RNA id: TCONS_00019487



Basic Information


Item Value
RNA id TCONS_00019487
length 3879
RNA type mRNA
GC content 0.51
exon number 19
gene id XLOC_009734
representative False

Chromosome Information


Item Value
chromosome id NC_007127.7
NCBI id CM002900.2
chromosome length 55266484
location 11483811 ~ 11555934 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence


GGGGTGCTATAGGCAGCAGAAGGCATCTCCATGAGGAGCGGTAGAAGATGCCGGAACTGCCAGCGCTCCTGCTGTCGATTTACTTCCGCTTCCTGTTAGTCACTGTGGTTACCATGCCGCCTTCTTCCCTGAGCCAGACCCCTGTTCTGTCATCCGTACGGATGGCTGCTATTTTGGATGACAGCTCTGTCTGTGGCCGTGGGGAGCGGTTAGCTTTAGCATTAGCACGTGAGAATATCAACAGTGTGATGGAGAACCCAGCTCGTGCTCGCGTGGAGGTCGACATATTTGAACTTCAGAAAGACTCACAGTATGAGACTACAGATACGATGTGCCAGATTCTACCAAAGGGCGTGGTCTCTGTTATCGGCCCCGCCTCCAGTCCCGCTTCCGGCTCTATAGTCAGTCACATATGTGGGGAAAAAGAGATTCCCCACGTCAAAATCGGTCCAGAAGAGACTCCGCGGCTTCCTTACCTGCGCTTTGCGTCTGTGACTCTGTATCCTAGCAACGAGGATTTGAGCCTTGCCATCGGCTCCATCCTACGCTCCTTTAGCTACCCATCGGCTAGTCTGGTCTGCGCTAAGGCCGAATGTCTGCTGAGACTGGAAGAGCTGATAAGGCGTTTTCTGATCTCTCGAGAGACGCTGTCAATCAGGATGCTGGATGACAACCTTGACCCAACGCCATTACTGAAGGAGATTCGTGATGACAAAATAGCTACAATAATTATTGATGCTAATGCGTCCATTTCTTACCTTATACTGAAAAAGGCATCAGAGTTGGGGATGACATCAGCGTTTTACAAGTACATCCTCACAACTATGGACTTCCCATTGCTTTGGTTGGATGATATAGTGGATGAGCAGTCAAACATCGTGGGCTTCTCAATGTTTAACACCACCCACCCCTTTTACCTGGAGTTTATCAGAAGCCTTAACCTGTCCTGGAGAGAGGGCTGTGACATTAACCCGTATCCCGGACCAGCAcTGTCGTCGGCCCTGCTGTTTGATGCGGTCCATGTGGTAGTGAGTGCAGTGCAGGAACTCAACCGGAGTCAGGAGATTGGCGTCAAACCTCTCAGCTGCACCTCCCCTCAGATCTGGCAACATGGAACCAGCCTCATGAACTACCTGCGCATgGTGGAGTATGACGGCTTGACAGGACGAGTTGAGTTCAACAGTAAAGGCCAGAGGACCAATTACACCCTCCACATTCTGGAGAAGCACAGGGGAGGCCACAAAGAGATTGGGATCTGGTACTCTAATAACACTCTCCTGATGAACTCCACCAGCCTGGACATCAATGTCTCTGAGACTCTGGCTAACAAGAGCCTCATCATCACCACCATACTTgagAACCCATACGTAATGAGAAAGATTAATTACCAGGAGTTTGAGGGGAACGAGCAGTATGAGGGTTTTTGTGTGGACATGTTAAGAGAGCTATCTGACATCCTCAAGTTCACCTACCGCATCAAACTGGTGGACGATGGTCTGTACGGGGCACCCGAACCCAACGGCTCGTGGACGGGCATGGTGGGAGAGCTGATCAATAGGAAAGCTGATTTGGCCGTAGCTGCTTTTACCATCACATCTGAGAGAGAGAAGGTCATCGACTTCTCCAAACCTTTCATGACCCTGGGCATCAGTATTCTCTACAGGGTCCATATAgGCAGGAAGCCAGGTTATTTCTCCTTCCTGGATCCTTTCTCACCGGCTGTTTGGCTCTTCATGCTGCTGGCTTACCTCGCTGTCAGCTGTGTGCTTTTTCTTTCTgcgagGTTAAGCCCTTATGAATGGTACAACCCTCATCCGTGTCTGCGAGAGCGCAGAGACCTGCTGGAGAATCAGTACACACTAGGAAACAGCCTGTGGTTTCCTGTGGGGGGCTTCATGCAGCAGGGCTCTGAGATCATGCCCAGAGCCCTGTCCACGCGCTGCGTCAGCGGGGTCTGGTGGGCATTCACTCTCATAATAATCTCCTCATACACTGCGAATCTTGCTGCGTTTCTGACCGTGCAGAGAATGGAAGTGCCAATCGAATCACCAGATGACCTCGCCGATCAAACCAATATCCAATATGGCACCATTCATGGAGGAAGCACCATGACCTTTTTTAtgaactcCCGGTATCAAACGTATCAGCGCATGTGGAACTACATGTATTCAAAGCAGCCCAGTGTCTTCGTTAAGAGCACAGAGGAGGGCATCGCACGAGTCGTGAACTCCAAATATGCCTTTCTCCTGGAGAGCACCATGAATGAGTACCACCGCAGCCTCAACTGCAACCTCACCCAAATCGGAGGACTGCTGGACACCAAGGGTTACGGCATTGGCATGCCTCTGGGTTCTCCTTTCAGAGATGAGCTCAGTCTGGCAGTGCTGCAGTTGCAGGAGAATAACAGGTTGGAGATCCTGAAGAGAAGATGGTGGGAGGGAGGAAAGTGTCCCAAAGAGGAAGACCACCGAGCCAAAGGTCTTGGGATGGAGAACATTGGCGGTATATTTGTGGTGTTGATCTGTGGCCTGATTATTGCTGTGTTTGTGGCTGTGATGGAGTTTGTGTGGTCCACGCGTCGATCAGCAGAAACAGACGAGGTGTCCGTATGTCAGGAGATGTTGACAGAATTTCGTAACGCCGTCTCCTGCAAGAAAAGCTCTCGTCTACGCCGCCGCCGGCCTCTGTCCAGCTCTCTGGCCCTCCGGCATCCCACCCGCATCACTTTGGGGGCTCCACGACCCCTGCGCCTTGTGAGAGAGATGCGCCTTAGCAACGGAAAGCTCTACAGTGGCACTGGACCCCTCACAGGAGGTTCAGGGCCTGGAGGAGGCCCCACAGACATGGGTCCTGGCCCCCAACGGCTCCTGGAGGATCCATTAGGAGCCAACAGCACGCCTGCAGTGGCCCTGGGACCCCCCGCAGTGACAGTGCCTCTGCCGCGGGGTTGCACTCACGTGCGCATCTGCCAGGAGTGCAGGCGGATTCAGAGTCTCCGCACAACTTCATGCACACGAATCCCTCCCTCCTCCGCCCCCCTGCCCCGCCTCGCTCCACCCCCTCCACACTCATCCTCGAATACAGACAGCGAAGGGGGCGGCGGCCTAAGCCCGTGCCGAATAGGACACTCCCCTCCGGCTAAAGGCTGCTCTTTACCACCACCTCAGTCTAGCAACAACACAGACCTAATGGGGGAGCAAAAATGAGAACAGACAAACTAACAAACACAAGTATGACACATTTTTGCAATATTCGCCTCCATGTTcgaaatcacagacaaatgcgCTTTCCATCTTTTCCTTGGTACAAAAAATGGATCCTTTTCTTTTGGATAGCCATGTGTCATTTCAATGATTCTTTTGTACTACTGAATGATGTACTATAACACTGACTGTGTAAGAAATGATTGTACGCCTCAGACACAAGGGTGCAGATGTTAAATGTGATTCTGATCAGGCAGCACACAGACGTCTGACAGATTCTCCTTCCCTTTCCTGACTGAAATCTCTCTCTGTTTGGATAGAGGTCACACACTGGAAGTAGCACAGCGGAGACGCTCTCGTTTGGACGTCCAGATCAGAGCTCGAATGCCACAGAATGAGAGCACACAACATTCGTGGAGGACAATGATGCAAACttgttaatgaaaaaaaaagatattctaaAAACAGATATTCTTACTTTTCTGTactatacttatttttaaattcacTGTCTGTGTAATTTAATTCTGGGGTTGTGTTGTCTGAATTGGAAATTAAAAATAGAGATACTTTATTGATACTGAGGAGATCAACTCTGACTGAATATGTATGGGTTTTTTTGGGAAACGAGGAGCTGTGTTCATTAAAACGTGGACTTTGATCTGTCTGCTAGAAC

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:

id description
ko04080 Neuroactive ligand-receptor interaction
ko04724 Glutamatergic synapse
ko04040 Ion channels

ZFIN:

id description
ZDB-GENE-070821-6 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. Is expressed in brain; eye; retinal inner plexiform layer; retinal outer plexiform layer; and retinal photoreceptor layer. Orthologous to human GRIK5 (glutamate ionotropic receptor kainate type subunit 5).

