RNA id: TCONS_00038655


Basic Information

Item Value
RNA id TCONS_00038655
length 3515
RNA type mRNA
GC content 0.46
exon number 16
gene id XLOC_019632
representative False

Chromosome Information

Item Value
chromosome id NC_007132.7
NCBI id CM002905.2
chromosome length 45934066
location 26152332 ~ 26250744 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

ATGTGGCAAAGCTTCGTCCTACTGTTAACCGGTTTGCTTGGGTTGTGCTCATGTTCAAGTTTCCCAAGTAACATCAACATAGGAGGTTTGTTTCCAACCGACTCCCATGAATACGATGTGTTCCGTTTCGCGCTCTCGCAGCACAATGATGTCCCTAAACTGGTACCACAAGTGGACATGGTGGACACGGGGAGCAGCTTTGCTATGACATACGCCTTTTGTTCACAGTTCTCCAAAGGAGTCTACGCCATCATCGGTCTGTATGACAGGAAGACCATGAACATGCTGATGTCGTTCTGTGGCGCTTTGCACGTATGTTTCGTCACGCCGAGCTTCCCCATCGACACCAACAACCAGTTTGTGATCCAGCTGAGACCTGAGCTCCAGGATGCTCTGATCGCCCTCGTCGAGCACTACAAGTGGAATAAGTTCGTCTACATGTACAGCTCAGACTCAGgtCTGACAGTGTTGCAGAAGATCTTAGACACTGCAGCTGAGAAGACCTGGCAGGTGACGTCCATAAACTTTGACACACTGACAGAAGCGGCATTCCTGAAAGCCATCCAAGATCTGGATAATAAGAAGGAGTTCAAGATCATTCTGGACTGTGAGCTGGAGAGACTCAACTCCATCTTAAACCTgATCGCAGCGCAGAAAAAAAACTTGAAGAACTACCATTACATACTAGCAAACCTGGGATTTCTGGATCTTAATCTCACTGAGTTCAGGAAGGGAGGTGCAAATGTGACAGGCTTCCAGCTGATGAACTACACAAACCCTACTGTCAGCAGGACAATACAGGACTGGCTGGAGTTTGACAGTAAAGACTTGAAAAGCCCCAAAAGGAGACTCAAGTACACTGGAGCACTCACATATGACGGGGTGACTGTCATGGCCACTGCCTTCCAGAATCTGAGAAAGCAGCGCATTGATATCTCACGCAGGGGGAATGCAGGAGAGTGTCTGGCGAACCCTCCAGCACCCTGGGGTCAGGGCATCGACATCCAGAGAGCCTTACAGCAGGTGCAGTTTGAAGGACTTACAGGACATGTTCAGTTTAATGACAAAGGACATCGAACCAATTTCACTGTCAGTGTGATGGAGTTTGGCCCAAGCGGACCCAAAAAAGTGGGCTACTGGAATCAACGTGAGAAATATGTGAGCACAGCTACTTACAGCAACATGCTCAACGAGACGTTCGGACTGCAAAACAGGACCTACGTCGTCACTACCATCCTGGAAGCTCCATATGTGATGCTGAAGAAGAACCACGAGCAGCTAGTAGGGAATGATAAATATGAGGGTTATTGTGTGGAGCTTGCGGCAGAAATCGCCAAACACGTGGGCTATTCCTACAGACTAGAGCTCGTGGGAGATGGAAAGTATGGAGCCAGAGATGCAGAGACAATGATGTGGAATGGGATGGTTGGAGAACTAGTGTATGGCAAAGCAGATGTTGCTGTGGCCCCCCTCACCATCACACTGGTCAGAGAAGAGGTCATTGACTTCTCCAAGCCCTTCATGAGCTTAGGAATCTCCATCATGATCAAGAAACCCACCAAATCCAAACCAGGCGTCTTCTCGTTCCTGGACCCGCTGGCCTATGAGATCTGGATGTGCATTGTGTTTGCTTATATTGGTGTGAGTGTGGTGCTGTTCCTGGTCAGCCGCTTCAGTCCATACGAGTGGCATGCAGATGATGAAGAGGAAACAGCAGATCAGCAAAACCAGAACCAACCACCGTCGCCAGAACCAAACCAGTCGCCAAACCAGAGTCAGAACCAGCGAGAGGAGAAGCAGGAGAAACAACCGGAGCACACCAATGAGTTTGGGATCTTCAACAGCCTGTGGTTTTCCCTCGGAGCCTTTATGCAGCAAGGATGCGATATCTCACCAAGATCTCTCTCTGGTCGTATAGTCGGAGGTGTGTGGTGGTTCTTCACTCTGATTATCATCTCCTCCTACACAGCCAACCTGGCTGCCTTCCTCACTGTGGAAAGGATGGTTTCACCCATTGAGAGTGCAGAGGATTTGGCTAAGCAAACTGAGATTGCTTATGGGACTCTGGATGGAGGATCCACTAAAGAGTTCTTCAGGAGATCAAAAATCGCAGTATTTGAGAAGATGTGGTCCTACATGAAGTCTGCAGAGCCTACAGTGTTTGTGAAGACAACAGACGAAGGCGTCGTTCGAGTAAGAAAGTCCAAAGGGAAGTATGCTTATCTGCTGGAGTCCACAATGAATGAATATATCGAGCAGCGCAAACCTTGTGACACCATGAAGGTGGGAGGAAACTTGGACTCAAAGGGTTATGGAGTGGCCACACCTAAAGGATCTGCTTTGAGAATCCCCGTAAACCTAGCGGTGTTGAAGCTCAATGAGCAAGCCGTCTTAGACAAACTGAAAAACAAATGGTGGTACGATAAAGGGGAGTGTGGAAGCAAGGACTCCGCCAGAAAGGATAAGACCAGTGCTCTGAGCCTCAGTAATGTGGCTGGAGTtttctacattctgattggtGGACTTGGGCTGGCCATGCTGGTGGCCCTGGTCGAGTTCTGTTACAAATCAAGAATCGAGTCTCGAAGGATGAAGCAAATCATTGATGCTGCAATGCTCAGCTCCACACTGACTAGGATGGGTAGTGGAGGTGAGAATGGTCGTGTGATGGCCCATGACTTCCCCAAAGGGGCACAGACTCTGCCATGTATGGGCCAGGCGGCCGCCATGGGCCTCAGCACCACTGGGATGTAAACAGCCATCATCCTCCCCGAAATGACGGGACATCAGGAGACTAGTGGAAAGAGTGGAAGATGATGTGAGAGACACTGCAGTGTACATCTCACCTGCCACTGAAGTACTGCCAAATGGATTCATGGACACATTCTGGGCTCCAAATGAAATTAGATAAAGATGGAggaaaattacttttttaatatcAGGATGTggctgtttctttcttttttttctttttttttttttttgaatatcttTTGCAATAAGGAGACCATGTGTGAGGTGTTTTTGTATGAAGTTTCACTTTTGACAAAACTGGGTTTTCCTTCAATTCTACACAAAAATTACTGACaatgttttttgtcatttcattgtCCACAAATCCCTCCGAATTTCCTGATTATGATCATTTTATTCTCTTCATCTGCCTTCTGATATATCCAACAAACATCTGAAggacattttatttgacatatttttccATAGTTTCAAATCATTTTTACACTATCAGATAGTGAAGGTGAAGTATGTAATTTCTGTGTTACTGGCATACCCATGGCGAATTGCAAAAGTGTGTTCATCATTGATTGGAAAAACCAATATTCCTCTCCTTAAATCACAAGTTGGCTGGGTTAGGAAGTACATCATCTAATACTTACTACAGTATATAATGTGAAAAAGGGGACAGTTGAAAATCAAATGATTGAAATGCAGAGCACTTTCAAAAGATTTATGCTCACCAGGCACAGCTATACAATCCGAATAAATGTCAACTAACA

