RNA id: TCONS_00059540


Basic Information

Item Value
RNA id TCONS_00059540
length 2616
RNA type mRNA
GC content 0.49
exon number 18
gene id XLOC_030478
representative True

Chromosome Information

Item Value
chromosome id NC_007116.7
NCBI id CM002889.2
chromosome length 72500376
location 55626693 ~ 55689656 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CGCGGTATCACCTTTTCGCGGAGACCAGATAAGGCCACTCCATGACAGTCTGGCGTCGCGCACAACGTCTTTGCGCATCCCACAGCAGCGGCGTCTCATCTCGGAATTGCTGAAAATACTACAAGACACTACACAACGCCGAACGCACCGCGCTAGACCTGCTATGACCGCAGGGGTTCGTGGAATGGCTTGCTGGGGGTTGTGTGGGTTTTTATTCGGGCTGCTGAGGATCAGCTCGGCTTGTCCTGTGTCGTGCTTTTGCAATGCCTCAAGGATCTCGTGTATCGATCAAGAACCAGGGATCGAGGATTTCCCTGTCTTGATGCCGGAGTCTGACATGGAGAACATCACGGATATATATATATCAAATCAAAAAAGGCTATTTACAATCAACGAGGACCACATGAAGTTCTACTCGAATCTCAGGAATTTAACAGTGACCAATACCCACCTGACATATGTATCTACCATGGCCTTTTTCAACAATTCCAAGCTTCAATATCTGAATCTCGGAGACAATAACTTATCAACACTCTCTTGGATGGCAATGCGGAATTCAAACGTATCAACTTTGTTGCTCTCTGGGAACCCTTTGCAATGTGCATGTGAGAACATCTGGATCAAACTCTGGTTGGATGACAGTGAAAGAGACGTTCTGCAGTGTCTACAGGAAGGAGGAAAAGCAAAAACCCTGTCTAGACTCACTCTGCCTTTATGTGAGCATCCACGTGTCGAGGTATTCCCCACTGACGTTAGTCAAATGGCAGGAAGTGATGCTACAGTGATATGTAACGCATCAGGTTCCCCGACCCCAGAGCTCACTTGGACCTTAAATTCCAGCGAACACCCTCCTCTCTCAACCAGCCACGAGATCAGCAAAATGGACCTGCAGTCGGTGCTGACTCTAAATGGACTTTCGCCTAATGACAATGGCAGAAAGCTCATTTGTAGTGCTGAAAACATCGTGGGCCAGATCGAGGCTACAGTCATGCTCAATATTTCTTTTCCCCCTACTGTCTTGGAGCTGTACCTGCCCGAGAGGAGCCAGGACTGGTGCATCCCTTTCGTTGTGACGGGCAACCCGAGACCTGACCTCCACTGGTACCATGAGGGAAAGCCGCTAGAGGAGCAGGAGTACATCAGAACTGAAATCCACGATATCACCAATACCGAGTACCACGGCTGTCTGAAGCTGGACACCCCCACTCACATCCATAATGGCATTTACACGCTGGTGGCCAGCAATGAGTTCGGAGAGGACAGAGGGAACGTGACGGCACACTTCATGCGCATACCTGACGTGGATCATTCAGGGATAGagGGAGTGTTCTATTATGaCACAACTGTTAGTCCGGatatcCCACCACTGGAGGACAGAGTTGCGGTTTACATAGTAGTGGGAATAGCTGGGGTTGCTTTAACTGGATGCATCCTGATGTTAGTTTTCCTCAAGTATGGCAGAAGCTCCAAATTTGGAATGAAAGGCTCCTCGTCTGTCATTAGTAATGATGATGACTCTGCCAGCCCGCTCCACCACGTTTCCAACGGCAACAACACGCCATCATCCTCGGAGATGGGTCCTGATGCAGTTATTATTGGAATGACAAAGATTCCAGTCATTGAGAACCCTCAGTACTTCCGCAACCCTGGCAGCATGCTGAAATCGGACACTCttGTCCAACATATAAAGCGTCACAACATTTTACTGAAGAGGGAGCTGGGAGAGGGGGCTTTCGGGAAAGTGTTCTTAGCTGAATGCTACAACTTGTCTCCTGACCAAGAGAAGATTTTGGTGGCTGTTAAGACTTTGAAAGAAGCCAGTGAAAGTGGGCGAGCAGATTTCCACAGAGAGGCAGAACTCCTGACCAACCTGCAGCATGAGCACATTGTCAAATTTTACGGCGTGTGTGTAGAAAGTGACCCCCTCATTATGGTGTTTGAGTACATGAAACACGGAGATCTCAACAAGTTTCTCAGGGCTCATGGTCCAGATGCGGTGCTAATGGCAGACGGACAGCAGAGTTTGCTGGTGGAGTTGACTCAGCCTCAGATGCTGCACATTGCTCAGCAGATAGCAGCAGGAATGGTGTATCTGGCTTCACAGCATTTTGTGCACAGAGACCTGGCCACACGCAACTGCCTGGTGGGGGAAAACCTGCTTGTAAAGATAGGAGACTTTGGCATGTCCAGAGATGTGTACAGCACCGACTACTATAGGGTAAGTGTGGGTGGTCACACCATGCTGCCCATCCGATGGATGCCCCCAGAGAGCATTATGTACAGAAGATTCACCACAGAGAGTGACGTGTGGAGTTTGGGTGTAGTACTCTGGGAAATCTTCACCTATGGCAAGCAACCCTGGTATCAGCTCTCAAACAATGAGGTGATCGAGTGTATCACACAGGGTCGGGTGTTACAGAGACCTCGTACTTGCCCCAAAGAAGTGTATGATCTGATGCTGGGCTGCTGGCAGAGGGAGCCATACATGAGACTCAACATCAAAGAAATCCACAATCTGCTCCAGAGCCTGGCCAAGGCCTCGCCTGTGTACCTGGACATCCTGGGCTAATCCTTTTGCCAGTATGGGCGTGAAATTATTAGTAAGAAAGagtgtct

