CI01000046_03959320_03963204 (SHMT1)


Basic Information

Item Value
gene id CI01000046_03959320_03963204
gene name SHMT1
gene type coding
species grasscarp (Ctenopharyngodon idella)
category of species economic fish

Chromosome Information

Item Value
chromosome id CI01000046
NCBI id null
chromosome length 7063170
location 3958548 ~ 3963204 (+)
genome version v1_2015/06_NatureGenetics_grasscarp_Genome

Sequence

>CI01000046_03959320_03963204.mRNA
GCATAAAGAGCGCGTACACATATTGCTCTATAACATTTGTATGTCAAAGAATCACATCGTCTCCGTTTTTATTAGTTAACGTTGCTCGCATGATAAGTATTAGTTACAGGATGTATTTCGCGGGAAAAATGTAACCCTAAAGACAGTAGTTCCGGTTTATGTGCCGCTCTATAACTGGGACCCTAATTTTATTTTACCCCTAAAGTTATCAACAAGACATGGGAAAACCTACTCAAAGCTGTGTTTCATAATCTGTCAGAAGCGTGCTCTGCGCTGGCAGCTGCAGTTGCATCATTTGATTGACAGCTGAGCAGTGTTGTTTTAGTACTATATATATCATTACGGTATTTATTCATGTTCTGAATTAGCTTTTATTGTTATATTTTCAGTTTTCGTCAGTTTTAAATATTTCTATTTAACTTATTTCACTTTGTTTGAGTAATTTTAGTACTTTAGGTAAAATATTGTATTGTTTCTGCTTTATTTCAGTTAACGACAACTGTTGTTAATAGTTTTAGTTAATAACTCTTCAGCTTTGTGCACTACACTGCAGATTCCTGAATACCAGTCTAATCAAGACTAAGTAGTTATAGAACAATACTGTGCATTTGAACCAAGAATACCCTGCTGTAAAGTTTAAGAACTCAAACTCGAGTGCATTAATGCTTGTATTACTAATGATGCAACCCAGTGTAGACAGTATGTTTTGCATATGGGAGTCTTCTCACTTTAAACAATAACATATTTTCCTCTAGACTAGAGATCATCAACTATGGCTCAGCTCAACGGCCATGATAATAAAACATGGGAATCTCATAACAAGATGATGCTGGAACCTCTGAGCACAAATGATCCTGAGGTATTTGACATAATAAAGAAGGAGAAGCGGCGGCAGACGTATGGATTGGAGCTCATTGCCTCTGAGAACTTCACTAGTCGAGCTGTTTTGGAGGCTCTTGGTTCCTGCATGAACAACAAATACTCTGAGGGTTATCCTGGTCAGAGATATTATGGAGGCACAGAGCATGTTGATGAATTGGAGCGTTTGTGTCAGGCGAGAGCTCTCAAGGTGTACGGCCTCGACCCGGATAAATGGGGAGTGAATGTTCAGCCATACTCTGGGTCACCTGCGAACTTTGCTGTATACACAGCCATAGTGGAACCTCATGGGCGGATCATGGGCCTTGATCTTCCCGATGGCGGCCATCTCACCCACGGCTTCATGACTGACAAGAAGAAAATCTCAGCCACATCTATTTTCTTTGAGTCTATGCCTTATAAGGTAAATCCAGAAACTGGGTATATTGATTATGACAGACTTGAGGAAAATGCTCGCCTCTTCCACCCAAGACTAATCATTGCAGGAACCAGCTGCTATTCCCGTAACCTGGACTACAGTCGGCTGAGGAAGATCGCAGATGAGAATGGAGCGTATCTTCTGGCAGACATGGCTCACATCAGTGGTCTGGTGGCAGCAGGAGTCGTTCCATCTCCGTTTGAATACTGTGATGTTGTTTCCACCACGACCCATAAGACCCTGAGGGGCTGCAGGGCAGGAGTCATTTTCTTTAGGAAGG

Function

symbol description
shmt1 Enables glycine hydroxymethyltransferase activity. Predicted to be involved in several processes, including L-serine metabolic process; folic acid-containing compound metabolic process; and protein homotetramerization. Predicted to act upstream of or within methylation. Located in cytosol and nucleus. Is expressed in several structures, including digestive system; immature eye; midbrain; neural tube; and oocyte. Human ortholog(s) of this gene implicated in breast cancer. Orthologous to human SHMT1 (serine hydroxymethyltransferase 1).

NR:

description
Shmt1 protein

GO: NA

KEGG:

id description
K00600 glyA, SHMT; glycine hydroxymethyltransferase

RNA

RNA id representative length rna type GC content exon number start site end site
CI01000046_03959320_03963204.mRNA True 1577 mRNA 0.41 6 3958548 3963204

Neighbor

gene id symbol gene type direction distance location
CI01000046_03953528_03957334 PDAP1B, PDAP1 coding upstream 853 3953105 ~ 3957695 (+)
CI01000046_03943890_03945302 ATP5J2 coding upstream 13176 3943794 ~ 3945500 (+)
CI01000046_03887074_03887701 NA coding upstream 70509 3886910 ~ 3888039 (+)
CI01000046_03794654_03799486 ACTG1, ACTL9, ACTB2, ACTB1, ACTB, ACTBB coding upstream 158522 3793720 ~ 3800026 (+)
CI01000046_03721265_03754551 RNF216 coding upstream 203767 3720682 ~ 3754781 (+)
CI01000046_03964744_03965521 SHMT1 coding downstream 1540 3964744 ~ 3965543 (+)
CI01000046_03971520_03980002 TOP3A coding downstream 8316 3971520 ~ 3980102 (+)
CI01000046_03982069_03996142 FLII, FLII.S coding downstream 18865 3982069 ~ 3997163 (+)
CI01000046_03998572_04009276 ZNF598 coding downstream 35368 3998572 ~ 4010216 (+)
CI01000046_04024795_04028000 DRG2 coding downstream 61347 4024551 ~ 4028000 (+)
G197039 NA non-coding upstream 7720 3950585 ~ 3950828 (+)
G197024 NA non-coding upstream 43711 3914584 ~ 3914837 (+)
G196887 NA non-coding upstream 66707 3891020 ~ 3891841 (+)
G196994 NA non-coding upstream 186470 3771842 ~ 3772078 (+)
G196846 NA non-coding upstream 313850 3644183 ~ 3644698 (+)
G196871 NA non-coding downstream 162794 4125998 ~ 4126444 (+)
G196867 NA non-coding downstream 163673 4126877 ~ 4127188 (+)
G197051 NA non-coding downstream 164409 4127613 ~ 4128009 (+)
G196870 NA non-coding downstream 165301 4128505 ~ 4128795 (+)
G197052 NA non-coding downstream 171084 4134288 ~ 4137233 (+)
G196936 NA other upstream 764277 3186995 ~ 3194271 (+)
CI01000046_02451052_02454565 MAFK other upstream 1501268 2442395 ~ 2457280 (+)
CI01000046_01865451_01881353 NA other upstream 1999400 1865451 ~ 1881369 (+)
CI01000046_01540075_01668012 HS3ST4 other upstream 2395211 1539494 ~ 1668012 (+)
G197055 NA other downstream 186219 4149423 ~ 4149780 (+)
G197121 NA other downstream 407807 4371011 ~ 4371430 (+)
G196869 NA other downstream 452326 4415530 ~ 4421687 (+)
G197352 NA other downstream 1311178 5259318 ~ 5276453 (+)
G197528 NA other downstream 1762917 5726121 ~ 5742684 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location