scfd1 (scfd1,LOC107697716,LOC107719485,LOC107733096)


Basic Information

Item Value
gene id scfd1
gene name scfd1,LOC107697716,LOC107719485,LOC107733096
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047604.1
NCBI id CM018550.1
chromosome length 29376037
location 21515071 ~ 21539136 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_034307950.1
CTGCCTTGAAGCGAATGCTAAACTTTAATGCACCACCTCTAAAAAACACAGCAGTTGAACCAGTATGGAAGGTACTTATTTATGATCGCTTTGGTCAAGACATcatctctccccttctctctgtGAAAGAGTTAAGAGACATGGGAATCACTCTCCACCTATTATTACACTCAGACAGAGATCCTATTCCAGATGTTCCTGCCATTTACTTTGTGATGCCCACAGAGGAGAACATAGACAGGATATGTCAAGACCTGCGGAACCAACTCTATGAGTCGTACTACCTGAACTTTATCTCTGCGATTTCCAGAAGCAAACTAGAAGACATAGCAAGTGCAGCTCTTGCAGCAAATGCTGTGAATCAGGTGACCAAAgTGTTCGATCAGTATTTGAACTTCATAACACTAGAAGATGACATGTTTGTCCTCTGCAATCAGAATAAAGAACAGATCTCCTATCACGCAATCAACAAACCGGATATTATGGACACTGATATGGAGGCTATAATGGACACCATTGTTGACAGTCTCTTCTGCTTCTTTGTCACTCTTGGTGCTGTTCCAATAATCAGATGTCCAAGAGGAAACGCAGCTGAAATGGTAGCTGTGAAACTTGACAAGAAACTGAGAGAGAATTTGCGAGATGCTCGTAACAGCCTGTTTACTGGTGACACCATGGGCACAGGCCAGTTTAGTTTCCAGAGGCCGTTATTTGTTCTTGCCGACCGCAACCTGGATCTTGCcaccccactccatcatacaTGGACCTACCAAGCTCTCATTCATGACGTCTTGGACTTCCATCTGAACAGGGTCAGTCTGGAGGAATCTACAGGATCAGAAGTTAGCCCAGCAGGGGCACGGcccaaaaaaaagaacaaaaagagcTATGATCTCACTGCTGCAGACAAGTTTTGGCAGAAGCACAAAGGAAGCCCATTCCCTGAGGTCGCAGAATCAGTGCAGGAGGAGTTGGATACGTACAGAGCCCAGGAGGATGAGGTTAAGCGTCTAAAGAGCATCATGGGCTTAGAAGGGGAAGATGAGGGAGCCATTAGCATGTTGTCAGACAACACTGCCAAACTTACATCAGCCGTCAGTTCTCTTCCTGAACttttagagaaaaagagactgaTTGACCTCCACACCAATGTTGCTACAGCAGTTTTGGACCACATTAAGTCTCGCAAGCTGGATGTATACTTTGAGTATGAGGAGAAGCTAATGAGCAAGTCCACACTGGATAAATCCCTGCTGGACATTATCAGTGACCCTGATGCTGGAACACCAGAGGATAAGATGAGACTTTTCCTGATCTACTATATCACCTCCCAGCAGCCTCCATCTGAGGGTGATCTTGAGCAATATAAAAGGGCTTTGACTGATGCTGGCTGTGACCTCTCCCCCTTGAACTACATAAAGCAGTGGAAAGCTTTCACAAAGATGGCTACTGCACCAGCCAGTTATGGTAACAGTGGAGTGAAACCAATGGGCCTTTTCTCCAGAGTCATGAACACTGGCTCACAATTCGTTATGGAAGGTGTGAAAAATTTGGTCTTGAAACAGCATaaTTTGCCAGTTACTCGAATCTTGGACAACCTGATGGACATGAAGTCAAATCCGGAAACAGATGACTACAGATACTTTGACCCAAAAATGCTGCGCGGCAGTGAAAGttCCATTCCAAGGAACAAGAACCCATTTCAAGAGGCCATTGTTTTTGTCGTTGGTGGGGGTAACTACATAGAATATCAAAATCTCGTCGACTACACAAGGGCCAAGCAGGGGAAAAAGGTGATGTATGGCTGCAGTGAGCTGTTCAGTGCAGCACAATTCCTGAAACAGCTCTCTCAACTGGGGCAGAAGTAGGTCTAACCTTGGGAATcctgtttttcctgctttcaaatCTGTTGTCAACTCCTCTCCATTTATACACCATTGTCCTTCTAACAACTCAATTGCTAATGTTCCATATACTTTATAATGTTTAGCGTATGGTTatttaatgaaacaaataataCAACTGTCAATAAAGTTTGAATCTCTCACAAAGTA