Function

GO:

id name namespace
GO:1990090 cellular response to nerve growth factor stimulus biological_process
GO:0033674 positive regulation of kinase activity biological_process
GO:1990416 cellular response to brain-derived neurotrophic factor stimulus biological_process
GO:0007275 multicellular organism development biological_process
GO:0010976 positive regulation of neuron projection development biological_process
GO:0043408 regulation of MAPK cascade biological_process
GO:0043410 positive regulation of MAPK cascade biological_process
GO:0006468 protein phosphorylation biological_process
GO:0048882 lateral line development biological_process
GO:0048883 neuromast primordium migration biological_process
GO:0099551 trans-synaptic signaling by neuropeptide, modulating synaptic transmission biological_process
GO:0051896 regulation of protein kinase B signaling biological_process
GO:0007399 nervous system development biological_process
GO:0014068 positive regulation of phosphatidylinositol 3-kinase signaling biological_process
GO:0016310 phosphorylation biological_process
GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathway biological_process
GO:0030424 axon cellular_component
GO:0005887 integral component of plasma membrane cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0043235 receptor complex cellular_component
GO:0016740 transferase activity molecular_function
GO:0005524 ATP binding molecular_function
GO:0060175 brain-derived neurotrophic factor-activated receptor activity molecular_function
GO:0000166 nucleotide binding molecular_function
GO:0043121 neurotrophin binding molecular_function
GO:0004672 protein kinase activity molecular_function
GO:0016301 kinase activity molecular_function
GO:0004713 protein tyrosine kinase activity molecular_function
GO:0004714 transmembrane receptor protein tyrosine kinase activity molecular_function
GO:0048403 brain-derived neurotrophic factor binding molecular_function
GO:0005030 neurotrophin receptor activity molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-010126-2 Predicted to enable brain-derived neurotrophic factor binding activity and brain-derived neurotrophic factor-activated receptor activity. Acts upstream of or within neuromast primordium migration. Predicted to be located in plasma membrane. Predicted to be integral component of membrane. Predicted to be part of receptor complex. Predicted to be active in axon. Predicted to be integral component of plasma membrane. Is expressed in gut and nervous system. Human ortholog(s) of this gene implicated in Alzheimer's disease; autistic disorder; developmental and epileptic encephalopathy 58; major depressive disorder; and morbid obesity. Orthologous to human NTRK2 (neurotrophic receptor tyrosine kinase 2).

