RNA id: TCONS_00048197


Basic Information

Item Value
RNA id TCONS_00048197
length 3640
RNA type mRNA
GC content 0.54
exon number 21
gene id XLOC_024374
representative True

Chromosome Information

Item Value
chromosome id NC_007136.7
NCBI id CM002909.2
chromosome length 37502051
location 1088693 ~ 1126311 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

NTGGCGGATGGAGAGCTCTGTGTGGGGCTGAAAGACTGGCGGAGGGTGAAGCTGAGCGCGGGTCCGTCACTGCTGTGCTGCGTGAACGCGCAGGGGGAAACCAGTCTGAGGAACATCAGCGACAGCAGGGGAGCTGAGCATACACTACAGCACACCTGTGTAgaTTTCTTGTGGGAGGATGTGAGTGTGAGCAGCGGTGCACGTGTGAAGCCAAAGCTGCTGCTGCTAGACTCTGAGTTTTCTCTGCATATGTATGATGTGGATCAGGATGATCAGCCGACGCTGGTGTGTGAAACATCCTCTAATACACtgcttcagatcatcaaacacacacacgccgaCATGTGTGCTGTGGCGTCTGTGAGGCTGTTGTGTTTCTCTGAGGGCCGCTGTGTGTTGTTGGTGAACACGTgtgtgttgctgcagctcagactAACGGAGGACACACTAGAGCCCATATCCTGCTGCCGCCTCGGTGTGGAGTGTGTGGAGGAGTGTGTTGACTGCCGGCTGTGCAGAGGAGCACTCTTCATCCTCCTCAACAGCGGACTCTCATATGTGTTTGACAGCACTGACGGGCAGCTGTTGGCGAAGGTGGATTTTCCCTCATACTGCTGCAATGCTGGTGTTTCTCCATCCACCTCCTCCTTCTGTCTGCTCCAGATCTCTGCTGATCTCAGTACGGCTGTGAGCGTCACACGGCAGAACCAGGCCTACGCCGTACACCTCGACCACTACTTCAGtgtgtatCCCGATCACTTATACTGCCGTGCGGCCCCCATTCGTCCATTCCTCAGGCCTGTTGAATCCTGTGATCAGGACAGTCTCTCCAGCTCCACCCACAGTCTGTCAGTGCTGAATAAACCCCTGCAGGCCGACCGGTCATGGGAGTCTCGTCTGTCTGCGCTCTACAATCAAACTAAAGCTCCTGTTCGTCCCGTTTACATTTCACCCTGGTATAAAGACTTTCCTCACATCGAATGCCGTCGCGCAGCCGCTACAGCTAAACTCTGCCATTCCTCCGTGAAGACAGGGGGCGCCGTTATGTCTTTTAATGTGCCAGATGGAGCCACACCAGCAGGACTCAACGTGTCAGAGTTTTCAGCACTAATTACGTTCGTTTCTCCTGCTAACGCTAATACGGTTCTGGCCTACTGGGATCTGGAGAACGAAAGTGTGACGTATCATCGTGCAGATGCTAATGCTATTCCTGTGCAGAGATCAGCAGAGGAGAACCTGTGTCTATTACTGAAGGCGTCGGGTCTGTCGGTGGTGCTGTTCTGTGTTTCTCAGGACGAGCTGCTCAACAGACTGATGGTGTTCGGCAGCGCAGGAACAGTGGATTCACTCTGCCATCTGAACGCATGGGGGCGCTGTTCAATCCCTATACACgccctgcaggcggGTCTGAAGAACCATCAGCTGGACACAGTGGATTTCTTCCTGAAGAGTAAAGAGAACATCTTGAGTTCTTCATCCGGCTTCAGTCCAGGAGATCCTCCTCCGTCCTcctccaacacacacactcatctgcgGAgtatCGAAGCTCTGTGTCCTGCCCTGGATCTCCTGCGCTCTGCGATTCGCGACACACACACTGAAGCTCAGAGTCAACAGTTCTGTGAGCAGCTCTTGAGCATCACTATGAGCTTCCTGAACACACAGACCAGAGTCCTGCTGAGCGGAGCGCacggtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgtgcatttagtACAGTCAGTAGACCCTCAGCTGCTCAGGATGGCTCTAAGtcagtatctctctctctctctctctctctctctctctctctctctctctctctctctctgtgtgtgtgtgtgcaggcggtCAGTACAGTGGACCCTCAGCTCCTCAGGATGGCTCTCCGTCAGTATCCTCAACTGAAGACAGCGCTGTTCCCTCAGAGCGGCCCTCGCGGAGATGTCTCGCTCTACCACCTGCTGCAGGTGCACACACTCACAGTATATACACCAGCATACTGTATattcacacacaaatatacacgaTGTAGATATATGcataatatatgtataaatatgtaccgtgtttttttatttagttttattaaagttATGAAAAAGCAGCAGTCAATTGTGAAGGTATCTCTTTTTAATGTTTCCCATATTTTAGTAaaTCAGCTGCTGTGTGAGACGCCGGTGTGTGTGTCGTCTCGTCTGCTTGACTGTTATTCCCCCAGTGTCCTGCAGGAGGAGTGTGTGAGGATCATGGAGGAGCTGCAGGACGCCGGACTCTACATGCAGGCGCGCAGAGTCGCAGAGCTGGCCGAGCTGcccgcacacacactcatcatcAACCAggtgaacagacacacacacacacacacacacacacacacacacacgacagatgcacacacacacacacacacacacacacacacacacacacacacacacacacagagacagacagCCGGAGTGTGTCCTGCAGAAGGTGCTTCTGTCTCGTCAGTCTGAGCGCTGTAAGAAAGCAGAGGCCTTCATCAGTGCTCAGAGTCTGCAGCCGCACACCAGAGTCGTTCCTCCAGCTCGCCAAACTGTGTGGAGACGCCAATCTGGTGGGAAACAAACTGCTGGACAGCATCGGCAGCGTCCCGCTGTCAGACCTCAGCTGCAtcgtGGAGCTGCTGATTCTGGCTCATGACTGCTTCAGTGTCACCTGTAATCTGGAAGGGATTGTTCGTGTTCTTCAGGCCTGCAGACACCTGAGCCACACACACCTGGCGCACGGAGACGCTCACGGCCTGCTGGTGCGTCTGCTCACAGGTATCGGCAGGTATAATGACATGACGTACGTCTTCGATCTGCTGCACCAGAACCACCGATTCGAGATGCTGCTGCGCAAGAAAGTGGAGtcgaATGTGCGTCTGAAGACGGCACTGCTGGATTATATCAAGCGTTGTCTGCCTGGCGACAGCGAGAAGCACAACATGGTGGCGCTGTGTTTCAGCATGTGCCGAGAGATCGGAGAAAACCACGAGGCGGCGGCCAGAACACAACTCAAACTCATAGAGTCTCAGCCCTGggtgatcACAGCAGAGCTGAAGAAGGCGTTAGTGAAGGTGCAGACGCTCCTCAAAGACGCAGCTGAGAGCTACTCAAAGgaCTCGTGTGTCCGTCAGGCTGTGCGCTGTGTGAAGCTGGCGAAGCTGGTGACTCTGCAGCTGCACTTCCTGAATCAGGGCCTGGAGCTGCGCATCATCAACCTGCAGCACACAGACCTGCAGAACACCAGCAACACACTGCCACACTGCTACCagGTGTTCGTGTTAGCAGAGGCGTATGACTTCAGTCCAGACTGGGCCGAGGTTTTCTATCAGAAGGTCATCATGAGAGGAGACTTCAGCTACCTGGAGGAGTTCAAGAGGCACAGGCCGCTAGCTGCTAGTCTCTTCCAGGACATCTCCAACAAGGTGTGTCATCAGAAGCCCCCCGCGAGCTGCAGTCAGCACCTGAAGAAGCTGCTGTCGCACTGTGAGGACGTCTACACGCATTATAAACTGGCCTACGAGCACCAGTTCCTGGACGTGGCCAACATGCTGCTGCAGGACTCCAAGACCAACAGCTTCCTGAAGGACCGCCTCCGCacctaa

