XLOC_009297 (slc6a4a)


Basic Information

Item Value
gene id XLOC_009297
gene name slc6a4a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

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

Sequence

>TCONS_00018271
CCCCCTTCTCCAGGCTCTCTATCCCCTCATGGGCACGATATCAGTCAGTGCAAGAGGACCACCATCTCAACCCTAACAGCAGTCCTCACCATGGATATGAAAGAGTCGATGATGATGAATCAAGAGTACGGGGGAGAGCAGCAGAAAGTGCCGGAGTCTCAAGAGAACGGCAGGCTGGTTGTGGATAGCGTTCCGGAGAAGGATCAGAAATCTGGCTCTGGGCCTGGGCAAGTCTCCAATGGTTATCGCAGTACATCTCCTCAAAGCCCCAAAGAAGGTGCGGGCACTGGGACGGACAGGGTCAATACCCCTGGAACATTTAGGACTCTGGTGGTCCAACAGACGAGCCTTGATCCACCTAGGGAGACCTGGAGCAAAAAGATGGACTTCTTGTTGTCGGTCATCGGGTATGCAGTGGACCTGGGCAATGTGTGGCGCTTTCCCTACATCTGCTACCAAAATGGAGGGGGTGCCTTTCTCTTGCcgtatcttctgatggctgtgtTTGGGGGTGTGCCACTGTTCTACATGGAACTGGCTTTGGGCCAGTTTCACCGCAGTGGGTGCATCTCCATCTGGAAACACGTCTGCCCCATCTTCAAGGGTATAGGCTTTGCCATCTGCATTATTGCACTCTACATTGCCTTCTACTATAATACCATAATGGCCTGGGCCCTCTACTATCTCCTGTCCTCTTTTCGAGCCACGTTGCCCTGGACCACCTGCAACAACCGATGGAACACTCCCAACTGCACCCACTACCTGTCCACTGACTTAAATGTCTCCTGGACCAACAACTCAATCTCTCCCGCTGAAGAGTTTTATGTCCGGCAGGTGTTGCAGGTTCATCTATCTCCTGGTCTTCATCAACTGGGCTGGGTGAGCTGGCAGCTAGCCCTTTGTCTTTTGTTCATCTTTACTGTTGTCTACTTCAGCATCTGGAAGGGGGTCAAGACCTCTGGCAAGGTAGTTTGGGTAACGGCTACCTTCCCGTACCTGGTGTTGCTGATCCTGTTGATAAGAGGGGCCACCCTGCCAGGAGCATGGAGAGGAGTTGTCTTCTACCTGAAACCTGATTGGAAAAAACTTCTAACCACTACAgtttggCTTGATGCAGCTGCACAGATCTTCTTTTCTCTGGGTCCAGGCTTTGGTGTTCTCCTGGCCTTTGCCAGCTACAATCCCTTTCATAACAACTGCTACAAGGATGCTTTGATCACAAGCTCGGTTAACTGTTTGACCAGTTTCCTGTCAGGCTTTGTGATTTTCACCGTACTGGGATACATGGCAGAGATGCGCCAACAAGGAGTGGAGACTGTAGCCAAGGATGCTGgTCCCAGTCTGCTCTTCATCATCTATGCTGAGGCTATTGCCAATATGCCAGCTGCAACATTCTTCGCCATCATATTCTTTCTCATGATAATTATGCTGGGGCTGGACAGCACGTTTGCAGGTCTGGAAGGGGTAATTACAGCCATGTTGGACGAGTTCCCCCACCTGTTGGCCAGGAGGAGAGAATGGTTTGTGCTTGGCCTGGTGTGTGTCTGTTATTTGGGTGCCCTCTCCACTCTAACCTACGGAGGTGCGTTTGTTGTTAAACTATTTGAGGAGTACGCCACAGGCCCCGCTGTTATCACCGTTGTCTTCCTTGAGGTTATTGCTGTTTCCTGGTTCTATGGGACAACACGTTTCTGCAATGATGTACAGCTGATGCTTGGCTTCGCCCCTGGTCTGTTCTGGAGGGTCTGCTGGATAGCCATCTGTCCTTGCTTCCTATTGTTCATTATTGTGAGTTTCCTGGCATTCCCTCCTGAAGTGAAGCTGTTTGATTACCTGTACCCTTTCTGGACCACGGTCCTTGGTTACTGTATTGGAGTCTCTTCCTTCATCTGTGTGCCTTCCTACATGGTCTACCATCTGGTCACCACTAAAGGGACCTTCCAACAGCGTCTGCTAAAGGGTATTACCCCCGAGGCTCCAGGCTCCAGTGGCCCTCAGAGAGACACAATTGTCATTACCAACGCCGTGTGATGCATTTGGTCCTCTGCTGGACATGTAGCACAAACACAGGGGACCCGTGGCCCCTTTAAGAGCCCCGGCCGACCTCCCTTCACACCTCACCCAAAAGGAGTCTGCTACCTGTATTGTGTGACGGTGAGGCCAGGT
>TCONS_00018273
TAATTTCCTGTTTCACCATGCAAGGGGAGTGCATGAAAGATAGAGCTACCCGCTCAGCGCAACCAACAACCATTAATTGTGGCTCTCGAGGGTTGGACTTTCTCATATTGTTTAATAATCTGGCTCACTGCCGCTCAATCAACAGCTATCTAGTGTTCAAGTCAAAAGCACGCAAAGCTTTAATCAAGCACTGGGGGCTTGTCTGAACAAGAACATCTTGTGTATGTTAGCATCCTTTATGCCCTTTTTGTAGGTATAATAGTGCTTTCAGGATGTGTTAAAACCAATGCAATGGAATCGTGAAGTTTTAAGTTTTACTTCCTGTCTAAATCTTTGTACTTCAGGTGCCTTTCTCTTGCcgtatcttctgatggctgtgtTTGGGGGTGTGCCACTGTTCTACATGGAACTGGCTTTGGGCCAGTTTCACCGCAGTGGGTGCATCTCCATCTGGAAACACGTCTGCCCCATCTTCAAGGGTATAGGCTTTGCCATCTGCATTATTGCACTCTACATTGCCTTCTACTATAATACCATAATGGCCTGGGCCCTCTACTATCTCCTGTCCTCTTTTCGAGCCACGTTGCCCTGGACCACCTGCAACAACCGATGGAACACTCCCAACTGCACCCACTACCTGTCCACTGACTTAAATGTCTCCTGGACCAACAACTC
>TCONS_00018272
CAAAGCCCCAAAGAAGGTGCGGGCACTGGGACGGACAGGGTCAATACCCCTGGAACATTTAGGACTCTGGTGGTCCAACAGACGAGCCTTGATCCACCTAGGGAGACCTGGAGCAAAAAGATGGACTTCTTGTTGTCGGTCATCGGGTATGCAGTGGACCTGGGCAATGTGTGGCGCTTTCCCTACATCTGCTACCAAAATGGAGGGGGTGCCTTTCTCTTGCcgtatcttctgatggctgtgtTTGGGGGTGTGCCACTGTTCTACATGGAACTGGCTTTGGGCCAGTTTCACCGCAGTGGGTGCATCTCCATCTGGAAACACGTCTGCCCCATCTTCAAGGGTATAGGCTTTGCCATCTGCATTATTGCACTCTACATTGCCTTCTACTATAATACCATAATGGCCTGGGCCCTCTACTATCTCCTGTCCTCTTTTCGAGCCACGTTGCCCTGGACCACCTGCAACAACCGATGGAACACTCCCAACTGCACCCACTACCTGTCCACTGACTTAAATGTCTCCTGGACCAACAACTC