Ensembl:

ensembl_id ENSDART00000161412

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00061466 lncRNA upstream 472444 55146633 ~ 55154249 (+) False XLOC_030475
TCONS_00061465 lncRNA upstream 472444 55146633 ~ 55154249 (+) True XLOC_030475
TCONS_00061464 lncRNA upstream 486556 55134605 ~ 55140137 (+) True XLOC_030474
TCONS_00059534 lncRNA upstream 503473 55119510 ~ 55123220 (+) True XLOC_030473
TCONS_00061793 lncRNA upstream 552493 55067285 ~ 55074200 (+) True XLOC_030472
TCONS_00061794 lncRNA downstream 28069 55717725 ~ 55719138 (+) True XLOC_030480
TCONS_00061467 lncRNA downstream 215477 55905133 ~ 55906710 (+) False XLOC_030481
TCONS_00061468 lncRNA downstream 215502 55905158 ~ 55906710 (+) False XLOC_030481
TCONS_00061469 lncRNA downstream 215531 55905187 ~ 55906713 (+) False XLOC_030481
TCONS_00061470 lncRNA downstream 215919 55905575 ~ 55906491 (+) True XLOC_030481
TCONS_00059538 mRNA upstream 277264 55265550 ~ 55349429 (+) True XLOC_030477
TCONS_00059537 mRNA upstream 309742 55265274 ~ 55316951 (+) False XLOC_030477
TCONS_00059535 mRNA upstream 374699 55221593 ~ 55251994 (+) False XLOC_030476
TCONS_00059536 mRNA upstream 375263 55225497 ~ 55251430 (+) True XLOC_030476
TCONS_00059533 mRNA upstream 685689 54938653 ~ 54941004 (+) True XLOC_030471
TCONS_00059542 mRNA downstream 244473 55934129 ~ 55952128 (+) False XLOC_030482
TCONS_00059544 mRNA downstream 294614 55984270 ~ 55989773 (+) False XLOC_030483
TCONS_00059545 mRNA downstream 294707 55984363 ~ 55987938 (+) True XLOC_030483
TCONS_00059546 mRNA downstream 333530 56023186 ~ 56027776 (+) False XLOC_030484
TCONS_00059547 mRNA downstream 336375 56026031 ~ 56027776 (+) True XLOC_030484
TCONS_00059516 other upstream 1518179 54106010 ~ 54108514 (+) True XLOC_030460
TCONS_00059514 other upstream 1763459 53824969 ~ 53863234 (+) True XLOC_030458
TCONS_00059512 other upstream 1869188 53700294 ~ 53757505 (+) True XLOC_030457
TCONS_00059510 other upstream 2018990 53581489 ~ 53607703 (+) False XLOC_030457
TCONS_00059495 other upstream 3400888 52225684 ~ 52225805 (+) True XLOC_030448
TCONS_00059549 other downstream 557080 56246736 ~ 56248735 (+) True XLOC_030488
TCONS_00059550 other downstream 566532 56256188 ~ 56258166 (+) True XLOC_030489
TCONS_00059556 other downstream 600479 56290135 ~ 56305811 (+) True XLOC_030492
TCONS_00059578 other downstream 2348116 58037772 ~ 58037886 (+) True XLOC_030510
TCONS_00059579 other downstream 2522505 58212161 ~ 58212284 (+) True XLOC_030511

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000059_01080401_01106181.mRNA True 2856 mRNA 0.51 16 CI01000059 1079835 ~ 1106239 (+)
bowfin (Amia calva) AMCG00007839 True 612 mRNA 0.51 5 CM030123.1 32325622 ~ 32356646 (+)