scfd1 (scfd1,LOC107697716,LOC107719485)


Basic Information

Item Value
gene id scfd1
gene name scfd1,LOC107697716,LOC107719485
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035905.1
NCBI id CM008308.1
chromosome length 42966623
location 3825628 ~ 3853124 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_022672610.1
GGTGGTGCCCCTTCTTCCTCCTCCGCTGCCACGTCACCCGCCGACTCACCACCGCATAAATAGTAAAGATGGCGGCGTCCATCCGGGAGAAACAGACAGCTGCCCTCAAGCGAATGCTAAATTTTAACGCCCCACCCCTGAAAAATACAGCAGCTGAACCAGTATGGAAGGTCCTTATTTACGATCGCTTTGGCCAAGATATCATCTCTCCCCTTCTGTCTGTGAAAGAGTTAAGAGACATGGGGATCACTCTTCACCTATTATTGCACTCAGACCGAGATCCCATTCCAGATGTCCCTGCCATTTACTTTGTAATGCCAACAGAGGAGAACATAGACAGGATATGTCAGGACCTGCGGAACCAACTTTATGAGTCCTACTACCTGAACTTTATCTCAGCAATCTCCAGAAGCAAACTGGAGGATATTGCAAGTTCTGCTCTTGCAGCAAATGCTGTGAACCAGGTGACCAAAGTGTTTGATCAATATTTGAACTTCATCACACTAGAAGATGACATGTTTGTCCTCTGCAATCAAAACAAAGAACAGATATCTTATCATGCGATCAATAAGCCAGATATCATGGACACAGATATGGAGGCTATAATGGATACTATTGTGGACAGTCTGTTCTGCTTCTTTGTTACTCTCGGTGCTGTCCCAATAATCCGATGTCCCAGAGGGAACGCAGCAgaaatggttgctgtgaaacttgacaAGAAACTGAGAGAGAATTTGCGAGATGCGCGCAACAGTCTGTTCACCGGAGATACCATGGGCGCTGGCCAGTTCagtttccaGAGGCCGCTATTTGTTCTTGCCGACCGCAACCTGGATCTTGCCACCCCACTCCATCACACATGGACCTACCAAGCCCTCATTCATGACGTCTTGGACCTGCACTTGAACAGGGTCAGTTTGGAGGAGTCTCCAGGGTCCGAGGTCAGTCCGGCAGGGGCTCGACCcaaaaagaagaataagaaaAGCTATGATCTCACTGCTGCTGACAAGTTTTGGCAGAAGCACAAAGGAAGccCGTTCCCAGAGGTTGCAGAATCGGTGCAGGAAGAGTTGGATAAGTACAGAGCCCAGGAAGAAGAGGTCAAGCGTCTAAAGAGCATCATGGGTTTAGAAGGGGAGGATGAGGGAGCCATTAGCATGTTGTCGGATAACACTGCCAAACTTACCTCAGCTGTTAGTTCTCTTCCCGAGCTCCTAGAGAAGAAGAGACTGATTGACCTCCACACCAACGTTGCCACAGCAGTTCTCGACCACATCAAGTCTCGCAAGCTGGATGTGTACTTTGAATATGAGGAAAAGCTAATGAGCAAATCGACTCTGGACAAATCTCTTCTGGACATCATCACTGACCCTGATGCTGGTACCCCAGAGGATAAGATGAGACTCTTCCTGATCTACTACATCACCTCCCAGCAACCCCCATCTGAGggAGATCTGGAGCAGTACAAAAAGGCTTTGATTGACGCTGGCTGTGACCTCTCACCCTTGAACTACATAAAGCAGTGGAAGGCTTTCACGAAGATGGCAGCCGCGCCAGCCAATTACGGCAACAGTGGAGTGAAACCAATGGGCCTTTTCTCCCGAGTGATGAACACTGGTTCGCAATTCGTTATGGAAGGGGTGAAGAATCTGGTGTTGAAACAGCATAATTTACCAGTTACTCGGATCTTGGACAACTTGATGGACATGAAATCAAATCCGgagaCAGATGACTACAGGTACTTTGATCCAAAGATGCTGCGCGGCAGTGAAAGCTCCATTCCAAGGAACAAGAACCCCTTTCTGGAGgcCATTGTGTTTGTCGTTGGTGGAGGCAACTATATAGAATACCAGAATCTTGTTGACTACGCAAAGgcaaaaCAGGGGAAGAGAGTGCTGTACGGTTGTAGTGAGCTGTTCAGTGCAGCACAGTTCACTAAACAGCTTTCCCAACTGGGCCAGAAGTAGGACACACCCAGTGTCCCAAATCTCAAGCATTTAAACCTGCAATGAAATCTTCTCCATACACCGCTGTCCTTCTAACAACAGAAATGATGATGTTCTGATATTCCATGTTCTTTATAATCCTTTATAATTCCAtgttctttacttttatttaatgaagTCACTTGGTTAACTCTCTCAACAATAAAGTTTAACAGTCTTACACAAAA