Function

symbol description
slc6a4a 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).

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 ENSDARG00000061165

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00018271 False 2166 mRNA 0.51 13 28609025 28618502
TCONS_00018273 False 675 lncRNA 0.46 2 28616724 28617733
TCONS_00018272 True 539 lncRNA 0.53 3 28616724 28618241

Neighbor

gene id symbol gene type direction distance location
XLOC_009296 NA coding downstream 12516 28594543 ~ 28596509 (-)
XLOC_009295 ssh2a coding downstream 21535 28545143 ~ 28587490 (-)
XLOC_009294 NA coding downstream 67259 28500046 ~ 28541766 (-)
XLOC_009293 git1 coding downstream 128449 28431621 ~ 28480576 (-)
XLOC_009292 CR478288.2 coding downstream 233398 28375513 ~ 28375627 (-)
XLOC_009298 blmh coding upstream 16078 28634580 ~ 28805493 (-)
XLOC_009299 BX950186.1 coding upstream 116425 28734927 ~ 28735041 (-)
XLOC_009300 NA coding upstream 139953 28758455 ~ 28772574 (-)
XLOC_009301 gpr4 coding upstream 204234 28822736 ~ 28860282 (-)
XLOC_009302 eml2 coding upstream 255939 28874441 ~ 28908027 (-)
XLOC_009291 CR478288.1 non-coding downstream 251153 28356845 ~ 28357872 (-)
XLOC_009284 NA non-coding downstream 593897 28010730 ~ 28015128 (-)
XLOC_009303 NA non-coding upstream 386542 29005044 ~ 29009059 (-)
XLOC_009312 NA non-coding upstream 917982 29536484 ~ 29539166 (-)
XLOC_009316 CR388369.1 non-coding upstream 1031013 29649515 ~ 29665812 (-)

Expression


Co-expression Network