CI01000001_11216246_11230227 (SMC1A, SMC1A.L, SMC1AB, SMC1AL)


Basic Information

Item Value
gene id CI01000001_11216246_11230227
gene name SMC1A, SMC1A.L, SMC1AB, SMC1AL
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000001
NCBI id null
chromosome length 13537560
location 11216246 ~ 11230321 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000001_11216246_11230227.mRNA
ATGGGATATTTAAAGCTGATCGAGATCGAAAATTTCAAATCTTACAAGGGACGCCAAATAATCGGACCGTTTCACAAATTTACAGCAATAATTGGACCAAATGGATCAGGGAAGTCAAACCTGATGGACGCCATCAGTTTTGTATTAGCAGAGAAGACCAGTAACCTGCGTGTTAAAACCTTGAAGGATCTCATCCATGGAGCACCAGTGGGAAAACCAGCAGCCAACCGTGCCTTCGTGAGCATGGTGTACTGTGAGGAGAATGGAGAGGAATGCACTTTCACACGGGTCATCATTGGTTCCTCCTCAGAGTACCGAATCAACAATAAGGTGGTCGGGCTTTCAGAGTACAGCGAGGAACTGGAGAAACTGGGTATCCTTATTAAGGCCAGGAATTTTCTTGTGTTCCAGGGTGCAGTGGAGTCAATAGCCATGAAGAATCCTAAAGAGAGGACGGCTTTGTTTGAGGAGATCTCCCGCTCTGGTGAGCTGGCCCAGGAGTATGACCGCAGAAAGAAAGAGATGGTGAAAGCAGAAGAAGACACTCAGTTCAACTATCACCGTAAGAAGAACATTGCAGCAGAGCGCAAAGAGGCCAAACAGGAAAAAGAGGAGGCTGAGAGGTACCAGAGACTGAAGGATGAGGTGGTCAGGGCTCATGTTCAGCTACAGCTCTTTAAACTCTACCATAATGAGGAGGAGATCGAGAAGCTGAACCGAGAGTTGTCCCAGCGCAACCGTGAGATCGAGAAGGACAGGAAGAAGATGGATCATGTCGAGGAAGAGCTCAAGGAAAAGAAGAAGGAGCTGGGAAGAATGATGAGAGATCAGCAGAATGTGGAGAAGGAGATAAAAGAGAAAGATGCTGAGCTGAATCAGAAGCGGCCACAGTACATCAAGGCCAAGGAGAATACTGCCCATAAAATTAAGAAGCTTGAGGTGGCTCGAAAGTCTTTGCAGAACGCCCAGAAGATGTACAAGAAGCGTAAGGCAGACATCGAGGAACTGGACCGAGAGCAGGGTGCCGTGGAGATGGCGAGGCAGGAGTTTGAGGAACGGATGGAAGAGGAAGCGCAGAGTCAAGGCCAAGATTTGACACTGGAGGAGAACCAGGTGAAGCAGTATCACAGGCTGAAGGAGGAGGCCAGTAAGCGGGCAGCTACCTTGGCACAGGAGCTAGAGAAGTTTAACAGGGACCAAAAGGCCGACCAGGACAGACTGGATCTAGAGGAGAGGAAGAAAATTGAGACAGAGGCCAAAATAAAGCAGAAGATTCGAGAGATCGAAGAAAACCAGAAGCGCATTGAAAAGCTGGAGGACTATATTGCAACTAGCAGGCAGTCTCTGGATGAACAGAGGCGTATGGAAGAGGAACTGACTGAGGAAGTGGAGCTGGCCAAAAGAAGGATTGATGAGATAAACATGGAGTTAAACCAAGTGATGGAGCAACTTGGTGATGCTCGCATTGACAGGCAGGAGAACAGCCGTCAGCAGCGCAAAGCTGAAATTATGGAGAGCATTAAACGGCTTTACCCCGGATCAGTGTATGGCAGACTGATTGACTTATGCCAGCCCACCCAGAAGAAATACCAGATTGCAGTGACCAAAGTCCTGGGAAAAAACATGGACGCCATCATTGTGGACTCTGAGAAAACTGGCAGAGATTGCATCCAGTACATTAAAGAGCAAAGAGGAGAACCGGAGACCTTTCTGCCTCTCGACTATTTGGAGGTGAAACCCACAGATGAGAAACTGAGAGAGCTTCGTGGGGCAAAGTTGGTGATTGACGTGATCCGCTATGAGCCGCCACACATAAAGAAAGCCCTTCAGTATGCCTGCGGGAATGCTTTAGTGTGTGAGAATGTGGAGGACGCTCGCAGGATTGCCTTCGGAGGACCATACCGTCATAAGACCGTGGCTCTGGATGGAACTCTCTTCCAAAAGTCAGGTGTGATCTCTGGAGGAGCTAGCGACCTGAAAGCAAAGGCTCGGCGCTGGGATGAGAAAGCTGTGGACAAACTTAAGGAAAAGAAAGAGAAACTAACAGAGGAATTGAAGGAACAAATGAAGGCAAAGAGAAAGGAGGCAGAGCTCAGACAGGTCCAGTCTCAGGCTCACGGGCTGCAGATGAGACTGAAATACTCTCAGAGTGATCTTGAACAGACCAAAACCCGCCATCTCTCTCTGAACATGCAGGAGAAATCAAAGTTGGAGAGTGAGCTGGCAAATTTTGGCCCACGAATCAATGACATAAAACGAATCATCCAATCACGAGAGAGGGACATTACAGAGTTAAGAGATCGCATGAACCTGGTGGAGGATGAGGTCTTTGTTGAATTCTGTGAGGAGATTGGTGTTCGAAATATCCGAGAGTTTGAAGAGGAAAAAGTGAAGAGGCAAAATGAGATTGCCAAAAAACGGCTGGAGTTTGAGACACAGAAAACACGTCTGGCCATCCAGCTTGATTATGAGAAGAACCAGTTAAAGGAGGACCAGGAGAAAGTGATGATGTGGGAGCAGACTGTAAAGAAGGATGAGAATGAGATCGAACGACTTAAAAAGGAGGAACACAGACACATGAAGATCATTGATGAGACAATGGCACAGCTACAGGACCTGAAGAACCAGCATCTCACTAAGAAAGGAGAGGTCAATGATAAGAACCGAGAGATGGAGGAGATCCGCAAGAAATTAGGGTCTGCCAACAAAGAGCTGACGCAGCTTCAGAAGGAAGTAACCGCCATTGAGACCAAACTGGAACAGAAACGCAGTGACAGACACAACTTATTGCAAGCCTGCAAGATGCAGGACATCAAATTGCCCCTTAAATCAGGGACAATGGATGACATCAGCCAGGGAGAGGGAAGCTCGCAAGTTGACGATTCCATCAGCAGCCCGAAGGCATCAAGTTCTGTCCACGCCAAAGAGGCCCTCATAGAGATTGACTACAGCAACTTAAATGAGGACCTCAAGGATGCTCTGTCAGAAGAAGAGATCAAAGCAGAGATGAACACCCTACAGCAGAGACTGAACGAGCAGCAAAGCATCCTGCAGAGAATCAGCGCTCCCAACATGAAGGCCATGGAGAAACTTGAGAGCGTTAGAGACAAGTTCCAGGAGACCAGTGATGAGTTTGAAGCTGCTCGGAAAAGAGCCAAGAAAGCCAAACAGGCATTTGAGCAGATCAAGAAGGAGCGGTTTGACCGTTTCAATGCTTGTTTTGAGTCTGTTGCCACCAACATTGATGAGATCTACAAAGCGCTGTCACGCAACAGCAGTGCACAGGCATTCCTGGGGCCAGAGAACCCAGAGGAACCATATTTAGATGGAATCAACTACAACTGTGTGGCTCCAGGAAAGAGGTTCAGGCCTATGGACAACCTGTCAGGAGGAGAGAAGACTGTGGCTGCTTTAGCTCTGCTTTTTGCCATTCACAGCTACAAGCCTGCACCTTTCTTTGTCCTGGATGAGATTGATGCCGCTTTGGATAATACCAACATAGGCAAGGTGGCCAACTACATAAAGGACCAGTCAGTCCAGAATTTCCAGGCCATTGTTATCTCTCTCAAAGAGGAGTTCTACACAAAAGCTGACTCCCTCATAGGAGTTTACCCTGAGATAAGTATGATCAGCTTTTCATGTTTAGTCAACTGGACAGTCCAGATCAGTGATGTTTTGTCTGCACTGTGTCTCAACAGAGAACATCTTAGCTGCCTATTGTCAAGTGTGCCTTGTGGATGATCCGTTCATTCAGTACAATGTGGAATGACCAGTATTTATCTTTTTTTGTATTCATGGGAAAATAGGTTATGTGTAAATGGTATTCAAACTGAAA

