RNA id: TCONS_00023988


Basic Information

Item Value
RNA id TCONS_00023988
length 2124
RNA type mRNA
GC content 0.46
exon number 25
gene id XLOC_012170
representative True

Chromosome Information

Item Value
chromosome id NC_007128.7
NCBI id CM002901.2
chromosome length 53461100
location 28771028 ~ 28797395 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

GCCACGTCACCCTCGCAGTCGTCACTGCATAAACAGTAAAGATGGCGGCGTCCATCCGGGAAAAACAGACAGCTGCTCTCAAACGAATGCTCAACTTTAATGCCCCACCCCTTAAAAACACAACAGCTGAGCCAGTATGGAAGGTTCTTATTTACGATCGCTTTGGCCAAGACATTATATCTCCGCTTCTGTCTGTGAAAGAGCTACGAGACATGGGCATCACTCTGCACCTCTTGTTGCACTCAGATCGCGACCCCATTCCAGACGTTCCTGCCATTTACTTTATAATGCCCACAGAGGAGAACATCGACAGGATATGTCAAGACCTCCGAAACCAACTATATGAGTCCTACTATTTGAACTTCATCTCCGCAATTTCCAGAAGCAAATTGGAGGATATAGCAAGTGCTGCGCTTGCGGCTAATGCAGTAAACCAGGTGACCAAAGTATTTGATCAGTATTTGAACTTCATCACACTTGAGGATGATATGTTCATTCTCTGTAATCAAAACAAAGAGCACATCTCCTACCATGCAATCAATAAGCCAGATATCATGGACACAGACATGGAGGGTATAATGGACACAATAGTGGATAGTCTCTTCTGCTTCTTTGTTACTCTTGGTGCTGTCCCAATAATTCGATGTCCAAGAGGGAATGCTGCCGAAATGGTAGCAGTGAAACTTGACAAGAAACTGAGAGAGAATTTGAGAGACGCTCGTAACAGCCTGTTCACCGGAGACACCATGGGCACTGGCCAGTTCAGTTTCCAGAGGCCGTTGTTTGTTCTTGCGGATCGTAACCTGGATCTTGCGACTCCTCTCCACCACACATGGACGTATCAGGCTCTAATTCATGATGTGCTGGACTTCCACCTGAACCGAGTGAGTGTGGACGAGTCTCATGGGTCAGAGGCCAGTCCAGCCGGAGCACGacccaaaaagaaaaacaagaagagCTATGATCTCACTGCTGCTGACAAGTTTTGGCAAAAACACAAAGGAAGCCCATTCCCAGAGGTTGCAGAAGCTGTGCAGGAGGAACTGGACACATATCGAGCCCAAGAGGATGAGGTTAAACGGCTCAAGAGCATCATGGGCTTAGAAGGGGAGGACGACGGAGCCATTAGTATGTTGTCAGATAACACTGCCAAACTTACCTCAGCCGTCAGTTCTCTTCCTGAGCTCCTGGAAAAGAAGAGACTGATTGACCTCCACACCAACGTTGCCACAGCAGTTCTGGACCACATCAAGAGCCGTAAGCTTGACGTGTACTTCGAGTACGAGGAGAAGCTCATGAGCAAATCCACACTCGATAAATCCCTGCTGGACATTATCAGTGACCCTGATGCTGGAACGGCAGAGGATAAGATGAGGCTGTTTCTGATCTACTACATCACTTCCCAGCAGCCCCCATTGGAGGCTGATCTAGAACAGTACAAGAAAGCCATGGTTGATGCAGGCTGCGACCTATCCCCACTTAACTACATTAAACAGTGGAAAGCTTTCACCAAGATGGCTGCGACGCCAGCCAATTACGGGAGCAGTGGAGTGAAACCTATGGGACTGTTCTCAAGGGTGATGAACACCGGCTCCCAGTTTGTGATGGAGGGAGTGAAAAATCTGGTCTTGAAACAGCATAACCTACCGGTTACTCGCATCTTGGACAACTTGATGGAAATGAAGTCAAACCCAGAGACTGATGACTACAGATACTTTGATCCCAAGATGCTTCGTGGAAGCGAGAGCTCCATTCCGAGGAACAAGAACCCCTTTCAGGAGGCTATCGTCTTTGTTGTTGGAGGAGGCAATTACATAGAGTATCAAAATCTTGTTGACTACACAAAGACCAGGCAAGGAAAGCGGATTCTTTATGGCTGTAGTGAGCTGTTCAATGCTGCCCAGTTCATTAAACAGCTCTCTCAGCTTGGTCAGAAATAGGTGGAGTGATGAAGTCCTGTTATCCACCATTCTCAAATCTGGAATCGAGATCTCTTCAGTTGTACTCCATTAAAACCCCTCTAACTACAGAATCATGCATATTTCATTACTGGAGACTGTCTTTCTTAtactatttaattaaattctaaatgttcccaaaaataaagtttaacagtCTTAAGCA

