RNA id: TCONS_00025254


Basic Information

Item Value
RNA id TCONS_00025254
length 2652
RNA type mRNA
GC content 0.50
exon number 17
gene id XLOC_012620
representative True

Chromosome Information

Item Value
chromosome id NC_007129.7
NCBI id CM002902.2
chromosome length 51023478
location 9323211 ~ 9439922 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCCTGGGGCTTCACCGCGCTTTACTTGAGTTCAGTCTCAGCTGAGTTACTATTTAAAACACtgagaggaaacacacacacaacatctaGGAGATAAACAGCCAGCCACACGCACTTTTAAACTGATTGAGCGACTACAGTGAAGACTCATGGTGATCTCCTGAGGCTGTGACTGATTCAGCAGGAGAGATGTGATCACCGTGTGACTTActgaacacgcacacacacacctgcttcatCCTCAGGTGGCGTTCAGGAGGACTGGACTGCTGAAAAAGCTGCATTAAACCGGAGGCCACGGGACTGCATACGGAACATGGACTACTTGTGGTGGATTGTACTGCTGATTTGGACGCTCATCGCGCCTGAAAGAGGAACCGTTGCGCAGAGGAGCAAGAGTAACGTACCCCGGCTTAAACTCTCCTATAAAGAAATGCTGGAGTCCAACAACCTGCTTACTTTCAATGGATTGGCTAACAGCTCTGCCTATCACACTTTTTTATTGGATGAGGAGAGAGGACGGCTTTTTGTGGGGGCAAAAGATCATGTGCTTTCCTTTAACTTGGTGGATATCAACATGGACCAGCAACTGATTTCCTGGCCTTCTTCACCTTCTCGACGAGATGAATGCAAGTGGGCCGGGAAGGACGTCCAGAAGGAGTGTGCGAACTTCATAAAGGTCCTGCAGCCATTTAATCAGACGCACCTGTATGCGTGCGGGACCGGAGCCTTCCATCCCGTCTGTGCACATGTGGAAGTGGGCAAACGCTCAGAGGACAACACCTTTCGGCTTGGGTCGAGTTTTGAGAACGGCCGTGGAAAAAGCCCGTATGACCCCAAACTGCAGACGGCATCCATGCTGATCGATGGGGAACTGTATGCTGGGACATCAGCTGACTTCATGGGCCGGGACTTTGCCATTTTCCGAACTTTAGGAAAACACCATCCCATCAGGACGGAGCAGCACGACTCCAGATGGCTCAACGATCCTAGATTTGTCAGCGTCCATCTCATCCCAGAGAGCGACAACTCTGAAGATGACAAGATTTATCTGTTCTTCCGCGAAAACGCCATTGATGGAGAGCAAATCAGCAAAGCCACACATGCCCGAATTGGACAGCTGTGTAAGAATGATTTTGGAGGCCACAGGAGTTTGGTGAACAAATGGACCACCTTTCTGAAGGCCCGTTTAGTCTGCTCAGTTCCTGGCCTCAACGGCATCGATACACACTTTGATGAACTGCAGGACGTGTTTCTCATGAGCTCTAAGGATCCTAAAAACCCCATTATCTATGCTGTATTTACAACATCCAGtaatatttttaagGGTTCTGCGGTCTGCATGTACAGTATGGCAGATATCAGGAGAGTGTTTTTGGGCCCATATGCCCACCGTGATGGACCCAATTACCAATGGGTACCATTTCTGAGTCGAGTACCATATCCAAGACCTGGCACGTGTCCCAGCAAAACATTTGATGGTTTTGAATCAACAAAGGACTTTCCTGATGATGTCATCACGTTTGCCAGAAGCCATCCAGCCATGTACAACCCAGTGTTTCCTATCAACAACCGTCCAATCATAATCAAAACTGATGTGGATTACCAGTTCACTCAGATAGTAGTGGACAGGGTTGAAGCAGAGGATGGCCAGTATGATGTCATGTTTATCGGCACCGACATGGGCACAGTCCTTAAGGTGGTTTCCATCCCAAGAGGAACATGGCATGACCTTGAGGAAGTCCTGTTGGAGGAGATGACTGTGTTCAGAGAACCAACTGCTATCACTGCCATGGAGCTTTCAACAAAACAGCAACAACTCTATCTTGGATCTGCCATCGGGGTTTCTCAGATGCCACTTCATCGATGTGACGTCTATGGGAAGGCCTGCGCTGAATGCTGTCTGGCACGTGACCCTTACTGCGCATGGGATGGCTCTCAGTGTTCCCGATACTTTCCAACAGCTAAGAGGAGAACGAGGCGTCAGGATATTAGGAATGGAGACCCACTGACTCAGTGTTCGGATCTACAACACCACGATGAGGCAGATGGCGAGACGGGCTTGCTGGATAAGACTGTGTATGGAGTTGAAAACAGCAGCTCTTTTCTAGAGTGCAGTCCTAAATCTCAGCGTGCCCTCATTTACTGGCAGTTTCAGAGACACGGGGAGGACCACAAACTGGAGATAAAGTCAGACGAGCGAGTGTTGGGCACAGAACAGGGTCTTCTGATCCGAAGCCTCCATCAGAAGGACTCAGGTGTGTATTACTGCCATGCCGTCGAGCACGGCTTCATCCAGACCCTCCTCCGTCTCACGCTCAACGTCATTCCTGCCGAACACCTGGATGATCTGCTTCACCGAGACCCACCAGACACCAACGATCCCGCCAACGGCAAGATGTGGTACCGCGACTTTCTGTCCCTCATCAATCCGCCGAGCCCCAACAGCGTCGATCAGCTCTGCGAACAGGTGTGGAAGAGAGAACGCAAACAACGCAGACAGAAAGCCAATCTACTGCACGCCAGCCAATCACACACCAGCCAGATCCTCCACTCCAGCCAATCACACGCCAAGTGGAAGCTGCTACAGGAAAACAAGAAAGGGCGCAATCGCAGGACCCACGAGATGCAGCGGGCGCCGAGAAGTGTGTGA