Function

GO:

id name namespace
GO:0048489 synaptic vesicle transport biological_process
GO:0007268 chemical synaptic transmission biological_process
GO:0007399 nervous system development biological_process
GO:0048675 axon extension biological_process
GO:0007409 axonogenesis biological_process
GO:0008088 axo-dendritic transport biological_process
GO:0036269 swimming behavior biological_process
GO:0001966 thigmotaxis biological_process
GO:0030424 axon cellular_component
GO:0030425 dendrite cellular_component
GO:0045202 synapse cellular_component
GO:0005737 cytoplasm cellular_component

KEGG:

id description
ko05014 Amyotrophic lateral sclerosis
ko05022 Pathways of neurodegeneration - multiple diseases
ko03400 DNA repair and recombination proteins

ZFIN:

id description
ZDB-GENE-101017-1 Acts upstream of or within axonogenesis; swimming behavior; and thigmotaxis. Predicted to be active in several cellular components, including axon; dendrite; and synapse. Is expressed in muscle; nervous system; notochord; and trunk. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease axonal type 2X; amyotrophic lateral sclerosis type 5; and hereditary spastic paraplegia 11. Orthologous to human SPG11 (SPG11 vesicle trafficking associated, spatacsin).

Ensembl:

ensembl_id ENSDART00000161863

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00049300 lncRNA downstream 445780 630933 ~ 643106 (-) True XLOC_024369
TCONS_00049299 lncRNA downstream 632408 455319 ~ 456478 (-) True XLOC_024366
TCONS_00049070 lncRNA downstream 725118 360538 ~ 363768 (-) True XLOC_024363
TCONS_00049069 lncRNA downstream 783229 305008 ~ 305657 (-) True XLOC_024361
TCONS_00048181 lncRNA downstream 794277 288661 ~ 294609 (-) True XLOC_024360
TCONS_00048198 lncRNA upstream 68971 1195282 ~ 1196112 (-) True XLOC_024375
TCONS_00049301 lncRNA upstream 149972 1276283 ~ 1308073 (-) False XLOC_024377
TCONS_00049071 lncRNA upstream 179467 1305778 ~ 1306027 (-) False XLOC_024377
TCONS_00048211 lncRNA upstream 338068 1464379 ~ 1471185 (-) True XLOC_024380
TCONS_00049302 lncRNA upstream 498569 1624880 ~ 1625878 (-) False XLOC_024381
TCONS_00048195 mRNA downstream 9469 1047627 ~ 1079417 (-) True XLOC_024373
TCONS_00048192 mRNA downstream 90790 821725 ~ 998096 (-) False XLOC_024372
TCONS_00048194 mRNA downstream 90992 867146 ~ 997894 (-) True XLOC_024372
TCONS_00048193 mRNA downstream 195422 867146 ~ 893464 (-) False XLOC_024372
TCONS_00048191 mRNA downstream 314536 768016 ~ 774350 (-) True XLOC_024371
TCONS_00048199 mRNA upstream 93968 1220279 ~ 1235457 (-) True XLOC_024376
TCONS_00048200 mRNA upstream 140634 1266945 ~ 1323928 (-) False XLOC_024377
TCONS_00048201 mRNA upstream 149967 1276278 ~ 1323674 (-) False XLOC_024377
TCONS_00048202 mRNA upstream 168129 1294440 ~ 1323623 (-) False XLOC_024377
TCONS_00048203 mRNA upstream 184238 1310549 ~ 1323928 (-) False XLOC_024377
TCONS_00048188 other downstream 598101 488821 ~ 490785 (-) True XLOC_024368
TCONS_00048212 other upstream 503344 1629655 ~ 1629749 (-) True XLOC_024382
TCONS_00048237 other upstream 1889859 3016170 ~ 3034668 (-) False XLOC_024397
TCONS_00048288 other upstream 3199305 4325616 ~ 4325731 (-) True XLOC_024429
TCONS_00048296 other upstream 3764456 4890767 ~ 4904432 (-) True XLOC_024434
TCONS_00048299 other upstream 4214651 5340962 ~ 5341102 (-) True XLOC_024438

Expression Profile

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