phgdh (phgdh)


Basic Information

Item Value
gene id phgdh
gene name phgdh
gene type misc
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047599.1
NCBI id CM018545.1
chromosome length 32114633
location 21136046 ~ 21144621 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_026912937.2
CCTCCACGCGCTCCACTGATCATGACGCAAAATCAGTTCACGCACGCACACGTGCCCTGCAGCTCCCGCAAGTTGCATCCCGCAGGATGAGAGAAATGGCTCCGGTCGCAATCAAGCGCGTTTTGATAAGCGAAAGTGTGGATCCGTGCTGCAAGAAGATTTTGCAGGAAAATGGAATTGAAGTGAGTGAAAAACCCAATATGAGCAAAGATGAGCTGAAAGCGCAGATTAAGGATTTTGATGGTCTGGTTGTCCGGTCAGCTACCAAAGTGAGCGCTGACGTCATCGAATCCGCCGGCAGCTTGAAGCTGATTGGACGAGCTGGAACGGGCGTGGACAACGTGGACGTGGAGGCGGCCACCAAGAAAGGGATAATTGTCATGAACACTCCAAGTGGCAACACAATCAGTGCTGCTGAACTGACCTGTGCCCTTGTGATGAGTTTATCAAGaAATGTTCCACAAGCTGCTATGTCAATGAAGGCAGGAAACTGGGATCGTAAAAAGTTCATGGGTGCAGAGTTGTACGGCAAAACCCTTGGAATAATTGGACTTGGAAGAATCGGGAAAGAGGTGGCCACTAGAATGCAGTCTTTTGGGATGAGGACCATTGGTTATGACCCCATTACTCCTCCAGAGGTGTCTAAGAGCTGGGGGGTGGAGCAGATGTCTCTGGAGGAGCTCTGGCCCCAGTGTGATTACATCACCGTGCATACGCCCCTCATGCCCTCCACTACAGGATTACTGAATGATGCCTCATTTGCTAAATGTAAGAGAGGTGTGAAGGTGGTGAACTGTGCCCGCGGAGGCATCATTGATGAAGCTGCTTTGCTAAGAGCTCTGGAGTCTGGGCAGTGTGGAGGAGCAGGATTGGATGTGTTTGTAGAGGAGCCTCCTAAAGACCGGGCCCTGGTGAACCACCCTAATGTGATCAGCTGCCCACATCTGGGAGCCAGCACAAAGGAGGCCCAGGCTCGCTGTGGCCAGGACATTGCACTGCAGATTGTGGACATGGTCAAAGGCAAAGCATTAGTGGGAGCGGTGAACGCACAGGTTCTGGCTAGCACCTTTACCCCTGAGTCTCAGCAATGGATCAGGCTGGGTGAGGCCTTGGGCAGATTGCTGAAGGCCTGCAACTCTACTAAACAGCCCTACGACCAAGTCCACATCACCACACAAGGAGAGTGTTTGAAGAAATCAGCTGAGTTTCTGAGCTCAGCAGCTGTTGTTGGATTGATGGCTGAAAGCTCTGAGAATGGCCTTAACCTGGTGAATGCTCTCACGCTAGCGGAAGAGACAGGAATTACAATTAAAAAAGGCCACAGTGATGGGAATGACGCTAAAGCCACCTGCATGTTGGAAGCCTCTGTGAATAGCAGTGTTTATAAAGCTTCAGGCACGGTGCAGACCACAGTGCCAGTCCTTCTGGAGCTGAACGGCAGTGTGTTCAGGCAGCCAGTGCCTCTCTCTGGAAACCTGTTGTTTTTCAGGGCTGCAACTTCACCTCAGCTCCTGCCCTCTGTTACCGGTGTGCTGGCAGCGGCGGGGGTCGAGATCGATCACTTCAGTGCCTCCAGTGCCTCTGGTGGTGATCAGTGGTACTGCGTGGGGGTTCCCTCTGTGCTGGAAGACCTCAGCACTCTCATGCCCCTGGTGAAAGAGGCAGCACAACTTGCTGTTTAAGTTCCTGCTAACTGGATGTTGGTgggaattttctgtaacattccAATGTCTTACATTCTAAGTATTCAAAGAGTTTTCTAGTCCTGGGGATTCCCTGCATAATGGATCCAGCTCATTACTGCATTTTTAATCTAACCTCTGTCCTTTGCATCTGTAACATTAAGTAATTACTATAGACAAGAACAGTTCTCATTAACATTTGCTGACATTCCAAAGCTGGTTTTAGGCTTCCACTGTAAGTGATAAGGGAAATGTATTGAAATGATTGGTTGTGATAATATGCTGCTGATGCTACAGAAGGATTTTAGGTTGAAAGTATgttgaaatgatcatttaacCGTTTCACAAATTGGGGTGGGTGTGTTGGGAGCAAACCCTGAAATCGTGGAATCCCTAGAATTGGAGATAAGTAATCTTGATCTAACACAAACATAGCTTACTCTTAgtgcacaggttcccaaccctggtcctggagtaccccctgtcctgtacatattagtgttttccctgctctaacacacccacttcaattCAAGAaaggctgttaattagctgattagttgattGAGTTGTGTTGGGAACA
>XR_004578270.1
CCTCCACGCGCTCCACTGATCATGACGCAAAATCAGTTCACGCACGCACACGTGCCCTGCAGCTCCCGCAAGTTGCATCCCGCAGGATGAGAGAAATGGCTCCGGTCGCAATCAAGCGCGTTTTGATAAGCGAAAGTGTGGATCCGTGCTGCAAGAAGATTTTGCAGGAAAATGGAATTGAAGTGAGTGAAAAACCCAATATGAGCAAAGATGAGCTGAAAGCGCAGATTAAGGATTTTGATGGTCTGGTTGTCCGGTCAGCTACCAAAGTGAGCGCTGACGTCATCGAATCCGCCGGCAGCTTGAAGCTGATTGGACGAGCTGGAACGGGCGTGGACAACGTGGACGTGGAGGCGGCCACCAAGAAAGGGATAATTGTCATGAACACTCCAAGTGGCAACACAATCAGTGCTGCTGAACTGACCTGTGCCCTTGTGATGAGTTTATCAAGaAATGTTCCACAAGCTGCTATGTCAATGAAGGCAGGAAACTGGGATCGTAAAAAGTTCATGGGTGCAGAGTTGTACGGCAAAACCCTTGGAATAATTGGACTTGGAAGAATCGGGAAAGAGGTGGCCACTAGAATGCAGTCTTTTGGGATGAGGACCATTGGTTATGACCCCATTACTCCTCCAGAGGTGTCTAAGAGCTGGGGGGTGGAGCAGATGTCTCTGGAGGAGCTCTGGCCCCAGTGTGATTACATCACCGTGCATACGCCCCTCATGCCCTCCACTACAGGATTACTGAATGATGCCTCATTTGCTAAATGTAAGAGAGGTGTGAAGGTGGTGAACTGTGCCCGCGGAGGCATCATTGATGAAGCTGCTTTGCTAAGAGCTCTGGAGTCTGGGCAGTGTGGAGGAGCAGGATTGGATGTGTTTGTAGAGGAGCCTCCTAAAGACCGGGCCCTGGTGAACCACCCTAATGTGATCAGCTGCCCACATCTGGGAGCCAGCACAAAGGAGGCCCAGGCTCGCTGTGGCCAGGACATTGCACTGCAGATTGTGGACATGGTCAAAGGCAAAGCATTAGTGGGAGCGGTGAACGCACAGGTTCTGGCTAGCACCTTTACCCCTGAGTCTCAGCAATGGATCAGGCTGGGTGAGGCCTTGGGCAGATTGCTGAAGGCCTGCAACTCTACTAAACAGCCCTACGACCAAGTCCACATCACCACACAAGGAGAGTGTTTGAAGAAATCAGCTGAGTTTCTGAGCTCAGCAGCTGTTGTTGGATTGATGGCTGAAAGCTCTGAGAATGGCCTTAACCTGGTGAATGCTCTCACGCTAGCGGAAGAGACAGGAATTACAATTAAAAAAGGCCACAGTGATGGGAATGACGCTAAAGCCACCTGCATGTTGGAAGCCTCTGTGAATAGCAGTGTTTATAAAGCTTCAGGCACGGTGCAGACCACAGTGCCAGTCCTTCTGGAGCTGAACGGCAGTGTGTTCAGGCAGCCAGTGCCTCTCTCTGGAAACCTGTTGTTTTTCAGGGCTGCAACTTCACCTCAGCTCCTGCCCTCTGTTACCGGTGTGCTGGCAGCGGCGGGGGTCGAGATCGATCACTTCAGTGCCTCCAGTGCCTCTGGTGGTGATCAGTGGTACTGCGTGGGGGTTCCCTCTGTGCTGGAAGACCTCAGCACTCTCATGCCCCTGGTGAAAGAGGCAGCACAACTTGCTGTTTAAGTTCCTGCTAACTGGATGTTGGTgggaattttctgtaacattccAATGTCTTACATTCTAAGTATTCAAAGAGTTTTCTAGTCCTGGGGATTCCCTGCATAATGGATCCAGCTCATTACTGCATTTTTAATCTAACCTCTGTCCTTTGCATCTGTAACATTAAGTAATTACTATAGACAAGAACAGTTCTCATTAACATTTGCTGACATTCCAAAGCTGGTTTTAGGCTTCCACTGTAAGTGATAAGGGAAATGTATTGAAATGATTGGTTGTGATAATATGCTGCTGATGCTACAGAAGGATTTTAGGTTGAAAGTATgttgaaatgatcatttaacCGTTTCACAAATTGGGGTGGGTGTGTTGGGAGCAAACCCTGAAATCGTGGAATCCCTAGAATTGGAGATAAGTAATCTTGATCTAACACAAACATAGCTTACTCTTAgtgcacagGGTCTACTCCAGGACCAAAGTTTGGAACCTGTGTTAGTGCAATATAGAATTACTGTGATAAGCTTAAAACTCAGTTTAAGTACCAGGCAGCGAGAGTTTGTCAGTGTAGTGGTTTGTAAGCTACATTTGAATTTTCTGAACCACATTAAATAGAACTGCTACTAACAAGACTAAGCAGTGATATTTTTCTAGCAAAGCGGTTAGTAaaaggatgaatggatggatggatggatgtatgaTACTTAATTGATTCCTCAGACTCAGTCCTGGAGGACTGGAGTCTTGCACAATTTGATTTCCCTGATTAAAGACAAATTATTCACGTCATCAGTTAATTAACAGTCTTGGTAGGTGTGTTGGAGTAGAAAAATCACTGCCCTGCTTGAATCTAGTCTCTCCAGAACAGGATTTGGGGAAACCTAAGCTACAATTTCACATGACATTAAGCGGGGTGTGTAAAGGCCTCAGCTtgggttacagtctgtgtggaattttgcaTTTCCGTTTGCCTTCATATGGGTtttttctgggttctctggtttcctcctacctcccaaaatcatgccagtaggtgaattggctactctaaattgcccctaggtctgagtgtgtgtgtgtgtgtgtgtgtgtgcacgcagggtgccagggtgtattcccacctcacacctaggataggctccggatccaccacgatCCTGGCCAAGGTAAAGCACTTGAaggaaaagaatgaatgaatgaatgaatgaatgattcaaCTCAACAGTTTATTAATAGACTTGATGTGATGGTGTAGAAAATCTCCACACTGCTCGAGTCCATTTCACCTGACATTAAGCTGGTTTTGTAATAGGTTTAACTAATGTAGAAATGTTAAACACTACATAGTTGAACAAGTAGCtcatttgtacttaaaaaatgtGGATTGTGAATGATTAAAAGCAATATGACAAGTa
>XR_004578271.1
CCTCCACGCGCTCCACTGATCATGACGCAAAATCAGTTCACGCACGCACACGTGCCCTGCAGCTCCCGCAAGTTGCATCCCGCAGGATGAGAGAAATGGCTCCGGTCGCAATCAAGCGCGTTTTGATAAGCGAAAGTGTGGATCCGTGCTGCAAGAAGATTTTGCAGGAAAATGGAATTGAAGTGAGTGAAAAACCCAATATGAGCAAAGATGAGCTGAAAGCGCAGATTAAGGATTTTGATGGTCTGGTTGTCCGGTCAGCTACCAAAGTGAGCGCTGACGTCATCGAATCCGCCGGCAGCTTGAAGCTGATTGGACGAGCTGGAACGGGCGTGGACAACGTGGACGTGGAGGCGGCCACCAAGAAAGGGATAATTGTCATGAACACTCCAAGTGGCAACACAATCAGTGCTGCTGAACTGACCTGTGCCCTTGTGATGAGTTTATCAAGaAATGTTCCACAAGCTGCTATGTCAATGAAGGCAGGAAACTGGGATCGTAAAAAGTTCATGGGTGCAGAGTTGTACGGCAAAACCCTTGGAATAATTGGACTTGGAAGAATCGGGAAAGAGGTGGCCACTAGAATGCAGTCTTTTGGGATGAGGACCATTGGTTATGACCCCATTACTCCTCCAGAGGTGTCTAAGAGCTGGGGGGTGGAGCAGATGTCTCTGGAGGAGCTCTGGCCCCAGTGTGATTACATCACCGTGCATACGCCCCTCATGCCCTCCACTACAGGATTACTGAATGATGCCTCATTTGCTAAATGTAAGAGAGGTGTGAAGGTGGTGAACTGTGCCCGCGGAGGCATCATTGATGAAGCTGCTTTGCTAAGAGCTCTGGAGTCTGGGCAGTGTGGAGGAGCAGGATTGGATGTGTTTGTAGAGGAGCCTCCTAAAGACCGGGCCCTGGTGAACCACCCTAATGTGATCAGCTGCCCACATCTGGGAGCCAGCACAAAGGAGGCCCAGGCTCGCTGTGGCCAGGACATTGCACTGCAGATTGTGGACATGGTCAAAGGCAAAGCATTAGTGGGAGCGGTGAACGCACAGGTTCTGGCTAGCACCTTTACCCCTGAGTCTCAGCAATGGATCAGGCTGGGTGAGGCCTTGGGCAGATTGCTGAAGGCCTGCAACTCTACTAAACAGCCCTACGACCAAGTCCACATCACCACACAAGGAGAGTGTTTGAAGAAATCAGCTGAGTTTCTGAGCTCAGCAGCTGTTGTTGGATTGATGGCTGAAAGCTCTGAGAATGGCCTTAACCTGGTGAATGCTCTCACGCTAGCGGAAGAGACAGGAATTACAATTAAAAAAGGCCACAGTGATGGGAATGACGCTAAAGCCACCTGCATGTTGGAAGCCTCTGTGAATAGCAGTGTTTATAAAGCTTCAGGCACGGTGCAGACCACAGTGCCAGTCCTTCTGGAGCTGAACGGCAGTGTGTTCAGGCAGCCAGTGCCTCTCTCTGGAAACCTGTTGTTTTTCAGGGCTGCAACTTCACCTCAGCTCCTGCCCTCTGTTACCGGTGTGCTGGCAGCGGCGGGGGTCGAGATCGATCACTTCAGTGCCTCCAGTGCCTCTGGTGGTGATCAGTGGTACTGCGTGGGGGTTCCCTCTGTGCTGGAAGACCTCAGCACTCTCATGCCCCTGGTGAAAGAGGCAGCACAACTTGCTGTTTAAGTTCCTGCTAACTGGATGTTGGTgggaattttctgtaacattccAATGTCTTACATTCTAAGTATTCAAAGAGTTTTCTAGTCCTGGGGATTCCCTGCATAATGGATCCAGCTCATTACTGCATTTTTAATCTAACCTCTGTCCTTTGCATCTGTAACATTAAGTAATTACTATAGACAAGAACAGTTCTCATTAACATTTGCTGACATTCCAAAGCTGGTTTTAGGCTTCCACTGTAAGTGATAAGGGAAATGTATTGAAATGATTGGTTGTGATAATATGCTGCTGATGCTACAGAAGGATTTTAGGTTGAAAGTATgttgaaatgatcatttaacCGTTTCACAAATTGGGGTGGGTGTGTTGGGAGCAAACCCTGAAATCGTGGAATCCCTAGAATTGGAGATAAGTAATCTTGATCTAACACAAACATAGCTTACTCTTAgtgcacagGACCAAAGTTTGGAACCTGTGTTAGTGCAATATAGAATTACTGTGATAAGCTTAAAACTCAGTTTAAGTACCAGGCAGCGAGAGTTTGTCAGTGTAGTGGTTTGTAAGCTACATTTGAATTTTCTGAACCACATTAAATAGAACTGCTACTAACAAGACTAAGCAGTGATATTTTTCTAGCAAAGCGGTTAGTAaaaggatgaatggatggatggatggatgtatgaTACTTAATTGATTCCTCAGACTCAGTCCTGGAGGACTGGAGTCTTGCACAATTTGATTTCCCTGATTAAAGACAAATTATTCACGTCATCAGTTAATTAACAGTCTTGGTAGGTGTGTTGGAGTAGAAAAATCACTGCCCTGCTTGAATCTAGTCTCTCCAGAACAGGATTTGGGGAAACCTAAGCTACAATTTCACATGACATTAAGCGGGGTGTGTAAAGGCCTCAGCTtgggttacagtctgtgtggaattttgcaTTTCCGTTTGCCTTCATATGGGTtttttctgggttctctggtttcctcctacctcccaaaatcatgccagtaggtgaattggctactctaaattgcccctaggtctgagtgtgtgtgtgtgtgtgtgtgtgtgcacgcagggtgccagggtgtattcccacctcacacctaggataggctccggatccaccacgatCCTGGCCAAGGTAAAGCACTTGAaggaaaagaatgaatgaatgaatgaatgaatgattcaaCTCAACAGTTTATTAATAGACTTGATGTGATGGTGTAGAAAATCTCCACACTGCTCGAGTCCATTTCACCTGACATTAAGCTGGTTTTGTAATAGGTTTAACTAATGTAGAAATGTTAAACACTACATAGTTGAACAAGTAGCtcatttgtacttaaaaaatgtGGATTGTGAATGATTAAAAGCAATATGACAAGTa

