CI01000026_03163505_03268602 (SOX6)


Basic Information

Item Value
gene id CI01000026_03163505_03268602
gene name SOX6
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000026
NCBI id null
chromosome length 17172400
location 3163505 ~ 3268602 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000026_03163505_03268602.mRNA
ATGTCTTCCAAGCAAGCCACCTCTCCATTCGCCTCGGCCCCTGACGGAGGTGAGGATGGATTGAATCAGGAGCGCATGTCCTGGGAGAAGGAAGAGAACTCTGAGTCACTAGTCACCCCTCAGCTGCCCCTGCACAATCTGCTCCACAACAAACCTCCCCCGGAGGAGCTCCAGCCAATCAGCAGCAGCGTGCCGCCCGAATCCGACTGGGACAGCCTGATGTCGGCCCAGCAGCGCATGCCTCTAGATGTATCCCACATCTATTCTCTCAAAACAAACACACACACCCTCTGTACTCCTGCAGAGAGGAATCCTCAACCCAAGGACACAGCTAGAAGAGAGCAGGTCTCTCTGGAACACTTTTGAATGAAGACTTAAGACTTCGCGATTTGCCAAGGACTCGGCTTTGAAGTCTAAGTCCCCCACAAGCGCCTGGAGATCCCTCACACTGTAAAAGTGCAGGAGAACCACGTATTGAATTGCATTTCATGTCAGAGCGATTTTATGAATCTATAAATAGAGAAACAATGAGAAAGCGGATGAGGAGTGGGAATTTGAGGGAGTTAAGGGAGCCCCCCCTTCCTCCGTGGTGGTCTCTCTAGACCAAGAGGCATAGAGCCCAGACGTGAGACTGACAGCCACTTATTGTTCGATGCTTGTAAAAGGGAATTCTCTATAAACCTTCCCTCTGCTGCTGCTGCTGCTTGCCCAAAGCTAGGATGACTCCGACCAGCCCCCGAGGTCTGGACTCCCCTGGCCCGGCAGCATCCAGACGCCAAACCCCTCTTTAATTAGCCTAAAAATGTAGCTGTCATGAGAGGATTTTTGCTTTTTCTTTAACTAAAGTTTGCATTCCATTGGTGGTGTGACATCAAATGTGTGTTACGGACAACAGGATGCACTTTTGCACCCATAGGAAAGAAAAATAGAAATGAGATTTTTTATCTCAAATATTTCTCCTAGAAAGCAATGAGATTAAATAGAGATAAAATGGAGACTTTTCTTATCTGAACAGCTTTTCAGATTTTTCTCATGAAAAAAAAAATGCATCTCTCTCCTGTAGAAGTTCAGAAGAGACCTCCACAATGTCTCAATCTATGCTCAGATGTGCCAAGATATCAAAAGTCAAAGATTTAAATATGAACTTCAACATTTCTAATCAAATGTCTCATATATGTGTCTTTTTATTCCTTTCAAGGAAAGAAGTGTATAAACTTATGTAAATTTGATACATTTGATAATATAATATAATATAATATAATATAATATAATATAATAATGGCTGTCTTCACCTCTTCCTCACATGTAAATGCAGAAGACTTCAACACTGCTCAGGTGGTGCTGGTTCCTAATTGGATTACAGAGAGCTTTTGTGATTGGTGTAATTAGAAGAGCATTTCAAAGAATTGTTACCGCACTGCTGTGGTTGGATATGCATGGGATGATCTCTTGGTTTCCTCTTGATATAATGAGGGAAAGCATATGAAAAGTTAATTGTGCTCATTTGATGTTCAAGTGCAGCTGCTTGTGTTTGATTTGCAGTGAGCGGTGCACTCGCTCTCGCTTGTATTCACATGAGCAGGACGTCCTGTTGTTGAGTGAGATTTTTTCTTCAGTGGGGTTGTAGTTTGTTTCAACTCTCACCTGATAAATATTTCACTGCGCTTTGGATAAAAGCATCTGTAAAATGTAAATGTAATGTGAAGTATGTGCAGACTCTTACTGTATACATTTGAAATTCTTTTTAGTGTATATTGAGTCATGCATTAAGATCTGGTATGTCAATATAAGTGTAGAGAATGCCATGGAATAAAAGATAAAATGGGCAAAGTTGTACAAACATAAAAAGAAGAATGCCAGCGCTGAAATTGGTTTTGGAGGTAGGCAGTGAATAAAAACTAAACCGGAGTATAAAATGAAAGACAGACAGTTGTCTCTGCTATTGGTGTTATTGTTAATCTCAGTGTCGCCTGTGTGCAAGCATTACCATATTTATGTGAACAGAATAAAATTTTATTGCTCAGGTATTACTCATTCATAGGCCAGGAGACTTAATGCATTTGCCAGTTATGTTTCATGTAAGTATTAATTTGTCTTCATATTACCCTAGGGGCCCAAAAATAAAGTAAAAATTACAATATTATTAAATTATTAAGTCCAAATAACTGTTTTCTCTTTTAATATATTTTGTTGTAATGTTTAAAATATGTAATTTATTCCTGCGATGGCAAAGCTGAATTTTCAGCATCATTACTCCAGTCTTCAGTGTCACATGATCCTTCAGAAATCATTCTAATATGCTGATTTGCTGCTCATGAAACATTTCTTATTATTATCAATGTTGAAAACAGTTGTGCTGCTCTATATTTTTAGTATATTTTATGTTTAGTTTGTTTTTCAATACATTTTTTTTTTTTCAGGATAATTTGATTAATAGAAAGTTCAAAATCATTTTTGCTTTTTTTAGTATTATAAATGTATTTACTGTCACTTTTGAACAATTTAATGCATCCTAGCTGAAAAAAATATTAATTTCCTAAAAATCTGAAACTCTGAACGGTAGCATATTCATAAAAATTGAGAGAAAATTGAGACACAATAGAGTTAGAGTAAATAAACTGATGAGATATGTTTGAGTTCATATTGGTATCGCTGACTTTTGATTGCAGACTTTAATATCAAGTCTCCATTTAATCTTGTTGTCTGTAAATTTGACTTCCTTCGTGTGTTAGCAGAACCCTCAGTCTGTGCCACCTGATTTGAGTGATCTCATTCGTGTACCCCTGCCACATAATCATACTGCCCTAATGCCCGTCTGTGCCCTGCTCTCCAAACATACACCTGCCAGTTTTTCTCTCATTGATGGAACAATCCTATGCCCAAATTCTTCTCTGTCAGGACTCCCTCTCCACTCACTAATGTGCTTTTGCACTTTATTTTACAATCACTCAGTAGTGTGTAGAGTTACTGGGATCTGTGTAGGCTCAGACAAACAGATCGCTTCTCCCTTTCACTCTGTTTTCCCTCTCTGTGTACTCGCTCGGGGAACACTGAGCTATCAGCTGCAGACAGAAGCTCAGTTAACCACTAAACCACACACAGGTGGGACCGCAAAACAACAGCAGCTTGAGACAGGGCCCAGATTTACGATGGCCTGGAGGGTTCCGCGCGGAACAGCCACCCGCTCGAACCAACAAATTACACTGCACTCGAGCTCGGCTCAAACACGCACTCATAACCTTTGCAAAGGAATTACAGCAATGACTATTGTGAAGAGAAAAGAGTAGTTAAACACCCCTTCATCTACAATTCTGGGCAAAAAAAAAAAAAAAAAGCCCAGAATGGCTAAACACTAAGCTTTTAATTATCTTAACCACAAATTATTGGTCAGGAAATTAGCAAAAATTTAAGCAAATGCACTAATTAAAAAGCCATTGCTGTCTCAGAAAAAAACATCAAAGACAGAATTAAGTTTTTGGCGGAATATGGGAAGCTGTGTGTGGAGTGATGAATCACAATGAAACACGAGTTGCACAGTGTCTTCAAAAATCTGCTGAGAAATATAATAATAAATGCATCTCTACCACAGTGAAGTATGGAGGAAGAGGTGTCATTGTGGGGAGCCTTTTTAGCTGCTGGTATTAGTGAGCTACTTCACTGTGAAAAGTCATGCTTTGGAGTACAGGAGCATATTGCAGAATGGCTTGCTTTCCACAAATGAAAAGTTGATATCTAAAGAGGAATGATCAGATGTTATCTTCCAACAAGACAATCCTCCTGCCCAAATTGCAAAGACAACCAAGAAATGGCTTGAGAACAAGTCCATCAGGCTCATGTTTTGGCCTGTCAGAGTCCAGATTTGAACCCGATAGTGAATATTTGGTCTCACATTAAACTTAAACGAACTGGGAGACATTTTTCAACTATTCGTGAACTGTTTGAAGCCAGTAACATTAAGTAGAACAACACTGGCTCTTCTTCTTCCTAAGCTGTCTGCAAGTTGAGGAAGGCTTTTCCGTTACTTTAACTACAGTATTTGTGCAATTCTTTCTAATTTCCTGACCAGTGATTTTGTGATTAAAATGGTTAAAACCACTAAATATTTTCCCCCCCCCCCCCCCCCTTTTTTTTTTTTTTTTTTGCCAAGGTCTGTAATCATTTAAAGTGACCTAAACTCACTTTCGCTAATATATATGTCTTTAGCATTTTCTTAATTTTTAAACTTATTATTGTATTTTAAATGTGCTTATATTGCTATCTTTTTCATACTTTGACATTTAACATCTATTTTTTCATAATGTAAAAAGTAAAAAAACCTTCTCTCAAATTCTTTTGTTTTTTCCTGCAGGAATCCTCCTGCATGGAAAAACTTCTTTCTAAAGACTGGAAAGAGAAGATGGAACGACTCAACACGGGCGAGCTGTTAGGAGAAATTAAAGGTACTCCAGAAAGTCTTGCAGAGAAGGAGCGACAGCTCTCCACCATGATCTCACAGCTCATCAGCCTGCGAGAGCAGCTCCTGGCTGCCCATGATGAGCAGAAGAAACTGGCCGCCTCACAGATGGAGAAACAACGTCAGCAAATGGAGCTGGCACGCCAACAGCAAGAGCAGATTGCCAGACAACAGCAGCAACTTCTGCAGCAACAGCACAAAATCAATCTCCTCCAGCAGCAGATCCAGCAGGTCCAGGGTCACATGCCTCCGCTCATGATCCCCATTTTTCCACACGACCAGCGCACTCTGGCAGCAGCCGCGGCAGCCCAGCAGGGCTTCCTCTTTCCCCCAGGCATGTCCTATAAGCCAGGTGATAACTACCCGGTGCAGTTCATTCCATCCACAATGGCAGCTGCTGCCGCGTCAGGACTCAATCCTCTCCAGCTCCAGCAACTCTACGCCGCCCAGCTGGCCAGCATGCAGGTCTCTCCAGGAGCCAAGATGCCTCCGCTGCCCCAGCCCCCCAATTCTGCCGGGCCGATCTCCCCATCTGGCTTGAAGAACGAGAAGAGGGCCTCAACCCCCCTGGCTCAAGTCAAGGAGGAGGGAACGCAGCCTCTCAACCTCTCTGCCCGGCCCAAAACAGCTGAGCCCGTCAAATCCCCCACATCCCCGACACAGAGCCTCTTTCCAGGCAGCAAGAGCAGCCCGAACAGCCTGTCCAAGAGCGGAGGCATCCCCAGCCCCATCGGAGGAATGGGTCGTGGCTCGTCTCTAGACATCCTGTCCAGCCTGAACTCAACAGCGCTGTTTGGAGATCAGGATGCAGTGATGAAGGCCATCCAGGAAGCGAGGAAGATGAGGGAGCAGATTCAGAGAGAGCAGCTTCAGCATCATCAGCAGGGAATGGAGGCCAAGCTGTCTGCCCTCTCCAGCATGGGCCTGAACAACTGCAGGGCTGATAAGGAGAGGTCTCATTATGACAGCCTTGGCCATCACCTGGGCAAACTAGGTGAGGATGGAAAGATCGGTCACAGAGTCATCGACCTCACCAGGCCAGAGGATTTTGATGGAGGCGCCAGCACTACCGAGGCACGGGTCTACAGGGAACCCCGGGGAAGGAACAGCAACGAACCTCACATCAAACGGCCCATGAACGCCTTCATGGTCTGGGCCAAAGATGAGCGCCGCAAAATCCTTCAGGCCTTCCCAGACATGCACAACTCCAACATCAGCAAAATCTTGGGATCTCGCTGGAAGTCCATGACGAACCAGGAGAAACAACCGTATTATGAAGAGCAGGCACGGCTCAGCAAGATCCACCTGGAGAAGTATCCCAACTACAAGTACAAGCCCCGGCCCAAGCGCACATGCATTATCGACGGCAAGAAGCTGCGCATCGGCGAGTACAAGCAGATGATGAGGTCGAGGAGGCAGGAGATGAGGCAGTTCTTCACTGTGGGGCAGCAGCCACAGACGCAGATCCCCATCACCACCAGCGCAGGTGTCGTCTACCCCGGTGCCATAACCATGGCGACCACTACGCCCTCCCCTCACATGACATCAGACTGCTCCAGTGCCTCGGCCAGCCCCGAGCCCACCATCCCCGTCATCCAGAGCACCTTCAACATGAAGATGGAACCAGGCACCATGGTGCCTAACGACCCCGTGAACGGAGAGGACGAGATGGACATGTACGAGGACTTTGAGGACGAGCCCAAATCGGACTACAGCAGCGAGAATGACACACAGGAGCCGGTCAGTGCCAAC