Function

GO:

id name namespace
GO:0006886 intracellular protein transport biological_process
GO:0006888 endoplasmic reticulum to Golgi vesicle-mediated transport biological_process
GO:0034436 glycoprotein transport biological_process
GO:0006904 vesicle docking involved in exocytosis biological_process
GO:0051216 cartilage development biological_process
GO:0016192 vesicle-mediated transport biological_process
GO:0031101 fin regeneration biological_process
GO:0048702 embryonic neurocranium morphogenesis biological_process
GO:0005829 cytosol cellular_component
GO:0000139 Golgi membrane cellular_component
GO:0019905 syntaxin binding molecular_function

KEGG:

id description
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-030116-3 Predicted to enable syntaxin binding activity. Acts upstream of or within several processes, including fin regeneration; glycoprotein transport; and skeletal system development. Predicted to be active in Golgi membrane and cytosol. Is expressed in digestive system; head; myotome; notochord; and pharyngeal arch. Orthologous to human SCFD1 (sec1 family domain containing 1).

Ensembl:

ensembl_id ENSDART00000134735

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00023986 lncRNA downstream 22648 28746633 ~ 28748380 (-) True XLOC_012168
TCONS_00023980 lncRNA downstream 118516 28643458 ~ 28652512 (-) True XLOC_012166
TCONS_00023975 lncRNA downstream 669053 28099707 ~ 28101975 (-) True XLOC_012161
TCONS_00023974 lncRNA downstream 669056 28099707 ~ 28101972 (-) False XLOC_012161
TCONS_00023965 lncRNA downstream 1351767 27414664 ~ 27419261 (-) True XLOC_012159
TCONS_00024913 lncRNA upstream 124177 28921572 ~ 29022478 (-) False XLOC_012172
TCONS_00024914 lncRNA upstream 124177 28921572 ~ 29022679 (-) False XLOC_012172
TCONS_00024915 lncRNA upstream 147186 28944581 ~ 28954033 (-) False XLOC_012172
TCONS_00024916 lncRNA upstream 147186 28944581 ~ 29022499 (-) False XLOC_012172
TCONS_00023991 lncRNA upstream 147186 28944581 ~ 29022501 (-) False XLOC_012172
TCONS_00023987 mRNA downstream 228 28760586 ~ 28770800 (-) True XLOC_012169
TCONS_00023985 mRNA downstream 21388 28743661 ~ 28749640 (-) False XLOC_012168
TCONS_00023982 mRNA downstream 63058 28704199 ~ 28707970 (-) False XLOC_012167
TCONS_00023981 mRNA downstream 63130 28703971 ~ 28707898 (-) False XLOC_012167
TCONS_00023989 mRNA upstream 1330 28798725 ~ 28811747 (-) False XLOC_012171
TCONS_00023992 mRNA upstream 319632 29117027 ~ 29119362 (-) True XLOC_012173
TCONS_00023993 mRNA upstream 326795 29124190 ~ 29194219 (-) False XLOC_012174
TCONS_00023994 mRNA upstream 327093 29124488 ~ 29192987 (-) True XLOC_012174
TCONS_00023995 mRNA upstream 398567 29195962 ~ 29213710 (-) True XLOC_012175
TCONS_00023979 other downstream 146852 28624048 ~ 28624176 (-) True XLOC_012165
TCONS_00023977 other downstream 240446 28530467 ~ 28530582 (-) True XLOC_012163
TCONS_00023956 other downstream 1535562 27214891 ~ 27235466 (-) True XLOC_012154
TCONS_00023954 other downstream 1565222 27203121 ~ 27205806 (-) False XLOC_012154
TCONS_00023944 other downstream 1896988 26867691 ~ 26874040 (-) True XLOC_012148
TCONS_00023990 other upstream 12309 28809704 ~ 28811638 (-) True XLOC_012171
TCONS_00023997 other upstream 418972 29216367 ~ 29224911 (-) True XLOC_012176
TCONS_00024000 other upstream 475568 29272963 ~ 29273081 (-) True XLOC_012179
TCONS_00024004 other upstream 839810 29637205 ~ 29637321 (-) True XLOC_012182
TCONS_00024011 other upstream 1379041 30176436 ~ 30204529 (-) False XLOC_012187

Expression Profile

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Homologous

species RNA id representative length rna type GC content exon number chromosome id location
grasscarp (Ctenopharyngodon idella) CI01000189_01818502_01830933.mRNA True 1641 mRNA 0.46 17 CI01000189 1818397 ~ 1830933 (-)