CI01000016_04246693_04261518 (VARS2, VARS)


Basic Information

Item Value
gene id CI01000016_04246693_04261518
gene name VARS2, VARS
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000016
NCBI id null
chromosome length 12175457
location 4246693 ~ 4261629 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000016_04246693_04261518.mRNA
ATGGACACTCTTTACATCTCTTCCCACCCTGATGACTTCAGGAGTTTGTTGCCCTTGATCGCTGCAGAATTCTTTCAATCTCCTTTACGAATACTCCATGAGGACCCTCCGGCTGAGGTGGCGAGAACTCGTCCTGCACTGGTCTTAGGGGGTGCGGGCGGCTCGGTGATCACCGGTTCCAGTGCTGTGAGCTGGTACCTGGCAGCAGCGGGCAAACGGACAGGCAGCGATAAGAAGCAGGAAAGTAAGGTGTGGCAATGGCTGTGCTTTGCTGAGAATGAGCTGAGGCCAGTGGCTTGCGCTGTTACATTCCCCCTGCTGGGTGTCATGGGTGTTGATAAGAAGCTTCAGCAGAGTTCCAGAGCAGAGCTGCTGCGTATTCTAAAAACTCTAGATGAGACTCTAGCACCGCGGACATTCCTGGTAGGAGAGGGCCTGACTCTGGCGGATATGGTCATTGCTTTGGCAGTACTGCTGCCATTCAAATATCCACAATTCCTGAAGGTGTTGGGTAAAATCTCACTGTGTGAGAAAATGGTGCCTGTGACCACCAATCCCAGCGCTGCCACCAATGCCACATCGACTGCTGCTTCTGATGCTGCTACACCAGACAGCACACCTGGTAATGAGATAGACAGACAGCTGATCTTGCCATATTGTTTATTCTTCCGTTCCCTCCAACAGAAAAAGGCCAAACCTGAGAAGAAGGAACTGGGTGTGATTACCTACAACATACCCACGCCTTCTGGAGAGAAAAAAGATGTCTTGAGTCCTCTGCCTGATTCTTACAGTCCTCAGTATGTGGAAGCGGCCTGGTATTCCTGGTGGGAAAAACAAGGATTTTTCAAGCCTGAATATGGGAGAAAGAATGTAAGTGAGCCAAACCCACGTGGCGTGTTCATGATGTGTATTCCTCCACCTAATGTGACTGGATCCCTCCACCTTGGTCACGCTTTGACCAATGCAATTCAGGACTGCCTGACAAGATGGCACAGGATGAGAGGAGAGACCACACTGTGGAATCCCGGCTGTGATCACGCTGGTATCGCCACACAGGTGGTGGTGGAGAAGAAACTGATGAGAGAGCGGCAGATGAGCAGACATGATCTCGGGAGAGAGAAATTCATCCAGGAGGTCTGGAAATGGAAGAACGAAAAGGGAGATCGCATCTATCACCAGCTGAAGAAGCTGGGCTCTTCTCTGGACTGGGACAGAGCTTGTTTTACCATGGATACTAAACTGTCATATGCAGTCCAGGAGGCATTCATACGTATGCATGAGGAAGGTGTGATCTACAGGAGCAAGAGACTCGTCAACTGGTCCTGCACCCTCAACTCCGCCATCTCTGACATAGAGGTCGATAAAAAGGAGCTGACAGGGCGAACCCTTCTTCCTGTGCCTGGTTATAAGGAGAAGGTCGAGTTTGGAGTGTTGGTGTCTTTCTCTTACAAGATCGAAGGATCAGATGAGGAGGTGGTAGTGGCCACCACCCGTATTGAGACCATGCTTGGAGACACAGCTGTAGCCGTCCACCCTAATGACCCCAGATATCAGCATCTCAAAGGAAAGATGGTCGTTCACCCGTTCTGTGACAGAAAGATGCCCATCGTGTTTGATGACTTTGTTGATATGAACTTTGGAACAGGTGCTGTGAAGATCACTCCTGCTCATGACCATAATGATTATGAGGTGGGAGAGAGACACAAACTGCCCTTCATCAACATCCTGGATGAAAATGGCCTCCTAATCAATGTTCCTCCCCCATTCCTGGGGATGAAACGCTTTGAGGCGAGGAAAACTGTGCTCCAGGCTCTGAAAGATAGAGGGCAGTTTAAGGAGGTCAAAGACAATCCCATGGTGGTGCCCGTCTGCAGCCGTTCTAAGGACATAGTGGAGCCTCTGCTGAAGCCTCAGTGGTACGTGGACTGCAGAGAGATGGGAAAGCAGGCTGCAGATGTCGTCAGAAATGGAGAGCTCAAGATCATCCCTGACCACCACCTCAAAACCTGGTTCAACTGGATGGACAACATCAGGGACTGGTGCATCTCACGGCAGTTGTGGTGGGGCCACAGGATACCAGCGTATTTTGTGACTGTGAATGATCCGTCAGTCAAACCAGGCGAGGATATGGACGGACATTATTGGGTCAGCGGTAGATCAGAGGAGGAAGCCAGAGAAAAAGCTGCCAAGCGCTTCAATGTCACTGCAGACAAAATCTCTCTACGCCAGGATGAGGATGTGTTGGACACTTGGTTCTCCTCAGGGATCTTCCCCTTCTCCATCTTTGGTTGGCCCAATGAGTCAGAGGACCTGAGAGTCTTCTACCCAGGAACGCTGTTAGAGACGGGCCACGATATCCTGTTCTTCTGGGTGGCTCGTATGGTCATGATGGGTCTCAAACTTACTGGAAAACTACCTTTCAAAGAGGTGTACCTGCATGCAGTGGTACGAGATGCCCATGGCAGGAAAATGAGCAAGTCTCTCGGTAACGTCATCGACCCTCTGGACGTCATCACTGGCATTTCACTGGAGGGTCTTCACACTCAACTAACAGACAGTAATCTAGACCTTCTGGAGATTGAGAAGGCCAAACAGGGACAGAAATCTGACTATCCCAGTGGAATTCCAGAATGCGGGACTGACGCGCTCAGATTTGCTCTATGTGCTTATACCAGTCAAGGCCGAGACATTAATCTGGACGTGAACAGGATTCTGGGATACAGGCATTTCTGTAACAAGCTGTGGAACGCAGTGAAGTTTGCCATGAGGACTCTGGGAGAGGGATTTGTTCCCTGCGAAAAAGCTCAGCTGTGTGGCAGCGAAAGTGTGTCTGATCGCTGGATTCTGTCCCGTCTGAGCGCAGCAGTAGCGCTGTGTGATAACGGATTCCAGGCCTACGATTTTCCGACAATCACCACTGCCATCTACAATTTCTGGCTGTACGAGCTCTGTGATGTTTATCTGGAAAGTGTGAAGCCAGTGTTGAGCAGGACAGATTCAGAAGGGCAAAAACAGGCAGACATCTGCAGACAGACTCTCTACACCTGTCTGGAGGTGGGACTCCGCCTCCTGTCCCCTATCATGCCTTTTGTTTCTGAAGAGCTCTTCCAGCGGTTGCCAAGGAGACTGCCTCAGGACAGCCCCGCCAGCATCTGTGTCACACCTTATCCAGACACTTCAGAGTTCTGCTGGCACAGCGAGGAGGTCGACCGTCAGATGGAGTTTGTCATGTCTGTGGTCAGAACCATCCGATCACTCAGGGCCGATTACAACTTGACCAAGACCCGCGCCGACTGTTACCTGCAGTGCGTAGACTCTGATACTTCGGCTCTGGTCCAGATGTACAATCTGCAGATCCAGACACTGTCTTACTCTCAGACCATTCACCCAGTGGTTGGAGGAGACAACACTATCCCACAAGGCTGTGCGGTGGCCATCGCCTCAGATAAATGCACTGTTCACCTCATGCTGAAGGGTTTGATTGACTTGGAAAAGGAGGTCACTAAACTGACAGCAAAGAAAGGGGAGCTGGAGAAACAGATGGAAAAGTTGAAGGAAAAGATGGCCAAGAATGACTACAAGGAGAAAGTTCCTGTTAAAGTGCAGGAGGCAGATGCTGAGAAACTGAGGCAGAATGAAGCAGAACTGCAGAAAGTGAAGGAAGCCATCGAGAACTTCAGAAAGATGATGTAACAGCTCACCTTTATCATGTTTTTTTTTTTTATCATTTATGAACATTGAGATCCTTTCCTTTGTGTTTGTCACTCAGTCCTGTCTACTGAACAATAATGTGGGGAAGCTTGA