Function

symbol description
sox6 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within adipose tissue development; muscle cell fate specification; and skeletal muscle tissue development. Predicted to be active in nucleus. Is expressed in fast muscle cell; myotome; pharyngeal arch 3-7; and somite. Human ortholog(s) of this gene implicated in high grade glioma. Orthologous to human SOX6 (SRY-box transcription factor 6).

GO:

id name namespace
GO:0003677 DNA binding molecular_function

KEGG:

id description
K09269 SOX5_6_13; transcription factor SOX5/6/13 (SOX group D)

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000026_03163505_03268602.mRNA True 6205 mRNA 0.44 14 3163505 3268602

Neighbor

gene id symbol gene type direction distance location
CI01000026_03037832_03085312 NA coding upstream 77979 3037832 ~ 3085526 (+)
CI01000026_02976981_02977701 NA coding upstream 184492 2976441 ~ 2979013 (+)
CI01000026_02947832_02950047 RPS13, RPS13.L, RS13 coding upstream 213438 2947689 ~ 2950067 (+)
CI01000026_02928011_02935998 NA coding upstream 227199 2928011 ~ 2936306 (+)
CI01000026_02795613_02801257 TSPAN18, TSPAN18A, TSPAN18B coding upstream 361689 2795440 ~ 2801816 (+)
CI01000026_03279718_03281541 NA coding downstream 10256 3278858 ~ 3282416 (+)
CI01000026_03429002_03432390 CYP2R1 coding downstream 160400 3429002 ~ 3433060 (+)
CI01000026_03497917_03504607 COPB1, COPB coding downstream 229315 3497917 ~ 3504607 (+)
CI01000026_03554511_03560631 RRAS2, RRAS2.L coding downstream 285909 3554511 ~ 3560915 (+)
CI01000026_03664983_03686916 TUB coding downstream 396381 3664983 ~ 3687346 (+)
G127856 NA non-coding upstream 204915 2958334 ~ 2958590 (+)
G127855 NA non-coding upstream 209621 2953598 ~ 2953884 (+)
G127841 NA non-coding upstream 249992 2913285 ~ 2913513 (+)
G127838 NA non-coding upstream 253363 2909924 ~ 2910142 (+)
G127815 NA non-coding downstream 5673 3274275 ~ 3274647 (+)
G127899 NA non-coding downstream 50872 3319474 ~ 3319736 (+)
G127916 NA non-coding downstream 77367 3345969 ~ 3346183 (+)
G127782 NA non-coding downstream 332063 3600665 ~ 3601199 (+)
G127762 NA non-coding downstream 401886 3670488 ~ 3670881 (+)
CI01000026_02659356_02660297 NA other upstream 502676 2658605 ~ 2660829 (+)
G127519 NA other upstream 736499 2393683 ~ 2427006 (+)
G127531 NA other upstream 851370 2309322 ~ 2312135 (+)
G127500 NA other upstream 1217066 1931183 ~ 1946439 (+)
CI01000026_00776867_00777588 NEDD8, BRAFLDRAFT_284180, NEDD8L, NEDD8.S other upstream 2385708 776757 ~ 777830 (+)
G127979 NA other downstream 483949 3752551 ~ 3762986 (+)
CI01000026_04327206_04331151 DOK4, DOK5 other downstream 1019271 4327206 ~ 4332085 (+)
G128137 NA other downstream 1161960 4430562 ~ 4431201 (+)
CI01000026_04556074_04556964 FOXB1B, FOXB1, FOXB1A other downstream 1287174 4555776 ~ 4557613 (+)
G128585 NA other downstream 2681211 5949813 ~ 5950122 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
bowfin (Amia calva) AMCG00007255 sox6,LOC107700618,LOC107593388,LOC107754684 coding CM030123.1 CM030123.1 8981570 ~ 9011201 (-)