RNA id: TCONS_00028268


Basic Information

Item Value
RNA id TCONS_00028268
length 2273
RNA type nonsense_mediated_decay
GC content 0.51
exon number 12
gene id XLOC_014223
representative False

Chromosome Information

Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 40025928 ~ 40055391 (+)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

AGAGTGCGCTTTCAACACGTTGGCACTTTAAGGGGTGGAGTTTCTCGTTCACGTCATTTCTCCCATTTTTACAGTCTTTTCTTGCAGCCAGCGGCCATTTTACAAAGCTGCCGCCGAGCGTGAGGGTGCTCCTCTCTTTGTCGGTGTTTATCGTTACAGTTGCATTTAGTACGTGATTTAAAACTCACCAATATTCATTTTTATACGGTTTATCCCGTCCGCTTCTGTGTGATAATGTCTCGTGACCGATCTCGTAATCGTGGAGGATTCCAGCCCCGAGGCCGCGGAGGAATGGGGATGCGCGGTGGCATGGGCATGGGGATGGGTATGGGCATGGGAATGGGAATGGGGATGGGGATGGGAATGGGAAACCCGAACTTTCGAAATCAAAACCAGCACCATTTTCAAAACCGAGGCCCACAAATGGGTGGTGGATTTAGGCAGAATCAGGGAAATCAAGGCAACCAGGTATCTACACAACAGAAGCCGCAGGAACCCGCACAGAACAAGCCCGTCGTGCAGACTCCTCCTGCGCAAGGCCCCGGTCAGGCCCAGCAGGCCGCCAACAAAGGCCCGACGCCCCAGCAGACTCCCACCGTCGCTCCGCCGAAAATCCAGTCTGCTCCACCGAAGATCCAGTCTCCTCCGCCGAAGATTCAGTCTCCTCCGCCAGCACAGAATAACGCGAAGACGCCAGAAATAGCTTCCCCTCAAAACCAGCAAAGGAAGAACCTACCCAAACCCGCGATGGGGAATGGCCAGAAGCCGCCTGCTCCCTTGAAGCAAGAGCAGACGCCAGCACCAACACCCCCACCAgcacaacaacagcagcaacagcaacaacaacaaaaacagactCCCGCAAACGAGCAGAGCTCTCAGCCCCAGGAATTGAAGGCAACGCTCTCTTTGCTGCGCAAGCCTGGGGAGAAAACATACACCCAACGTTGTCGTCTTTTTATCGGGAACCTTCCAAACGACATCACTGAACCCGAATTCAGGAAATTGTTCGCAAAGTATGGGGAACCCAGTGAGATTTTCATCAATCAAGGCAAAGGCTTTGGATTCATCCGTCTGgaaTCCCGTGCCTTGGCAGAGGTTGCGAAAGCAGAGTTGGATGATACTCCAATGAAAGGCAGACCACTCCGAGTTCGCTTCGCTACTCATTCTGCTGCACTTTCTGTGCGAAATCTATCTCCGTTCGTGTCCAATGAGCTGCTGGAGGAGGCATTCTCTCAGTTTGGACTGGTGGAAAGGGCTATAGTCATCGTGGATGACCGTGGACGCTCAACAGGGAAAGGCATTGTTGAGTTTTCTTCTAAGCCAGCTGCCCGCAAGGCCATGGATCGCATTAGTGATGGGGTGTTCCTTCTCACATCGTCCCCCCGTCCAATTGTGGTTGAATTGTTGGAGCAGTATGATGACGAGGACGGTTTGCCCGAGAAGCTTGCACAGAAAAACCCCAGTTATCAAAAGGAACGAGAGCAACCTCCTCGGTTTGCCCGTCCTGGCACCTTTGAGTATGAATACTCCCAGCGATGGAAGTCCCTTGATGAGATGGAGAAACAGCAGAGGCAGCAAGTGGAGAAAAACATCTGTGAAGCCCGTGAGAAGCTGGAAACGGAGATGGACGATGCATATCATGAGCATCAAGCGAACATGCTCAGACAGGatctccTTAGACGTCAAGAGGAACTTCGCCGCATGGAGGAGCTGCACAGTCAGGAGATGCAGAAGCGTAAAGAGATGCAGCTTAGGCAAGAAGAGGAACGTCGTAGGAGAGAGGAGGAGATGATGCGGCAGAGGGAAATCGAAGAACAATTGAGGCGCAAACGCGAGGAATCTTACAGAATGAACAACTTCATGGATAATAGAGACAGGGAGATGAGAATGAACACAAGTGGAGGCATGGGATTGTCTGATATGTCATTTGGATCACCAAACCAGAAGTTCTCATTGACCGGAATGAGCTTTGATGGACACCAGGGACTAAGTGGATCAACACAAGGGGGCCTAGCGTCCAACGAAATGGGCTCTCGGGTGATTGAAGCAGGTTAAGAAGCATCGTGCGATTGAAAACATGGATCTTAAACCGAAGAAGCTGTTCTCTGAACGGTCGACTGACTTTCACAGCCCCAGATGTTCAGTGATAGATGTTCCTGCACAGTGGATAGAAATGTGCAGaCATGTTGGAGACTGACGCAATCTGGCAGATGGCTCTGGATGCCtcaaatatatctatttttatttaaataaacttaaaattccTTCTA