>XM_034307951.1
TCAACCTTGTTTGAATATTAGCCGCTCGGCCGTTAGATGCCGCTGTGCTCGCGTGCCTAGCTGCCACGTCACCCGCCACCCTGTCAGTGCATAAATAGTAAAGATGGCGGCCTCCATCCGGGAAAAACAGACAGCTGCCTTGAAGCGAATGCTAAACTTTAATGCACCACCTCTAAAAAACACAGCAGTTGAACCAGTATGGAAGGTACTTATTTATGATCGCTTTGGTCAAGACATcatctctccccttctctctgtGAAAGAGTTAAGAGACATGGGAATCACTCTCCACCTATTATTACACTCAGACAGAGATCCTATTCCAGATGTTCCTGCCATTTACTTTGTGATGCCCACAGAGGAGAACATAGACAGGATATGTCAAGACCTGCGGAACCAACTCTATGAGTCGTACTACCTGAACTTTATCTCTGCGATTTCCAGAAGCAAACTAGAAGACATAGCAAGTGCAGCTCTTGCAGCAAATGCTGTGAATCAGGTGACCAAAgTGTTCGATCAGTATTTGAACTTCATAACACTAGAAGATGACATGTTTGTCCTCTGCAATCAGAATAAAGAACAGATCTCCTATCACGCAATCAACAAACCGGATATTATGGACACTGATATGGAGGCTATAATGGACACCATTGTTGACAGTCTCTTCTGCTTCTTTGTCACTCTTGGTGCTGTTCCAATAATCAGATGTCCAAGAGGAAACGCAGCTGAAATGGTAGCTGTGAAACTTGACAAGAAACTGAGAGAGAATTTGCGAGATGCTCGTAACAGCCTGTTTACTGGTGACACCATGGGCACAGGCCAGTTTAGTTTCCAGAGGCCGTTATTTGTTCTTGCCGACCGCAACCTGGATCTTGCcaccccactccatcatacaTGGACCTACCAAGCTCTCATTCATGACGTCTTGGACTTCCATCTGAACAGGGTCAGTCTGGAGGAATCTACAGGATCAGAAGTTAGCCCAGCAGGGGCACGGcccaaaaaaaagaacaaaaagagcTATGATCTCACTGCTGCAGACAAGTTTTGGCAGAAGCACAAAGGAAGCCCATTCCCTGAGGTCGCAGAATCAGTGCAGGAGGAGTTGGATACGTACAGAGCCCAGGAGGATGAGGTTAAGCGTCTAAAGAGCATCATGGGCTTAGAAGGGGAAGATGAGGGAGCCATTAGCATGTTGTCAGACAACACTGCCAAACTTACATCAGCCGTCAGTTCTCTTCCTGAACttttagagaaaaagagactgaTTGACCTCCACACCAATGTTGCTACAGCAGTTTTGGACCACATTAAGTCTCGCAAGCTGGATGTATACTTTGAGTATGAGGAGAAGCTAATGAGCAAGTCCACACTGGATAAATCCCTGCTGGACATTATCAGTGACCCTGATGCTGGAACACCAGAGGATAAGATGAGACTTTTCCTGATCTACTATATCACCTCCCAGCAGCCTCCATCTGAGGGTGATCTTGAGCAATATAAAAGGGCTTTGACTGATGCTGGCTGTGACCTCTCCCCCTTGAACTACATAAAGCAGTGGAAAGCTTTCACAAAGATGGCTACTGCACCAGCCAGTTATGGTAACAGTGGAGTGAAACCAATGGGCCTTTTCTCCAGAGTCATGAACACTGGCTCACAATTCGTTATGGAAGGTGTGAAAAATTTGGTCTTGAAACAGCATaaTTTGCCAGTTACTCGAATCTTGGACAACCTGATGGACATGAAGTCAAATCCGGAAACAGATGACTACAGATACTTTGACCCAAAAATGCTGCGCGGCAGTGAAAGttCCATTCCAAGGAACAAGAACCCATTTCAAGAGGCCATTGTTTTTGTCGTTGGTGGGGGTAACTACATAGAATATCAAAATCTCGTCGACTACACAAGGGCCAAGCAGGGGAAAAAGGTGATGTATGGCTGCAGTGAGCTGTTCAGTGCAGCACAATTCCTGAAACAGCTCTCTCAACTGGGGCAGAAGTAG

Function

symbol description
scfd1 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).