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_022672610.1 True 2173 mRNA 0.47 25 3825628 3853124

Neighbor

gene id symbol gene type direction distance location
foxg1 foxg1,foxg1a,LOC107590911 coding upstream 340966 3482138 ~ 3484662 (+)
LOC103028182 sptbn5 coding upstream 349867 3396459 ~ 3475761 (+)
trnav-cac_1 NA coding upstream 405629 3419927 ~ 3419999 (+)
trnav-aac_3 NA coding upstream 408717 3416839 ~ 3416911 (+)
trnav-aac_2 NA coding upstream 409388 3416168 ~ 3416240 (+)
LOC103022404 LOC108430680 coding downstream 482 3853606 ~ 3858455 (+)
coch coch coding downstream 15429 3868553 ~ 3879318 (+)
ap4s1 ap4s1,LOC107582370,LOC107590907,LOC107733114 coding downstream 54774 3907898 ~ 3915777 (+)
LOC103044683 NA coding downstream 154391 4007515 ~ 4011258 (+)
klhdc1 klhdc1 coding downstream 445672 4298796 ~ 4308409 (+)
G77847 NA non-coding upstream 276013 3542252 ~ 3549615 (+)
G77817 NA non-coding upstream 430752 3394380 ~ 3394876 (+)
G77804 NA non-coding upstream 524957 3260466 ~ 3300671 (+)
G77808 NA non-coding upstream 528186 3220621 ~ 3297442 (+)
G77799 NA non-coding upstream 612763 3212557 ~ 3212865 (+)
G77961 hectd1,LOC107694830 non-coding downstream 63680 3916804 ~ 3921829 (+)
G78053 NA non-coding downstream 159626 4012750 ~ 4013009 (+)
G78055 NA non-coding downstream 179139 4032263 ~ 4032562 (+)
G78057 NA non-coding downstream 183190 4036314 ~ 4036575 (+)
G78059 NA non-coding downstream 192313 4045437 ~ 4104875 (+)
g2e3 g2e3 other upstream 756 3765780 ~ 3824872 (+)
traf3 traf3,LOC107719479,LOC107694716,LOC107733154,LOC107590913 other upstream 465884 3322085 ~ 3359744 (+)
G77722 NA other upstream 847534 2900134 ~ 2978094 (+)
LOC103031026 NA other upstream 1361307 2458445 ~ 2464321 (+)
LOC103033080 akt1,zbtb42,LOC107716055,LOC106610857,LOC106582697 other upstream 1816210 1912532 ~ 2009418 (+)
G78111 pole2 other downstream 436383 4289507 ~ 4298184 (+)
LOC103025550 qkia,LOC108413473,LOC107721620,LOC107590898,LOC107697705,LOC103376478,LOC108269894 other downstream 1598991 5452115 ~ 5530055 (+)
LOC103024862 LOC108430185 other downstream 3004230 6857354 ~ 6872405 (+)
G78671 LOC107659230,LOC107583602 other downstream 3741583 7594707 ~ 7607664 (+)
fam167b LOC108433301,LOC101067225 other downstream 3803183 7656307 ~ 7729001 (+)

Expression


Co-expression Network