CI01000057_04794580_04834143 (COL2A1)


Basic Information

Item Value
gene id CI01000057_04794580_04834143
gene name COL2A1
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000057
NCBI id null
chromosome length 6014843
location 4793517 ~ 4834429 (-)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000057_04794580_04834143.mRNA
ACAGAAATGGTGCGCATGTTTGAACATTTTCGTCACTGATAAACATTGGACACGTCCTACCGCAAATTATGCCTCTGTGAAATATCGGAATGAACAGGTCAAAAAAATGATGGAATCATTATATTCATAATGCCTAAATTCATACATCACATTCAAGACTCAAAATGCATTTGACGATTAAGAGCTGAATGAACTGGACATGGCCTGTAAACAACAAACAAACACAGAGCTTAGGATTGTTTTTATATGATGCTGTTTTAACACTCTGTTTTTTATCTTTCATGCCATGATAATAACAGGCTTGCCAGGTGCTAAGGGACAAAAAGGGGAACCAGGAGACATAACAGATGTTGTGGGACCGAGGGGACCAGCCGGTCCGATGGGACCACCAGGAGAACAAGGGCCTCGCGGAGAGAGAGGAGAGAAGGGGGAGAAGGGAAGTCCAGGCCCCCGTGGAAGAGATGGTGAGCCGGGAACCCCTGGAAACCCCGGCCCTCCTGGACCACCCGGTCCAAACGGACCCCCAGGCCTCGGTGGAAACTTTGCCTCTCAGATGGCTGGTGGATTTGATGACAAAGCAGGAGCAGCACAGATGGGAGTGATGCAGGGACCAATGGGTCCGATGGGTCCACGAGGACCACCAGGCCCCAATGGATCTCCCGGCCCACAAGGATTTCAAGGCAACCCTGGAGAAGCCGGAGAGCCCGGATCATCCGGCCCAATGGGTCCTCGTGGCCCTCCTGGCCCCTCAGGAAAACCAGGAGATGATGGCGAACCTGGCAAACCTGGGAACAGTGGTGAACGTGGACCTCCCGGACCTCAGGGATATTCAGGTCTCGATGGTGCTAAAGGAGAGTCTGGAGCCGTTGGGGCAAAAGGTGAGAGCGGCTCTCCTGGAGAAAGCGGTGCTCCTGGACCGATGGGTGCTCGTGGAAATGATGGTTTGCCCGGCTCTGCTGGTCCTCCTGGTCCAGTTGGTCCGTCTGGAGCTTCCGGTTTCCCAGGATCCCCTGGTGCGAAGGGCGAAGCAGGACCTACCGGAGCCCGTGGACCCGAGGGAGCTCAAGGACCCCGTGGAGAGTCAGGTGTCCCTGGATCTCCAGGACCATCTGGAGTCTCTGGTAACCCTGGTACTGACGGCATCCCCGGAGCTAAAGGATCAGTGGGTGCTCCCGGTATTGCTGGCTCTCCTGGTTTTCCAGGCCCTCGCGGCCCTCCTGGACCGCAGGGAGCGACGGGTCCTCTGGGGCCCAAGGGACAGTCTGGTGATCCGGGTCTCGCAGGGTTCAAAGGTGAAGCTGGTCCCAAAGGAGAAATTGGTAGCGCCGGTCTTCAAGGTGCCCCTGGCCCTGCCGGAGAGGAAGGTAAACGAGGACCCAGAGGAGAGCCTGGTGCTGCTGGACCCGTCGGGCCGCCTGGAGAGAGAGGAGCTCCTGGTAATCGAGGTTTTCCTGGACAAGATGGTCTGGCTGGTCCAAAGGGCGCTCCGGGTGAGCGTGGAGCTGCGGGCGTATCGGGGCCTAAGGGAGCCAGCGGAGATCCAGGACGGCCCGGAGAACCGGGTCTGCCTGGTGCAAGGGGTGAGGCTGGGAAGGCTGGAGAGAAGGGACTCGCTGGAGCTCCGGGTTTGCGTGGTCTGCCTGGTAAAGATGGTGAGACGGGTGCTGCTGGACCACCTGGACCTGCTGGTGTTCCAGGAGAGGCTGGAGCCGCAGGGGTCACTGGACCCCGAGGTGAGCGTGGTTTCCCAGGAGAGAGAGGAGGTGCGGGGCCGCAGGGCCTCCAGGGGCCTCGTGGTTTGCCAGGAACTCCAGGAACCGACGGACCCAAGGGCGGCGTCGGTCCGGGGGGAGCTCCCGGTGCTCAGGGACCTCCGGGATTACAGGGAATGCCTGGAGAGAGAGGGACCTCTGGGATTCCTGGACCAAAGGGTGACAGAGGTGACAATGGTGAGAAAGGACCTGAAGGAGCTCCTGGGAAAGACGGCGCAAGAGGTTTAACTGGTCCAATTGGTCCTACGGGTCCTGCGGGACCCAACGGTGAAAAGGGAGAATCTGGTCCGGCGGGGCCGTCTGGAGCTGCTGGTACTCGCGGTGTTCCTGGTGACCGAGGAGAGACTGGTCCTCCTGGTGCTGCTGGTTTTGCTGGTCCACCTGGTGCAGATGGACAGCCTGGCATTAAGGGAGAGCAGGGTGAAGGTGGACAGAAGGGTGATGCCGGTGCACCGGGCCCTCAGGGGCCTTCTGGAGCTCCAGGTCCTCAGGGACCAACTGGTGTGTCTGGACCGAAAGGGGCTCGTGGTGCTCAAGGACCTCCAGGTGCCACAGGTTTCCCTGGAGCCGCAGGTAGAGTTGGACCTCCTGGTCCCAATGGTAACCCGGGTCCCGCTGGTCCTGCTGGTCCTCCTGGTAAAGATGGTCCAAAGGGTGTGCGTGGTGACGGTGGTCCTCCTGGAAGACCCGGTGACGCTGGGTTGCGTGGGTCAGCTGGTCCTGCTGGCGAGAAGGGAGATCCTGGAGAAGATGGTCCTCCCGGTCCAGATGGGCCGTCAGGTCCTCAGGGTCTGGCTGGTCAGCGTGGAATTGTTGGACTCCCTGGACAGCGGGGTGAAAGAGGTTTCCCCGGCCTGCCTGGACCCTCTGGTGAGCCTGGGAAACAAGGAGCTCCCGGAGGATCTGGAGACCGTGGACCACCTGGACCAGTGGGAGCGCCGGGTATGACCGGAGCTGCTGGAGAGCCCGGGAGAGAGGGCAATCCTGGATCTGATGGTCCTCCTGGCCGAGATGGTTCTGCGGGAATAAAGGGTGACAGAGGCGACACTGGTCCAGCTGGTGCTCCTGGTGCTCCGGGTGGTTCTGGTGCCCCTGGTCCAGTCGGACCCACTGGTAAACAGGGAGACAGAGGAGAGGCCGGACCCAAAGGACCTGCTGGATCTCCAGGGCCTGCTGGAGCTCGGGGAATGCCTGGACCACAAGGGCCACGTGGAGATAAGGGAGAAGCTGGCGACTCAGGTGAAAGAGGACAGAAAGGACATAGAGGTTTCACTGGTCTTCAAGGTCTGCCTGGGCCTCCTACCGGCGAGACTTGCGTCTATCCAAAACCCGCCAACATCCCACGCAAAAACTGGTGGACTACCAAGGGTGCTGAACGCAAACATGTTTGGTTCGGAGAAGCCATGAATGGTGGATTCCATTTTGGCTACGGAGATGACAATCTGGCACCTAATACAGCAAGTATTCAGATGACCTTCCTAAGACTGCTGTCCACAGAGGCCTCGCAGAACCTCACCTACCACTGCAAGAACAGCATCGCCTATATGGATGAGGCCAGTGGCAACCTGAAGAAGGCTCTTCTGCTGCAAGGATCCAATGATGTGGAGATCCGAGCTGAGGGCAACAGTCGCTTCACATATAGTGTTCTTGAGGATGGTTGCAAGAGACACACAGGAAAATGGAGCAAAACGGTAATTGAGTACAAATCACAGAAGACTTCACGCCTACCCATTGTGGACATCGCACCTATGGATATTGGAGGAGCACATCAGGAGTTTGGAGTGGATGTGGGAGCCGTCTGTTTCTTGTAAAGATGAAACCTGGATGCAGAAAGAATGAGAGAGACAACACACACTCGAGAGTGAGGAACAAAGAAACAGAGGAACTAAAGAACTAGACATTTTTGAGTGGGACATCTTTTTATGACTAGAAGAAAAAGTGCTTCCGAAAGTATTTTTTAGGATATGCACTGATAGGCACTAGCAGTACTCATCTGTGATTGACCGGCAGACAATCTCCCATCTCCACCCTCAGCCCTCTGGGAAAAAATCTCACAATCGAACCGAACGGTACATAAGGGAGTATGCCAGCGGAAACGACAGAAGTAGAAGTGTGTCTTGGTTTTATTTATTTATTGTTAAGGTGCTATCCCTCCCTTCCCGTGCATTTGGATCAAGAGTTGTACGTCAGTGTAGTACTTTAGCATTTTCATCTACAATTATTCGACTCAAATGCACCCTGAACTCTGACAATCACATGCAAGTGTTCGTCTTTCTTGTCGCCACAGTGTATGTAAATTACTGTGCATTAAAACATAATCAATGGTGCTAATCTTTTAAAACACCCTGCTTTTTTTCTCCAATGACCAGATAGACATCTAATAGTTTGTGTATATGTGCGCACGTGCGTTGAAGTTGGGTTTTCTTTCTACCTGTTATGTCACACTATTCAAAGAGACTGTTCACGCAAGTGGTCTGTAGCCCAGTTTTGAATTTCATTTTTAAGCTACCTCATGCTGGACAAAACAATCAGAAAAAGTAAAGCCTTACTAATTTGTAAAGTCAGCATAAAGATAGAATTCAAAAGATAAATTCAGTTCTTTTATCGGCTCCATCCTACTCTTTATAAAATCGGCCCTAAGCACATTGAATTAAAAAAACCTTCAATTGGTCTCCTGTCTTTTGAAAGCCTATACATATGTGATAGTGGAAAAGTCTTATTGTTTTCATTTTCTTGTTTTATGGTTTTAATGAATGCAGATGTTTAAAATGTACAACTTTTTTCTTCCTTTGGTTTTAGTTGCACTCTTAGATGTAGGGCAAGAGCTTACAGTATGTGCGTTGTGTTGCTTTAAGTTGTTTTTGCTAAAATAAA

