smc1a (smc1a,LOC107586531,LOC107716226,LOC107695786)


Basic Information

Item Value
gene id smc1a
gene name smc1a,LOC107586531,LOC107716226,LOC107695786
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035911.1
NCBI id CM008314.1
chromosome length 35718434
location 6787909 ~ 6809368 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_007246777.3
GCGCTGCTGAGGGGGGCGTGTGCGGGGGGTTTATACTAGAATATATGGTATTTTTAATGCAGGAATATTTAAAAACGCGTTTTCTGCGGCGTTAAGGACGGACAGCAGCATTTAGAGCAGAGCTGGACTTTAATTTATCGATAGGTGGAGAAACAGAGCTCATTTAAACGGAGTAAAAGATGGGTTATTTAAAACTAATCGAGATAGAAAATTTTAAATCCTACAAAGGTCGACAGATAATAGGACCTTTCCACAAATTTACAGCAATAATCGGACCTAATGGATCAGGAAAATCAAACTTGATGGATGCCATCAGCTTTGTTCTGGCAGAAAAGACCAGTAACCTGCGTGTGAAGACCCTTAAAGATCTTATCCATGGTGCACCGGTGGGGAAACCAGCAGCTAATCGTGCATTTGTGAGCATGGTGTACTGTGAGGAGAATGCTGATGAACGCACGTTCACTCGAGTTATAATAGGCTCCTCTTCAGAATACCGGATTGACAGTAAGGTGGTGAGCTTGTCTGATTACAGTGAGGAACTAGAGAAACTGGGTATACTCATCAAGGCCAGAAACTTTCTAGTGTTTCAGGGAGCTGTAGAATCGATAGCCATGAAGAACCCGAAGGAGAGGACGGCTCTGTTTGAGGAGATCTCCCGCTCTGGGGAGCTGGCTCAGGAGTATGACCGCAGGAAGAAGGAGATGGTGAAAGCTGAGGAGGACACGCAGTTTAACTACCACCGCAAGAAGAACATCGCAGCTGAGAGGAAAGAGGCCAAGCAGGAGAAAGAGGAGGCTGAACGCTACCAGAGGCTGAAGGACGAGGTGGTGAGGGCTCACGTTCAGCTGCAGCTCTTCAAACTCTACCACAACGAGGCAGAGATCGAGAAGCTGAATAAAGAGCTGTCTCAGCGCAACCGGGAGATCGAGAAAGACAGGAAAAAGATGGACCACATCGAAGAGGAActgaaggagaagaaaaaagaactgGGGAGGATGATGAGGGACCAGCAGAATGTGGAGAAAGAGATAAAAGAGAAGGATGCTGAGCTGAACCAGAAACGGCCTCTGTACATCAAAGCCAAGGAGAACACGTCTCACAAGATAAAGAAGCTGGAGGCGGCGCGGAAGTCTCTGCAGAACGCTCAGAAGATGTACAAGAAGCGCAAGGCAGACATGGACGAGCTGGACCGAGAGCAGGGGGCTGTGGAGACGGCCAGGCAGGAGTTTGAGGAGCGAATGGAGGAGGAGGCTCAGAGTCAAGGTCAAGACCTCACCCTGGAGGAGAACCAGGTGAAGCAGTATCACAGGCTGAAGGAAGAGGCCAGTAAGCGGGCAGCCACGCTGGCACAGGAGCTGGAGAAGTTCAACCGCGATCAAAAGGCTGACCAGGACAGACTGGACCtagaggagaggaagaaagtGGAAACAGAGGccaaaataaagcagaaaataCGAGAGATCGAGGAGAACCAGAAGCGCATTGAGAAGCTGGAGGATTATATTGCCACAAGCagGCAGTCTCTGGATGAGCAGAGGAGAATGGAGGAGGAGCTGACTGAGGAAGTGGAGCTcgctaaaagaaggattgatgaGATAAATATGGAATTAAATCAGGTGATGGAGCAGCTCGGGGACGCTAGAATTGACCGTCAGGAGAACAGTCGTCAGCAGCGTAAAGCTGAGATCATGGAGAGCATTAAGAGGCTCTACCCCGGCTCTGTGTATGGGCGGCTGATTGACCTGTGCCAGCCCACGCAGAAGAAGTATCAGATCGCTGTGACGAAGGTGCTGGGGAAGAACATGGACGCTATCATAGTGGACTCAGAGAAGACAGGCAGAGACTGCATCCAGTACATCAAAGAGCAGAGAGGAGAACCTGAGACCTTCCTGCCTCTGGACTACCTGGAGGTGAAACCCACAGATGAGAAGCTGAGGGAGCTGAGAGGAGCTAAGCTGGTGATTGACGTGATCCGTTACGAGCCGCCTCACATTAAGAAAGCTCTGCAGTACGCCTGCGGGAACGCTCTGGTGTGTGAGAATGTGGAGGATGCACGCAGGATTGCTTTTGGAGGACCTTACAGACATAAGACCGTGGCGTTGGACGGCACTCTGTTTCAGAAGTCTGGGGTGATCTCTGGAGGAGCGAGTGATCTGAAAGCTAAGGCTCGGCGCTGGGATGAGAAAGCTGTGGACAAACTCAAagacaagaaagagaaactaacaGAGGAACTGAAGGAGCAGATGAAGGCAAAGAGGAAGGAGGCGGAGCTGAGGCAGGTGCAGTCTCAGGCCCACGGGCTGCAGATGAGACTGAAGTACTCTCAGAGTGACCTGGAACAGACCAAGACTCGCCACCTGTCCCTCAACATGCAGgagaAATCAAAGTTGGAGAGTGAACTGGCCAATTTTGGCCCTCGCATCAATGACATCAGAAGAATCATCCAATCACGAGAGAGGGACATCACTGCTCTGAGAGACCGCATGAACCTGGTGGAGGATGAGGTGTTCCTGGAGTTCTGTGAGGAGATCGGCGTGAGGAACATTCGAGAGTTTGAGGAGGAGAAAGtgaagagacagaatgagataGCCAAGAAGAGACTTGAATTTGAGACCCAGAAGACCCGTTTAGCCATCCAGCTGGACTATGAGAAGAACCAGCTGAAGGAGGACCAGGAGAAAGTGATGATGTGGGAACAGACAGTGAAGAAGGATGAAAACGAGATTGAGAGACTTAAGAAGGAAGAGCACAGGCACATGAAGATCATTGACGAGACCATGGCTCAACTGCAGGATCTGAAAAACCAGCACCTCACTAAAAAGGGAGAGGTCAATGACAAGAACCGAGAAATGGAGGAGATCCGCAAGAAACTGGGCTCTGCTAACAAAGAGCTGACCCATCTCCAGAAGGAGGTGACAGCAATTGAGACAAAACTGGAGCAGAAACGCAGCGACAGACACAACCTCCTGCAGGCCTGTAAGATGCAGGACATCAAACTGCCCCTCAAATCTGGAACCATGGACGACATCAGCCAGGGAGAGGGAAGTTCCCAGGTTGACGAGTCCAGCAGCCAGAAGACCTCCAGCTCTGTTCATGCCAAAGAGGCTCTCATAGAAATCGACTACAGCAACTTAAACGAAGACCTTAAGGACGCTCTCTGTGATGAGGAGATTAAAGCTGAGATGAACACTCTGCAGCAGAGGCTGAATGAGCAGCAGAGCATTCTCCAGCGCATCAGTGCTCCCAACATGAAGGCCATGGAGAAACTGGAGAGCGTCAGGGATAAGTTCCAGGAGACCAGTGATGAGTTTGAAGCAGCACGAAAAAGAGCTAAGAAAGCTAAGCAGGCCTTTGAGCAGATCAAAAAGGAGAGGTTCGACCGTTTCAACACCTGCTTTGAATCTGTCGCCACCAACATTGATGAGATCTACAAAGCCCTCTCTCGTAACAGCAGTGCACAGGCTTTCCTTGGCCCAGAGAACCCAGAGGAACCATACTTAGATGGAATCAATTACAACTGCGTGGCTCCAGGAAAGAGATTCAGGCCAATGGACAATCTGTCTGGAGGGGAGAAGACAGTGGCGGCTTTGGCTCTGCTGTTTGCCATTCACAGctACAAGCCCGCCCCTTTCTTCGTGCTTGATGAGATTGATGCTGCACTTGATAACACTAACATTGGCAAGGTGGCAAATTACATAAAAGACCAGTCAGTCCAGAACTTCCAGGCTATTGTCATTTCCCTGAAAGAGGAGTTCTACACCAAGGCTGACTCACTCATAGGAGTGTACCCTGAGCAAGGAGACTGCGTCATCAGCAAAGTGCTGACCTTTGACCTTTCCCAGTATCCTGATGCCAATCCAAATCCCAACGACTAAATCAGCTTCATTATAAAGAGTGAATGGTCAACATATACCAACCCTGCAGACATTAATACATGCGTAATGTTCTGTCATATCCTCCTATGCTGTGCTGCTCagatcagtgttcagtgttgtgTGCATGGTTTAACATGTGTTATGTGAATTCTGCACTGTatgtccaaaagtattgggCCAATTTACCAATGGAACTGGACACTGTGATGCTTCTGCCTATGAGTCAGATGAGCATTGGTTAGTTGTGCTCTTTGGAGTATTGGAGCTCTCTTCAGTACCACTGAGTTGGATGAGTTGGAGTTGAATTTGTGATTTGTCAGTGCCTAACTTTATTAATTCTAAACTTCAAAAAAGCCTTTGTAGATGAATTGAGCATATTACTGCAGCAAACATGGGCCAATGCCTCAATAAATCTCTTACTTCCAGAATAAACTGCAAATGTTTTGGGCATATAGTGTATCTTCGATAGTTATTAGATGCTTTACAAACTGTGCTGAAATTATTCtgcaatatattgtaaagtGGTGCTTGAGGGTTTGCTTTCTCCTTTGCTTTCTCCTAGTTGTTTAGTGTTCTCATGATGGTGAAAtcatgaacattaacattaaccacAGTTAgtgaggccttcagttgcttagaagttatcATGGGTTCCTTTGTGACCTTTTAgactatcactattattactattactattattggtTTGATCTTTGTTGGTTGACCACTCCTGAGGATGGTAATAGTATTATTGAATTTCTTCTATTTGGACCTAATCTGTCTAGCTGTGAATTGGTGGAGTCCAAACTCTTCAAAGATGGTTTTGCAACCTTTTCAAGCTTGATGAGCGTTTGCATTGCTTTTGTGATGTAAGGCATGGATGCATCTGCTTAGCCATGGAAACTAATTCTATAAAGCTCTTCATAGAAAACTTGCGCAGAAATATAGACAATTTTAAAAGGTTCaaaaactttcaagcaccactgtaacTAAATATGTAGGCCTTGTGTTAGCTTGTGGAATGTGCCTAGCAACATATTTCTGGCAATAGTTATGGCAATGTCCTCAACTAGAAAACCATTTAAACAAAGCTCATTCTGCTTAGCTGATGTAATCATGTATCGTGTATGCTTTATCCTGCAGTATTTAATTGCACACAGTGATGCAGTAGCTATATCGTTGCACTGGTTTGTAAATGCTGTGCCTTCCTGTGCTATCTCATATGATCATATCTTAATGAAAGCCAATGAAATGTAGCACTGAACTGAAAATGGACTTGTTGGTTTAATGTCAAATTAAGAAGAACCGAAAATACGAATTGATAGCACATTAAACATTTTGTATTTCACTGTATTCATTGCTTTAATGAATAAATCTATTCTGAATGTA

