCACTTCTCAGGGTTATTTGTGTTGCTGTGTGTTGGTGTGACTGGGGCCTTACTTACTCTGGCAGGAGAGCATGCCTTCTATCGCCTGGTTCTTCCACATATACGCCGCAAACAGAAGTTCAAATACTGGCTTCATACTAGTCAGaaaatcCACAGAGCACTGAACATGACTTACGAGGATGTGAAACGGCAGCGGGCAAACACAGAGAAAaggttttgtctttgttttatttatctgttttataAGCATCAGAATTGTCCATATTACAACTGA

Function

GO:

id name namespace
GO:0035235 ionotropic glutamate receptor signaling pathway biological_process
GO:0006811 ion transport biological_process
GO:0005886 plasma membrane 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:0005216 ion channel activity molecular_function
GO:0004970 ionotropic glutamate receptor activity molecular_function
GO:0004972 NMDA glutamate receptor activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-131122-77 Predicted to enable ligand-gated ion channel activity and signaling receptor activity. Predicted to contribute to NMDA glutamate receptor activity. Predicted to be involved in ionotropic glutamate receptor signaling pathway. Predicted to act upstream of or within ion transport. Predicted to be located in postsynaptic membrane. Predicted to be integral component of membrane. Predicted to be active in plasma membrane. Orthologous to human GRIN3B (glutamate ionotropic receptor NMDA type subunit 3B).

Ensembl:

ensembl_id ENSDART00000171076

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00006539 lncRNA upstream 354984 13642161 ~ 13649258 (+) True XLOC_003340
TCONS_00008575 lncRNA upstream 809645 13193723 ~ 13194597 (+) False XLOC_003332
TCONS_00006523 lncRNA upstream 815236 13188135 ~ 13189006 (+) True XLOC_003331
TCONS_00006518 lncRNA upstream 851857 13151919 ~ 13152385 (+) True XLOC_003329
TCONS_00008396 lncRNA upstream 1114362 12889291 ~ 12889880 (+) False XLOC_003325
TCONS_00006546 lncRNA downstream 25691 14081540 ~ 14082177 (+) True XLOC_003344
TCONS_00006567 lncRNA downstream 278394 14334243 ~ 14338679 (+) True XLOC_003351
TCONS_00008576 lncRNA downstream 287596 14343445 ~ 14346112 (+) False XLOC_003352
TCONS_00006570 lncRNA downstream 288730 14344579 ~ 14345138 (+) True XLOC_003352
TCONS_00006575 lncRNA downstream 806437 14862286 ~ 14863542 (+) False XLOC_003355
TCONS_00006538 mRNA upstream 214791 13642157 ~ 13789451 (+) False XLOC_003340
TCONS_00006536 mRNA upstream 363771 13629528 ~ 13640471 (+) False XLOC_003339
TCONS_00006537 mRNA upstream 364580 13630107 ~ 13639662 (+) True XLOC_003339
TCONS_00006535 mRNA upstream 470460 13528437 ~ 13533782 (+) True XLOC_003338
TCONS_00006534 mRNA upstream 471647 13524504 ~ 13532595 (+) False XLOC_003338
TCONS_00006545 mRNA downstream 1756 14057605 ~ 14062533 (+) True XLOC_003343
TCONS_00006547 mRNA downstream 48568 14104417 ~ 14143702 (+) False XLOC_003345
TCONS_00006548 mRNA downstream 48630 14104479 ~ 14143702 (+) True XLOC_003345
TCONS_00006549 mRNA downstream 92064 14147913 ~ 14161975 (+) False XLOC_003346
TCONS_00006550 mRNA downstream 92137 14147986 ~ 14161838 (+) True XLOC_003346
TCONS_00006541 other upstream 139278 13864846 ~ 13864964 (+) True XLOC_003342
TCONS_00006540 other upstream 186558 13817569 ~ 13817684 (+) True XLOC_003341
TCONS_00006509 other upstream 1058032 12930157 ~ 12946210 (+) True XLOC_003325
TCONS_00006493 other upstream 1292246 12711700 ~ 12711996 (+) True XLOC_003318
TCONS_00006492 other upstream 1309979 12693967 ~ 12694263 (+) True XLOC_003317
TCONS_00006553 other downstream 144047 14199896 ~ 14248440 (+) True XLOC_003347
TCONS_00006565 other downstream 277592 14333441 ~ 14340783 (+) False XLOC_003351
TCONS_00006571 other downstream 375424 14431273 ~ 14639060 (+) False XLOC_003353
TCONS_00006572 other downstream 375516 14431365 ~ 14440826 (+) False XLOC_003353
TCONS_00006578 other downstream 961336 15017185 ~ 15018524 (+) False XLOC_003358

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
bowfin (Amia calva) AMCG00006145 True 3012 mRNA 0.59 9 CM030142.1 16722210 ~ 16749395 (-)