Function

GO:

id name namespace
GO:2001224 positive regulation of neuron migration biological_process
GO:0048755 branching morphogenesis of a nerve biological_process
GO:0001755 neural crest cell migration biological_process
GO:0030154 cell differentiation biological_process
GO:0001763 morphogenesis of a branching structure biological_process
GO:0050919 negative chemotaxis biological_process
GO:0007275 multicellular organism development biological_process
GO:0048843 negative regulation of axon extension involved in axon guidance biological_process
GO:0001569 branching involved in blood vessel morphogenesis biological_process
GO:0007399 nervous system development biological_process
GO:0008045 motor neuron axon guidance biological_process
GO:0007411 axon guidance biological_process
GO:0030335 positive regulation of cell migration biological_process
GO:0071526 semaphorin-plexin signaling pathway biological_process
GO:0005576 extracellular region cellular_component
GO:0005887 integral component of plasma membrane cellular_component
GO:0005615 extracellular space cellular_component
GO:0045499 chemorepellent activity molecular_function
GO:0030215 semaphorin receptor binding molecular_function
GO:0038191 neuropilin binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-991209-6 Predicted to enable chemorepellent activity; neuropilin binding activity; and semaphorin receptor binding activity. Acts upstream of or within branching involved in blood vessel morphogenesis; branching morphogenesis of a nerve; and motor neuron axon guidance. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Predicted to be integral component of plasma membrane. Is expressed in brain; myotome; pharyngeal arch; and somite. Human ortholog(s) of this gene implicated in hypogonadotropic hypogonadism 16 with or without anosmia. Orthologous to human SEMA3A (semaphorin 3A).

Ensembl:

ensembl_id ENSDART00000061886

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00025224 lncRNA upstream 1044690 8334388 ~ 8338157 (+) False XLOC_012608
TCONS_00025226 lncRNA upstream 1044690 8335139 ~ 8338157 (+) True XLOC_012608
TCONS_00025225 lncRNA upstream 1047468 8334502 ~ 8335379 (+) False XLOC_012608
TCONS_00025221 lncRNA upstream 1279651 8100905 ~ 8103196 (+) True XLOC_012606
TCONS_00027056 lncRNA upstream 1719190 7651829 ~ 7663657 (+) True XLOC_012602
TCONS_00025265 lncRNA downstream 540956 9980878 ~ 9983912 (+) True XLOC_012626
TCONS_00026870 lncRNA downstream 645719 10085641 ~ 10089253 (+) True XLOC_012629
TCONS_00027057 lncRNA downstream 663019 10102941 ~ 10190202 (+) False XLOC_012630
TCONS_00027058 lncRNA downstream 666353 10106275 ~ 10151626 (+) False XLOC_012630
TCONS_00025269 lncRNA downstream 666353 10106275 ~ 10157525 (+) False XLOC_012630
TCONS_00025250 mRNA upstream 144172 9171778 ~ 9238675 (+) True XLOC_012618
TCONS_00025247 mRNA upstream 427274 8917766 ~ 8955573 (+) False XLOC_012616
TCONS_00025248 mRNA upstream 439685 8937718 ~ 8943162 (+) True XLOC_012616
TCONS_00025245 mRNA upstream 466847 8912549 ~ 8916000 (+) False XLOC_012615
TCONS_00025255 mRNA downstream 53798 9493720 ~ 9576778 (+) True XLOC_012621
TCONS_00025257 mRNA downstream 175225 9615147 ~ 9721576 (+) False XLOC_012623
TCONS_00025258 mRNA downstream 195256 9635178 ~ 9722291 (+) False XLOC_012623
TCONS_00025259 mRNA downstream 197822 9637744 ~ 9722291 (+) False XLOC_012623
TCONS_00025260 mRNA downstream 201288 9641210 ~ 9722291 (+) False XLOC_012623
TCONS_00025251 other upstream 158319 9224413 ~ 9224528 (+) True XLOC_012619
TCONS_00025249 other upstream 270915 9111816 ~ 9111932 (+) True XLOC_012617
TCONS_00025241 other upstream 473235 8901862 ~ 8909612 (+) False XLOC_012614
TCONS_00025238 other upstream 490050 8889888 ~ 8892797 (+) False XLOC_012613
TCONS_00025256 other downstream 167994 9607916 ~ 9608042 (+) True XLOC_012622
TCONS_00025261 other downstream 268653 9708575 ~ 9715768 (+) True XLOC_012623
TCONS_00025264 other downstream 371098 9811020 ~ 9811152 (+) True XLOC_012625
TCONS_00025267 other downstream 576586 10016508 ~ 10016626 (+) True XLOC_012628
TCONS_00025271 other downstream 1230739 10670661 ~ 10670738 (+) True XLOC_012633

Expression Profile

//

Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000013_10218387_10244139.mRNA True 2356 mRNA 0.50 17 CI01000013 10218370 ~ 10244139 (-)