Function

symbol description
smc1a Predicted to enable DNA binding activity. Acts upstream of or within central nervous system development and developmental growth. Predicted to be located in chromosome. Predicted to be part of meiotic cohesin complex. Predicted to be active in nucleus. Is expressed in central nervous system and tail bud. Human ortholog(s) of this gene implicated in Cornelia de Lange syndrome 2 and developmental and epileptic encephalopathy. Orthologous to human SMC1A (structural maintenance of chromosomes 1A).

NR:

description
structural maintenance of chromosomes protein 1A

GO:

id name namespace
GO:0006310 DNA recombination biological_process
GO:0007064 mitotic sister chromatid cohesion biological_process
GO:0006281 DNA repair biological_process
GO:0008278 cohesin complex cellular_component
GO:0005634 nucleus cellular_component
GO:0005524 ATP binding molecular_function
GO:0003682 chromatin binding molecular_function
GO:0046982 protein heterodimerization activity molecular_function

KEGG:

id description
K06636 SMC1; structural maintenance of chromosome 1

RNA

RNA id representative length rna type GC content exon number start site end site
XM_007246777.3 True 5261 mRNA 0.46 26 6787909 6809368

Neighbor

gene id symbol gene type direction distance location
LOC103043808 NA coding upstream 14965 6721150 ~ 6772944 (+)
huwe1 huwe1,LOC107586534 coding upstream 150170 6591604 ~ 6637739 (+)
LOC103044924 zgc:153867,myl6,LOC107586536,LOC105897346,LOC107570608,LOC105013534,LOC103044924,LOC108433460,LOC106565518,LOC106567035 coding upstream 265546 6507562 ~ 6522363 (+)
LOC111194016 LOC108432442 coding upstream 332729 6449085 ~ 6455180 (+)
LOC103043397 LOC108433435,LOC107708852 coding upstream 595890 6159261 ~ 6192019 (+)
srm srm coding downstream 1256 6810624 ~ 6817031 (+)
cort cort,sst3,LOC107708791,LOC107571809,LOC107695747 coding downstream 16552 6825920 ~ 6827729 (+)
masp2 masp2 coding downstream 40719 6850087 ~ 6894363 (+)
pex14 pex14,LOC107681981,LOC107708844,LOC107586529,LOC107716227,LOC107695784 coding downstream 115581 6924949 ~ 7042034 (+)
aurkaip1 aurkaip1 coding downstream 1109641 7919009 ~ 7922636 (+)
LOC111194059 NA non-coding upstream 203000 6548619 ~ 6584909 (+)
LOC103044413 NA non-coding upstream 544343 6234196 ~ 6243566 (+)
G129849 NA non-coding upstream 554168 6233448 ~ 6233741 (+)
G129809 NA non-coding upstream 661550 6115836 ~ 6126359 (+)
G129657 NA non-coding upstream 753197 6032305 ~ 6034712 (+)
G129970 NA non-coding downstream 87128 6896496 ~ 6899641 (+)
LOC111194061 NA non-coding downstream 544990 7354358 ~ 7400785 (+)
G130017 NA non-coding downstream 606497 7415865 ~ 7419215 (+)
G130100 NA non-coding downstream 611387 7420755 ~ 7420985 (+)
G130101 pgd,LOC107586524 non-coding downstream 611788 7421156 ~ 7441868 (+)
LOC103039794 RPS26,rps26l,rps26,LOC103039794,LOC108433306,LOC107708153,LOC100304574 other upstream 1186448 5599278 ~ 5601461 (+)
LOC103033446 LOC103033446,LOC107756391 other upstream 2409242 4300199 ~ 4378667 (+)
hmgn3 hmgn3 other upstream 2416028 4353083 ~ 4371881 (+)
LOC103028602 NA other upstream 3074348 3684923 ~ 3713561 (+)
LOC103029753 ormdl2,LOC103029753,LOC108276395,LOC107549034 other upstream 3126087 3655323 ~ 3661822 (+)
tardbp tardbp,tardbpl,LOC107570713,LOC107586522,LOC107716231,LOC107681961,LOC107695779,LOC107708842 other downstream 599628 7408996 ~ 7415078 (+)
G130119 NA other downstream 659017 7468385 ~ 7472958 (+)
G130120 LOC107716234,LOC107681965 other downstream 668987 7478355 ~ 7489241 (+)
lzic lzic,LOC107708836,LOC107681991,LOC107718820 other downstream 792237 7601605 ~ 7608883 (+)
LOC103037383 LOC103037383,LOC108432529 other downstream 1282363 8091731 ~ 8094054 (+)

Expression


Co-expression Network