Function

GO:

id name namespace
GO:0021522 spinal cord motor neuron differentiation biological_process
GO:0021547 midbrain-hindbrain boundary initiation biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0021591 ventricular system development biological_process
GO:0000398 mRNA splicing, via spliceosome biological_process
GO:0048859 formation of anatomical boundary biological_process
GO:0021654 rhombomere boundary formation biological_process
GO:0021955 central nervous system neuron axonogenesis biological_process
GO:0048681 negative regulation of axon regeneration biological_process
GO:0007420 brain development biological_process
GO:0043005 neuron projection cellular_component
GO:0005634 nucleus cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0003676 nucleic acid binding molecular_function
GO:0000976 transcription regulatory region sequence-specific DNA binding molecular_function
GO:0003723 RNA binding molecular_function

KEGG:

id description
ko01009 Protein phosphatases and associated proteins
ko03021 Transcription machinery
ko03041 Spliceosome

ZFIN:

id description
ZDB-GENE-040426-2452 Predicted to enable RNA binding activity. Acts upstream of or within central nervous system development and negative regulation of axon regeneration. Located in neuron projection and nucleus. Is expressed in brain; eye; gut; heart; and muscle cell. Orthologous to human SFPQ (splicing factor proline and glutamine rich).

Ensembl:

ensembl_id ENSDART00000151438

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00028267 lncRNA upstream 56470 39927406 ~ 39969458 (+) True XLOC_014222
TCONS_00029729 lncRNA upstream 273754 39750058 ~ 39752174 (+) True XLOC_014220
TCONS_00030020 lncRNA upstream 610227 39409323 ~ 39415701 (+) True XLOC_014219
TCONS_00030018 lncRNA upstream 732583 39275973 ~ 39293345 (+) False XLOC_014218
TCONS_00030019 lncRNA upstream 732583 39277003 ~ 39293345 (+) True XLOC_014218
TCONS_00029730 lncRNA downstream 2445 40057836 ~ 40066591 (+) True XLOC_014224
TCONS_00030021 lncRNA downstream 60871 40116262 ~ 40129606 (+) False XLOC_014226
TCONS_00028279 lncRNA downstream 67018 40122409 ~ 40127021 (+) False XLOC_014226
TCONS_00028280 lncRNA downstream 71084 40126475 ~ 40129606 (+) False XLOC_014226
TCONS_00028282 lncRNA downstream 101386 40156777 ~ 40163271 (+) True XLOC_014226
TCONS_00028261 mRNA upstream 1558374 38422059 ~ 38467554 (+) False XLOC_014213
TCONS_00028257 mRNA upstream 1698195 38168006 ~ 38327733 (+) False XLOC_014210
TCONS_00028258 mRNA upstream 1698196 38168014 ~ 38327732 (+) True XLOC_014210
TCONS_00028256 mRNA upstream 1768184 38167468 ~ 38257744 (+) False XLOC_014210
TCONS_00028255 mRNA upstream 2099503 37925616 ~ 37926425 (+) True XLOC_014207
TCONS_00028272 mRNA downstream 14133 40069524 ~ 40113608 (+) False XLOC_014225
TCONS_00028273 mRNA downstream 14133 40069524 ~ 40113935 (+) False XLOC_014225
TCONS_00028274 mRNA downstream 16170 40071561 ~ 40113608 (+) True XLOC_014225
TCONS_00028275 mRNA downstream 60586 40115977 ~ 40129484 (+) False XLOC_014226
TCONS_00028277 mRNA downstream 66769 40122160 ~ 40165799 (+) False XLOC_014226
TCONS_00028266 other upstream 150981 39874831 ~ 39874947 (+) True XLOC_014221
TCONS_00028264 other upstream 1077242 38948572 ~ 38948686 (+) True XLOC_014217
TCONS_00028262 other upstream 1559277 38464131 ~ 38466651 (+) True XLOC_014213
TCONS_00028260 other upstream 1599245 38422059 ~ 38426683 (+) False XLOC_014213
TCONS_00028259 other upstream 1769536 38256276 ~ 38256392 (+) True XLOC_014211
TCONS_00028276 other downstream 60871 40116262 ~ 40126764 (+) False XLOC_014226
TCONS_00028293 other downstream 282163 40337554 ~ 40344737 (+) False XLOC_014231
TCONS_00028303 other downstream 903109 40958500 ~ 40958616 (+) True XLOC_014238
TCONS_00028333 other downstream 2133599 42188990 ~ 42189104 (+) True XLOC_014257
TCONS_00028342 other downstream 2281926 42337317 ~ 42337431 (+) True XLOC_014261

Expression Profile

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