tdp1 (tdp1,LOC102776284)


Basic Information

Item Value
gene id tdp1
gene name tdp1,LOC102776284
gene type coding
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047604.1
NCBI id CM018550.1
chromosome length 29376037
location 27726878 ~ 27760866 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>XM_034308069.1
TGCATTCACAGATTGTTTTCTACAACGTGCACTGGACATTAAATTACAAATGAATGATGCAAAGTGATTCATTTAAGATTTCTAATCCATGAAGTGTTAGATATATATTGTGCATTTGCATGATCACCGCAGtggcattattattttatttttttaattattatcttgttttttttgttgtaaaacCCGGTTAATCTGCAGAATCCCACCAGAAATGGAGAGCCAACATGGCAAGTGGACGCTGTCCGacagcgatgatgatgatgataataacgTCGTACCACCAACACCACCGAAAGACATAAagaaacccttaaagaacaTCAAGCCTGATCTGGAGCCCAAAGCCAGGCCAGTTAATGCACTGTTAAAGCCCAGATCTGAGCCCAGGAAAGAAAACAACGTGAAGCTCGAGTCAGAAAATCCGTCCGTCCCTGCCATGGGCTCTGAGGCTCGACAAGCCGCACGCCTGCATCAGAGCAATCCGGTGAAATACGACAGCAGTCCTTCTCCAGCGCTGAAAcggaagagagaaacagacgaGGGAGGCTGGAATCTCTCCAGCAGTGATGAAGACGACGATGATGGAGCTTCTTCATCAGCccccaaaaacaaaccaaaacccaAACCGCCGAGCTCGAGTCCTCCGAGGAAGAAGCCCGAGCGGAGTCGGCCCCGGAGCCCACACGGTGATAATTATTATAAAGAGGAGCCCAGTGATTTCTTCGAGGCGAGCTTAAATACCATGAACGATATGTACCGCTTTTATTTAAGCAAAGTCACAGGGATAGAAAAGAAGTACAACACTGGAGCTTTGCACATTAAAGAAATACTTTCCCCCATGTTTGGCACACTAAAGGAATCCGTCCAGTTTAACTACTGCTTTGACATTCCATGGATGGTGCAACAATATCCTCCTGAGTTTAGgaataatCCTGTAACTATTGTGCACGGAGAGAAGCGAGAGTCGAAGGCTCGGCTCATCCAGCAGGCTCAGCCCTACGGCCATATTCGCTTCTGTCAGgCCAAGCTGGATATTGCCTTCGGGACTCATCATACAAAGATGATGCTCTTGTGGTACGAGGAAGGCTTTAGAGTCATTATCCTGACGTCGAACCTCATCCAGGCTGACTGGTACCAAAAGACTCaaggTCTGTGGATGAGTCCTCTGTACCCGCGGTTACCAGAGGGAAGCCCCGAGACGGCCGGCGAGTCTCCGACGCACTTCAAACGAGACCTGCTGGAGTATCTGAACGCGTACCGAGCCCCGGAGCTGGCCGAGTGGATCGAGCGCATCAAAGAACACGACCTGTCAGAAACCAGgaTCTACCTTATTGGTTCCACACCAGGGAGGTTTCAGGGATCCGACATGGAGAAGTGGGGTCACTTAAAGTTGAGGAAGTTGCTGAGCgaacacacacatccagtgcAAAACGCCGAGAAGTggcctgtgattggtcagttctCCAGCATCGGCTCTATGGGCATCGATAAGACCAAGTGGCTCTCAGCAGAGTTCCAGCGTACCCTGATGACGTTAGGGAAGAGTGGGAAAACGTTGACTGTCCCAGAGACACCACTCCTGCTGGTCTATCCTTCAGTGAACAATGTTCGAACCAGTTTAGAAGGCTACCCAGCTGGAGGTTCTTTACCCTACAGTATACAGACAGCACAGAAGCAGGTCTGGCTCCATTCCTACTTCCAtggatGGAAAGCTGAAACCTCAGGCAGGAGCAGTGCGATGCCCCACATTAAGACCTACATGAGGACGTCTCCGGATTTCTCTCAGCTGGCCTGGTTTCTCGTTACAAGTGCCAATTTATCCAAAGCTGCCTGGGGGGCGCTGGAGAAAAACAATACTCAGATGATGGTTCGTTCCTATGAGCTGGGAGTTCTGTACCTGCCTTCAGCCTTCCATATGAGCACGTTTCCAGTGGAGAAGAACATCTTCCCCGTCTCAGGCTCCTCCACAGGTTTCCCTGTGCCTTTCGATTTGCCACCGGTTCGCTACTCCAGTAAAGATCAGCCGTGGATCTGGAATATTCCATACACAAAAGCTCCAGACACTCACGGCAATATCTGGGTCCTGTCTTGAAACCTGTTCCCATTGCTGCTCGGATACAAAGGGCCAAACGAGGACAGGAAGTACccactgtttattactgttttattaactGGACTCTTGACTACAGTAAACATGgtgctgaaaataataattaaaaaacagactGTGAGGAtttttgatattgatattagTAGGTAATAAAGAATTAGTAATCATAAACGTGCTGAGACTCTTGAGCTTGTAGTATTTCCATTTATGACTTAGGATTTTAACGTGTGTAATCTGCATAGTCTTGataataaaaccttttttatttca