Function

symbol description
col2a1 Enables MHC class II protein binding activity; platelet-derived growth factor binding activity; and proteoglycan binding activity. Involved in several processes, including collagen fibril organization; embryonic skeletal joint morphogenesis; and sensory perception of sound. Located in extracellular space. Part of collagen type II trimer. Implicated in Stickler syndrome (multiple); bone disease (multiple); cleft palate; eye disease (multiple); and multiple epiphyseal dysplasia with myopia and deafness.

GO:

id name namespace
GO:0005201 extracellular matrix structural constituent molecular_function

KEGG:

id description
K19719 COL2A; collagen type II alpha

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000057_04794580_04834143.mRNA True 4646 mRNA 0.54 43 4793517 4834429

Neighbor

gene id symbol gene type direction distance location
CI01000057_04787300_04788191 NA coding downstream 5326 4786712 ~ 4788191 (-)
CI01000057_04743808_04746558 NA coding downstream 45420 4743406 ~ 4748097 (-)
CI01000057_04728914_04731946 NA coding downstream 59794 4728872 ~ 4733723 (-)
CI01000057_04718947_04721031 NA coding downstream 72441 4718918 ~ 4721076 (-)
CI01000057_04657451_04663499 NRAMP-BETA, SLC11A2, NRAMP-ALPHA coding downstream 130018 4657262 ~ 4663499 (-)
CI01000057_04861618_04865902 ITGA7 coding upstream 27189 4861618 ~ 4865902 (-)
CI01000057_04866089_04878847 ITGA7 coding upstream 31660 4866089 ~ 4878847 (-)
CI01000057_04891502_04906844 ELMO2 coding upstream 55806 4890235 ~ 4906844 (-)
CI01000057_04916382_04926437 ARFGAP1 coding upstream 81953 4916287 ~ 4926437 (-)
CI01000057_04927533_04931127 CDK4 coding upstream 93104 4927533 ~ 4931420 (-)
G246676 NA non-coding downstream 12465 4780766 ~ 4781052 (-)
G246669 NA non-coding downstream 43376 4749815 ~ 4750141 (-)
G246662 NA non-coding downstream 68339 4724516 ~ 4725178 (-)
G246658 NA non-coding downstream 79158 4714091 ~ 4714359 (-)
G246600 NA non-coding downstream 138078 4654977 ~ 4655439 (-)
G246703 NA non-coding upstream 28375 4862804 ~ 4863182 (-)
G246682 NA non-coding upstream 102522 4936951 ~ 4937172 (-)
G246750 NA non-coding upstream 110969 4945398 ~ 4945752 (-)
G246751 NA non-coding upstream 111958 4946387 ~ 4946622 (-)
CI01000057_03887278_03892054 ABHD8B, ABHD8 other downstream 895826 3887203 ~ 3892054 (-)
CI01000057_01904867_01921400 NA other downstream 2872096 1904533 ~ 1921905 (-)
CI01000057_01801708_01806454 LHFPL5, LHFPL5A other downstream 2988364 1801528 ~ 1806454 (-)
G244358 NA other downstream 4222489 570530 ~ 571028 (-)
G246780 NA other upstream 376681 5086312 ~ 5283617 (-)
CI01000057_05925181_05926068 NA other upstream 1089111 5923540 ~ 5927295 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location