RNA id: TCONS_00018272


Basic Information

Item Value
RNA id TCONS_00018272
length 539
lncRNA type retained_intron
GC content 0.53
exon number 3
gene id XLOC_009297
representative True

Chromosome Information

Item Value
chromosome id NC_007126.7
NCBI id CM002899.2
chromosome length 48040578
location 28609025 ~ 28618502 (-)
genome version GRCz11_2017_zebrafish_Genome
species zebrafish
(Danio rerio)

Sequence

CAAAGCCCCAAAGAAGGTGCGGGCACTGGGACGGACAGGGTCAATACCCCTGGAACATTTAGGACTCTGGTGGTCCAACAGACGAGCCTTGATCCACCTAGGGAGACCTGGAGCAAAAAGATGGACTTCTTGTTGTCGGTCATCGGGTATGCAGTGGACCTGGGCAATGTGTGGCGCTTTCCCTACATCTGCTACCAAAATGGAGGGGGTGCCTTTCTCTTGCcgtatcttctgatggctgtgtTTGGGGGTGTGCCACTGTTCTACATGGAACTGGCTTTGGGCCAGTTTCACCGCAGTGGGTGCATCTCCATCTGGAAACACGTCTGCCCCATCTTCAAGGGTATAGGCTTTGCCATCTGCATTATTGCACTCTACATTGCCTTCTACTATAATACCATAATGGCCTGGGCCCTCTACTATCTCCTGTCCTCTTTTCGAGCCACGTTGCCCTGGACCACCTGCAACAACCGATGGAACACTCCCAACTGCACCCACTACCTGTCCACTGACTTAAATGTCTCCTGGACCAACAACTC

Function

GO:

id name namespace
GO:0051610 serotonin uptake biological_process
GO:0006810 transport biological_process
GO:0006837 serotonin transport biological_process
GO:0035725 sodium ion transmembrane transport biological_process
GO:0043005 neuron projection cellular_component
GO:0005886 plasma membrane cellular_component
GO:0016020 membrane cellular_component
GO:0016021 integral component of membrane cellular_component
GO:0015293 symporter activity molecular_function
GO:0005328 neurotransmitter molecular_function
GO:0005335 serotonin molecular_function
GO:0051378 serotonin binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-060314-1 Enables serotonin:sodium symporter activity. Acts upstream of or within serotonin transport. Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in neuron projection. Predicted to be integral component of plasma membrane. Is expressed in brain; pharynx; and spinal cord. Human ortholog(s) of this gene implicated in several diseases, including alcohol use disorder; alexithymia; anxiety disorder (multiple); heart disease (multiple); and mental depression (multiple). Orthologous to human SLC6A4 (solute carrier family 6 member 4).

Ensembl:

ensembl_id ENSDART00000152317

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TCONS_00018270 lncRNA downstream 20215 28594543 ~ 28596509 (-) True XLOC_009296
TCONS_00019185 lncRNA downstream 20240 28594543 ~ 28596484 (-) False XLOC_009296
TCONS_00019184 lncRNA downstream 74958 28500046 ~ 28541766 (-) True XLOC_009294
TCONS_00018263 lncRNA downstream 258852 28356845 ~ 28357872 (-) True XLOC_009291
TCONS_00019183 lncRNA downstream 601596 28010730 ~ 28015128 (-) True XLOC_009284
TCONS_00019186 lncRNA upstream 89046 28707287 ~ 28785593 (-) False XLOC_009298
TCONS_00019187 lncRNA upstream 95851 28714092 ~ 28785593 (-) False XLOC_009298
TCONS_00019188 lncRNA upstream 108656 28726897 ~ 28785593 (-) False XLOC_009298
TCONS_00019190 lncRNA upstream 140214 28758455 ~ 28772574 (-) False XLOC_009300
TCONS_00019189 lncRNA upstream 140214 28758455 ~ 28772574 (-) True XLOC_009300
TCONS_00018268 mRNA downstream 29234 28545143 ~ 28587490 (-) False XLOC_009295
TCONS_00018269 mRNA downstream 29577 28548628 ~ 28587147 (-) True XLOC_009295
TCONS_00018267 mRNA downstream 46938 28545143 ~ 28569786 (-) False XLOC_009295
TCONS_00018265 mRNA downstream 136148 28431621 ~ 28480576 (-) False XLOC_009293
TCONS_00018266 mRNA downstream 136178 28431663 ~ 28480546 (-) True XLOC_009293
TCONS_00018274 mRNA upstream 16339 28634580 ~ 28677725 (-) False XLOC_009298
TCONS_00018275 mRNA upstream 56236 28674477 ~ 28785512 (-) False XLOC_009298
TCONS_00018277 mRNA upstream 164460 28782701 ~ 28793163 (-) False XLOC_009298
TCONS_00018278 mRNA upstream 167170 28785411 ~ 28805493 (-) False XLOC_009298
TCONS_00018279 mRNA upstream 168646 28786887 ~ 28802260 (-) False XLOC_009298
TCONS_00018264 other downstream 241097 28375513 ~ 28375627 (-) True XLOC_009292
TCONS_00018243 other downstream 693631 27922978 ~ 27923093 (-) True XLOC_009281
TCONS_00018240 other downstream 962432 27654176 ~ 27654292 (-) True XLOC_009277
TCONS_00018239 other downstream 970188 27646419 ~ 27646536 (-) True XLOC_009276
TCONS_00018201 other downstream 2317977 26298629 ~ 26298747 (-) True XLOC_009260
TCONS_00018276 other upstream 116686 28734927 ~ 28735041 (-) True XLOC_009299
TCONS_00018305 other upstream 766892 29385133 ~ 29386439 (-) True XLOC_009309
TCONS_00018320 other upstream 1051951 29670192 ~ 29670306 (-) True XLOC_009318
TCONS_00018322 other upstream 1259033 29877274 ~ 29877388 (-) True XLOC_009321
TCONS_00018344 other upstream 2226148 30844389 ~ 30849163 (-) True XLOC_009328

Expression Profile

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