Function

symbol description
phgdh Predicted to enable phosphoglycerate dehydrogenase activity. Predicted to act upstream of or within L-serine biosynthetic process. Human ortholog(s) of this gene implicated in Neu-Laxova syndrome 1; PHGDH deficiency; and amino acid metabolic disorder. Orthologous to human PHGDH (phosphoglycerate dehydrogenase).

NR:

description
D-3-phosphoglycerate dehydrogenase-like

GO:

id name namespace
GO:0055114 oxidation-reduction process biological_process
GO:0006564 L-serine biosynthetic process biological_process
GO:0004617 phosphoglycerate dehydrogenase activity molecular_function
GO:0051287 NAD binding molecular_function

KEGG:

id description
K00058 serA, PHGDH; D-3-phosphoglycerate dehydrogenase / 2-oxoglutarate reductase

RNA

RNA id representative length rna type GC content exon number start site end site
XM_026912937.2 False 2265 mRNA 0.49 12 21137022 21144621
XR_004578270.1 True 3088 misc_RNA 0.46 13 21136046 21144621
XR_004578271.1 False 3076 misc_RNA 0.46 13 21136046 21144621

Neighbor

gene id symbol gene type direction distance location
klhl23 klhl23,LOC108423963 coding downstream 180 21131344 ~ 21135866 (-)
ihha ihh,ihha coding downstream 35219 21093088 ~ 21100827 (-)
tmem198a tmem198a,LOC108267037,LOC108423970,LOC107688741,LOC107716788,LOC107602903,LOC107721592,LOC107551083,LOC107668403 coding downstream 67693 21044425 ~ 21068353 (-)
ptprna ptprn,LOC108423971,LOC107688743,LOC107551086,LOC107716786,LOC107602900,LOC107668387 coding downstream 110308 21000218 ~ 21025738 (-)
mnx2a LOC108266177 coding downstream 171065 20961173 ~ 20964981 (-)
klhl41a klhl41,klhl41a,LOC108423959 coding upstream 27247 21171868 ~ 21176222 (-)
bbs5 bbs5 coding upstream 32258 21176879 ~ 21183934 (-)
col28a2a LOC108266197,LOC108423871 coding upstream 41290 21185911 ~ 21205991 (-)
zgc:172182 ccdc89 coding upstream 66669 21211290 ~ 21216144 (-)
LOC117597436 NA coding upstream 196963 21341584 ~ 21344395 (-)
G86350 NA non-coding downstream 108214 21027526 ~ 21027832 (-)
LOC113547596 NA non-coding downstream 159891 20965900 ~ 20976155 (-)
G86260 NA non-coding downstream 335496 20800289 ~ 20800550 (-)
G85978 NA non-coding downstream 626423 20483169 ~ 20509623 (-)
G85779 fam117b non-coding downstream 1126892 20007273 ~ 20009154 (-)
G86621 NA non-coding upstream 298275 21442896 ~ 21444084 (-)
G86713 NA non-coding upstream 465237 21609858 ~ 21610135 (-)
G86716 NA non-coding upstream 470367 21614988 ~ 21615996 (-)
G86719 NA non-coding upstream 477029 21621650 ~ 21621874 (-)
G86723 NA non-coding upstream 489527 21634148 ~ 21634354 (-)
abcb6b LOC108266852,LOC108423985,LOC107596549,LOC107750068 other downstream 712802 20394471 ~ 20423244 (-)
G85848 NA other downstream 898431 20226728 ~ 20237615 (-)
steap3 steap3,dbi,LOC107560815,LOC107747240 other downstream 1549943 19568749 ~ 19586103 (-)
grb14 grb14 other downstream 1641531 19443091 ~ 19494515 (-)
LOC113526313 baz2b other downstream 2167554 18913387 ~ 18968492 (-)
dhrs9 LOC108423955,LOC108423956 other upstream 155251 21299872 ~ 21305299 (-)
LOC117597354 NA other upstream 313112 21457733 ~ 21459404 (-)
G86592 NA other upstream 320545 21465166 ~ 21469181 (-)
LOC113526134 LOC108266489,LOC108266490,LOC108261972,LOC108266491 other upstream 361815 21506436 ~ 21519959 (-)
G86715 NA other upstream 469015 21613636 ~ 21614511 (-)

Expression


Co-expression Network