Ensembl:

ensembl_id ENSDART00000173042

JBrowse2


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Neighbor


RNA id RNA type direction distance location representative gene id
TCONS_00021686 lncRNA upstream 106966 11361760 ~ 11376845 (+) True XLOC_009733
TCONS_00019484 lncRNA upstream 200209 11275659 ~ 11283602 (+) True XLOC_009731
TCONS_00021685 lncRNA upstream 317099 11151776 ~ 11166712 (+) False XLOC_009730
TCONS_00021895 lncRNA upstream 563846 10918909 ~ 10919965 (+) False XLOC_009728
TCONS_00019475 lncRNA upstream 621669 10859429 ~ 10862142 (+) True XLOC_009727
TCONS_00021896 lncRNA downstream 17255 11573189 ~ 11573798 (+) False XLOC_009736
TCONS_00021687 lncRNA downstream 24718 11580652 ~ 11583878 (+) True XLOC_009737
TCONS_00019501 lncRNA downstream 152576 11708510 ~ 11709498 (+) True XLOC_009744
TCONS_00021897 lncRNA downstream 561697 12117631 ~ 12118526 (+) False XLOC_009751
TCONS_00021898 lncRNA downstream 561697 12117631 ~ 12139336 (+) True XLOC_009751
TCONS_00019485 mRNA upstream 139084 11297703 ~ 11344727 (+) True XLOC_009732
TCONS_00019482 mRNA upstream 191663 11242443 ~ 11292148 (+) False XLOC_009731
TCONS_00019481 mRNA upstream 259367 11188810 ~ 11224444 (+) True XLOC_009730
TCONS_00019480 mRNA upstream 260986 11151699 ~ 11222825 (+) False XLOC_009730
TCONS_00019479 mRNA upstream 341014 11029762 ~ 11142797 (+) True XLOC_009729
TCONS_00019488 mRNA downstream 2934 11558868 ~ 11569729 (+) False XLOC_009735
TCONS_00019489 mRNA downstream 2971 11558905 ~ 11567444 (+) True XLOC_009735
TCONS_00019490 mRNA downstream 17537 11573471 ~ 11578407 (+) True XLOC_009736
TCONS_00019491 mRNA downstream 29642 11585576 ~ 11593545 (+) True XLOC_009738
TCONS_00019492 mRNA downstream 41452 11597386 ~ 11598447 (+) True XLOC_009739
TCONS_00019483 other upstream 192928 11242560 ~ 11290883 (+) False XLOC_009731
TCONS_00019473 other upstream 627402 10841164 ~ 10856409 (+) False XLOC_009727
TCONS_00019457 other upstream 1159146 10324549 ~ 10324665 (+) True XLOC_009715
TCONS_00019455 other upstream 1190874 10284258 ~ 10292937 (+) True XLOC_009713
TCONS_00019443 other upstream 1925708 9540033 ~ 9558103 (+) True XLOC_009705
TCONS_00019500 other downstream 144712 11700646 ~ 11703337 (+) False XLOC_009744
TCONS_00019511 other downstream 685556 12241490 ~ 12245896 (+) False XLOC_009752
TCONS_00019517 other downstream 744235 12300169 ~ 12300286 (+) True XLOC_009755
TCONS_00019518 other downstream 824796 12380730 ~ 12380846 (+) True XLOC_009756
TCONS_00019534 other downstream 1868614 13424548 ~ 13441633 (+) False XLOC_009767

Expression Profile


Expression of TCONS_00019487 in the Zebrafish Sample from each Developmental Stage of PRJEB12982

Boxplot with 18 boxes. Box plot charts are typically used to display groups of statistical data. Each data point in the chart can have up to 5 values: minimum, lower quartile, median, upper quartile, and maximum.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 12.
End of interactive chart.
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Expression of TCONS_00019487 in the Zebrafish Sample of PRJEB12982

Bar chart with 360 bars.
The chart has 1 X axis displaying categories.
The chart has 1 Y axis displaying Expression. Range: 0 to 15.
End of interactive chart.

Homologous


species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000016_04743905_04763216.mRNA True 3438 mRNA 0.52 18 CI01000016 4743821 ~ 4763507 (+)