Function

symbol description
smc1al Predicted to enable DNA binding activity. Acts upstream of or within embryonic viscerocranium morphogenesis. Predicted to be located in chromosome and membrane. Predicted to be integral component of membrane. Predicted to be part of meiotic cohesin complex. Predicted to be active in nucleus. Is expressed in several structures, including cranium; digestive system; nervous system; optic cup; and otic vesicle. Used to study Cornelia de Lange syndrome. 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).
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).

GO:

id name namespace
GO:0048589 developmental growth biological_process

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
CI01000001_11216246_11230227.mRNA True 3835 mRNA 0.47 26 11216246 11230321

Neighbor

gene id symbol gene type direction distance location
CI01000001_11182552_11204143 NADL1.2 coding upstream 11747 11182552 ~ 11204499 (+)
CI01000001_11138617_11139541 NA coding upstream 76573 11138285 ~ 11139673 (+)
CI01000001_11099313_11137500 HUWE1 coding upstream 77968 11099313 ~ 11138278 (+)
CI01000001_11019871_11028065 MYL6, MYL6B coding upstream 187722 11019479 ~ 11028524 (+)
CI01000001_10989337_10992917 BIRC5B coding upstream 223268 10989337 ~ 10992978 (+)
CI01000001_11232168_11238289 SRM coding downstream 1847 11232168 ~ 11238655 (+)
CI01000001_11246797_11247315 CORT, SST3 coding downstream 16328 11246649 ~ 11247541 (+)
CI01000001_11265638_11283027 MASP2 coding downstream 35317 11265638 ~ 11283236 (+)
CI01000001_11359106_11376288 NA coding downstream 128785 11359106 ~ 11376885 (+)
CI01000001_11431153_11431434 NA coding downstream 199555 11429876 ~ 11431587 (+)
G19226 NA non-coding upstream 32476 11169293 ~ 11183770 (+)
G19121 NA non-coding upstream 90087 11070904 ~ 11126159 (+)
G19130 NA non-coding upstream 229780 10925528 ~ 10986466 (+)
G19034 NA non-coding upstream 319341 10892437 ~ 10896905 (+)
G19088 NA non-coding upstream 341375 10874670 ~ 10874871 (+)
G19096 NA non-coding downstream 24748 11255069 ~ 11304024 (+)
G19108 NA non-coding downstream 151253 11381574 ~ 11381987 (+)
G19258 NA non-coding downstream 157322 11387643 ~ 11387959 (+)
G19259 NA non-coding downstream 159234 11389555 ~ 11389858 (+)
G19266 NA non-coding downstream 197783 11428104 ~ 11493856 (+)
G19039 NA other upstream 362263 10850924 ~ 10853983 (+)
CI01000001_10538498_10539667 RPS26 other upstream 676400 10538388 ~ 10539846 (+)
G18937 NA other upstream 739857 10474984 ~ 10476389 (+)
CI01000001_10395420_10396473 NA other upstream 819541 10394851 ~ 10396705 (+)
G18872 NA other upstream 934877 10271146 ~ 10281369 (+)
G19314 NA other downstream 270873 11501194 ~ 11558673 (+)
G19395 NA other downstream 451001 11681322 ~ 11681817 (+)
CI01000001_13514115_13517063 NA other downstream 2283083 13514115 ~ 13517063 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_021751 smc1a coding NC_007134.7 CM002907.2 28693278 ~ 28713982 (+)