Function

symbol description
vars2 Predicted to enable valine-tRNA ligase activity. Predicted to be involved in valyl-tRNA aminoacylation. Predicted to act upstream of or within tRNA aminoacylation for protein translation. Predicted to be active in cytosol. Human ortholog(s) of this gene implicated in combined oxidative phosphorylation deficiency 20. Orthologous to human VARS2 (valyl-tRNA synthetase 2, mitochondrial).
vars Predicted to enable valine-tRNA ligase activity. Predicted to be involved in valyl-tRNA aminoacylation. Predicted to act upstream of or within translation. Located in mitochondrion. Is expressed in several structures, including alimentary system; cranium; genitourinary system; midbrain; and telencephalon. Orthologous to human VARS1 (valyl-tRNA synthetase 1).

GO:

id name namespace
GO:0005737 cytoplasm cellular_component

KEGG:

id description
K01873 VARS, valS; valyl-tRNA synthetase

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000016_04246693_04261518.mRNA True 3804 mRNA 0.50 29 4246693 4261629

Neighbor

gene id symbol gene type direction distance location
CI01000016_04234275_04238405 INO80E coding upstream 8192 4234275 ~ 4238501 (+)
CI01000016_04212233_04219411 NA coding upstream 26924 4211797 ~ 4219769 (+)
CI01000016_04204029_04208418 MDC1 coding upstream 37978 4204029 ~ 4208715 (+)
CI01000016_04193887_04198494 TUBB4B, TUBB4A, TUBB5, TUBB, TBB5, TUBB2B coding upstream 47313 4193887 ~ 4199380 (+)
CI01000016_04156457_04176927 DDR1 coding upstream 69058 4156457 ~ 4177635 (+)
CI01000016_04321053_04331396 NA coding downstream 59424 4321053 ~ 4332239 (+)
CI01000016_04365155_04367358 NA coding downstream 102656 4364285 ~ 4367947 (+)
CI01000016_04400456_04412173 ATP1A3A, ATP1A3B, ATP1A3 coding downstream 138827 4400456 ~ 4413072 (+)
CI01000016_04428669_04441464 DEDD1 coding downstream 167040 4428669 ~ 4441464 (+)
CI01000016_04491680_04506535 POU2F2A coding downstream 229747 4491376 ~ 4506806 (+)
G95445 NA non-coding upstream 64752 4077383 ~ 4181941 (+)
G95626 NA non-coding upstream 245593 4000781 ~ 4001100 (+)
G95623 NA non-coding upstream 252612 3993806 ~ 3994081 (+)
G95622 NA non-coding upstream 253219 3993274 ~ 3993474 (+)
G95621 NA non-coding upstream 253432 3993037 ~ 3993261 (+)
G95649 NA non-coding downstream 109952 4371581 ~ 4371833 (+)
G95650 NA non-coding downstream 111357 4372986 ~ 4373220 (+)
G95659 NA non-coding downstream 156259 4417888 ~ 4418614 (+)
G95673 NA non-coding downstream 255247 4516876 ~ 4517094 (+)
G95439 NA other upstream 382836 3862175 ~ 3862305 (+)
G93406 NA other upstream 3319161 905400 ~ 927532 (+)
G95648 NA other downstream 11007 4272636 ~ 4273905 (+)
CI01000016_04829592_04837305 NA other downstream 572929 4829592 ~ 4837457 (+)
G95792 NA other downstream 958251 5219880 ~ 5225941 (+)
CI01000016_05405791_05407797 AICDA other downstream 1144240 5405791 ~ 5407963 (+)
G96389 NA other downstream 2899012 7160641 ~ 7161290 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
zebrafish (Danio rerio) XLOC_009722 vars1 coding NC_007127.7 CM002900.2 10429770 ~ 10475814 (+)
bowfin (Amia calva) AMCG00006417 vars2,vars,LOC107379499 coding CM030134.1 CM030134.1 4109975 ~ 4123637 (-)