NR:

description
sec1 family domain-containing protein 1

GO:

id name namespace
GO:0006904 vesicle docking involved in exocytosis biological_process
GO:0031101 fin regeneration biological_process

KEGG:

id description
K19998 SCFD1, SLY1; sec1 family domain-containing protein 1

RNA

RNA id representative length rna type GC content exon number start site end site
XM_034307950.1 True 2054 mRNA 0.44 24 21517523 21539136
XM_034307951.1 False 2002 mRNA 0.46 25 21515071 21538950

Neighbor

gene id symbol gene type direction distance location
g2e3 g2e3 coding upstream 4988 21499733 ~ 21510083 (+)
foxg1a foxg1,LOC106611199 coding upstream 194657 21301911 ~ 21320414 (+)
LOC117598249 sptbn5 coding upstream 219048 21289832 ~ 21296023 (+)
sptbn5 sptbn5 coding upstream 225263 21250285 ~ 21289808 (+)
ehd4 ehd4,LOC108270320,LOC108430677,LOC107697720,LOC107694734,LOC107582305,LOC107719481 coding upstream 268216 21230925 ~ 21246855 (+)
coch coch coding downstream 11257 21550393 ~ 21556431 (+)
ap4s1 ap4s1,LOC107590907,LOC107582370,LOC107733114,LOC107694810 coding downstream 51272 21590408 ~ 21598665 (+)
LOC113529717 klhdc1 coding downstream 607990 22147126 ~ 22171181 (+)
klhdc2 klhdc2 coding downstream 644627 22183763 ~ 22198891 (+)
LOC113529714 mok coding downstream 701879 22241015 ~ 22254268 (+)
G169320 NA non-coding upstream 318779 21191166 ~ 21196292 (+)
G169287 ankrd9 non-coding upstream 331293 21181857 ~ 21183778 (+)
LOC117598333 NA non-coding upstream 407672 21104943 ~ 21107399 (+)
G169046 LOC103382302,LOC107666446,LOC107678759,LOC105907633 non-coding upstream 672897 20832846 ~ 20842174 (+)
G169045 LOC108270194 non-coding upstream 691688 20741344 ~ 20823383 (+)
G169543 NA non-coding downstream 114 21539250 ~ 21539498 (+)
G169575 NA non-coding downstream 112505 21651641 ~ 21651902 (+)
G169652 NA non-coding downstream 229028 21768164 ~ 21768718 (+)
LOC117598284 NA non-coding downstream 302480 21841616 ~ 21843598 (+)
G169850 NA non-coding downstream 550338 22089474 ~ 22089698 (+)
LOC113530103 LOC108269986 other upstream 983849 20521595 ~ 20531222 (+)
fsip1 fsip1 other upstream 1061266 20365174 ~ 20453805 (+)
zbtb42 zbtb42,LOC106610857,LOC106582697 other upstream 1366443 20142714 ~ 20148628 (+)
G168650 cep170b other upstream 1472136 20042477 ~ 20042935 (+)
LOC113538658 NA other upstream 1592585 19913343 ~ 19922486 (+)
G169577 heatr5a,LOC108412624 other downstream 130771 21669907 ~ 21674461 (+)
im:7136021 LOC108270035 other downstream 221635 21760771 ~ 21766373 (+)
G169692 LOC107990201 other downstream 280145 21819281 ~ 21820059 (+)
LOC113533992 gphna,gphn,LOC108270253,LOC108443923,LOC107752769,LOC107657705,LOC107733155 other downstream 1322671 22861807 ~ 23022395 (+)
kdm1a kdm1a other downstream 2924330 24463466 ~ 24482854 (+)

Expression


Co-expression Network