Function

GO:

id name namespace
GO:0006811 ion transport biological_process
GO:0045202 synapse cellular_component
GO:0005886 plasma membrane cellular_component
GO:0045211 postsynaptic membrane cellular_component
GO:0043197 dendritic spine cellular_component
GO:0030054 cell junction cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0032281 AMPA glutamate receptor complex cellular_component
GO:0038023 signaling receptor activity molecular_function
GO:0015276 ligand-gated ion channel activity molecular_function
GO:0004970 ionotropic glutamate receptor activity molecular_function
GO:0004971 AMPA glutamate receptor activity molecular_function
GO:0099583 neurotransmitter receptor activity involved in regulation of postsynaptic cytosolic calcium ion concentration molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-020125-2 Predicted to enable AMPA glutamate receptor activity and neurotransmitter receptor activity involved in regulation of postsynaptic cytosolic calcium ion concentration. 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 part of AMPA glutamate receptor complex. Predicted to be active in dendritic spine and plasma membrane. Is expressed in nervous system and otic vesicle. Orthologous to human GRIA1 (glutamate ionotropic receptor AMPA type subunit 1).

Ensembl:

ensembl_id ENSDART00000123713

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00038652 lncRNA downstream 84439 26067010 ~ 26067893 (-) True XLOC_019629
TCONS_00038648 lncRNA downstream 352699 25796338 ~ 25799633 (-) True XLOC_019627
TCONS_00039646 lncRNA downstream 403405 25747176 ~ 25748927 (-) True XLOC_019624
TCONS_00038628 lncRNA downstream 550723 25599088 ~ 25601609 (-) True XLOC_019616
TCONS_00038626 lncRNA downstream 554755 25595716 ~ 25597577 (-) False XLOC_019616
TCONS_00039647 lncRNA upstream 933 26251376 ~ 26255052 (-) False XLOC_019633
TCONS_00039648 lncRNA upstream 933 26251376 ~ 26395229 (-) False XLOC_019633
TCONS_00038658 lncRNA upstream 933 26251376 ~ 26395308 (-) False XLOC_019633
TCONS_00039649 lncRNA upstream 79037 26329480 ~ 26395308 (-) False XLOC_019633
TCONS_00039650 lncRNA upstream 105589 26356032 ~ 26395302 (-) True XLOC_019633
TCONS_00038654 mRNA downstream 37446 26097732 ~ 26114886 (-) True XLOC_019631
TCONS_00038653 mRNA downstream 62368 26080215 ~ 26089964 (-) True XLOC_019630
TCONS_00038650 mRNA downstream 80559 26062452 ~ 26071773 (-) False XLOC_019629
TCONS_00038651 mRNA downstream 81190 26062799 ~ 26071142 (-) False XLOC_019629
TCONS_00038649 mRNA downstream 124127 26021496 ~ 26028205 (-) True XLOC_019628
TCONS_00038659 mRNA upstream 150889 26401332 ~ 26406304 (-) False XLOC_019634
TCONS_00038660 mRNA upstream 153792 26404235 ~ 26406244 (-) True XLOC_019634
TCONS_00038661 mRNA upstream 157573 26408016 ~ 26483237 (-) False XLOC_019635
TCONS_00038662 mRNA upstream 157574 26408017 ~ 26483237 (-) True XLOC_019635
TCONS_00038663 mRNA upstream 235406 26485849 ~ 26490186 (-) True XLOC_019636
TCONS_00038640 other downstream 429540 25703078 ~ 25722792 (-) False XLOC_019622
TCONS_00038634 other downstream 527149 25620405 ~ 25625183 (-) True XLOC_019619
TCONS_00038630 other downstream 539135 25605533 ~ 25613197 (-) False XLOC_019617
TCONS_00038618 other downstream 688968 25452590 ~ 25463364 (-) True XLOC_019612
TCONS_00038597 other downstream 2405385 23552023 ~ 23746947 (-) True XLOC_019599
TCONS_00038671 other upstream 451378 26701821 ~ 26701954 (-) True XLOC_019643
TCONS_00038674 other upstream 667485 26917928 ~ 26918903 (-) True XLOC_019646
TCONS_00038689 other upstream 954556 27204999 ~ 27221304 (-) False XLOC_019652
TCONS_00038698 other upstream 1231706 27482149 ~ 27483038 (-) False XLOC_019657
TCONS_00038703 other upstream 1233648 27484091 ~ 27488961 (-) True XLOC_019657

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
bowfin (Amia calva) AMCG00011320 True 795 mRNA 0.46 4 CM030133.1 18092116 ~ 18098073 (+)