Function

symbol description
tdp1 Predicted to enable 3'-tyrosyl-DNA phosphodiesterase activity; double-stranded DNA binding activity; and single-stranded DNA binding activity. Predicted to be involved in double-strand break repair and single strand break repair. Predicted to act upstream of or within DNA repair. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in spinocerebellar ataxia type 1 with axonal neuropathy. Orthologous to human TDP1 (tyrosyl-DNA phosphodiesterase 1).

NR:

description
unnamed protein product

GO: NA

KEGG:

id description
K10862 TDP1; tyrosyl-DNA phosphodiesterase 1

RNA

RNA id representative length rna type GC content exon number start site end site
XM_034308069.1 True 2383 mRNA 0.47 16 27726878 27760866

Neighbor

gene id symbol gene type direction distance location
adck1 adck1,LOC107740534,LOC107751735,LOC107680795,LOC107676278 coding upstream 600973 27007934 ~ 27125905 (+)
slirp slirp,LOC107680761,LOC107588278,LOC107583681,LOC106611374 coding upstream 720129 27004109 ~ 27006749 (+)
trnat-ugu_12 NA coding upstream 811448 26915358 ~ 26915430 (+)
hhipl1 hhipl1,LOC107668615,LOC107740569,LOC103460662 coding upstream 812649 26903639 ~ 26914229 (+)
vrk1 vrk1 coding upstream 1307671 26405390 ~ 26419207 (+)
kcnk13a kcnk13,LOC107751801,LOC107588297,LOC107680770,LOC107755770 coding downstream 7402 27768268 ~ 27773076 (+)
hmbox1a LOC108270414,LOC108437743,LOC107751802 coding downstream 20602 27781468 ~ 27793212 (+)
pnoca LOC108270041 coding downstream 107374 27868240 ~ 27881903 (+)
map7a LOC108270039 coding downstream 153538 27914404 ~ 27927660 (+)
scaf8 scaf8,LOC107749595,LOC107675315,LOC107572866,LOC107728963 coding downstream 170308 27931174 ~ 27963120 (+)
G172414 NA non-coding upstream 53398 27581718 ~ 27673480 (+)
G172422 foxn3,LOC107680774,LOC107751738,LOC107755777 non-coding upstream 74714 27622473 ~ 27652164 (+)
G172408 NA non-coding upstream 90517 27633932 ~ 27636361 (+)
G172405 foxn3 non-coding upstream 158239 27565306 ~ 27568639 (+)
LOC113533960 NA non-coding upstream 195515 27494902 ~ 27531363 (+)
G172719 NA non-coding downstream 33516 27794382 ~ 27799180 (+)
G172741 NA non-coding downstream 80120 27840986 ~ 27842183 (+)
G172858 NA non-coding downstream 340641 28101507 ~ 28108665 (+)
G172830 NA non-coding downstream 358196 28119062 ~ 28122832 (+)
G172873 NA non-coding downstream 387711 28148577 ~ 28191912 (+)
trnak-uuu_7 NA other upstream 1599 27725207 ~ 27725279 (+)
nrxn3a nrxn3,LOC107583487 other upstream 259312 27156343 ~ 27467566 (+)
LOC113534148 NA other upstream 2295949 25426891 ~ 25430929 (+)
samd4a samd4a other upstream 2408601 25258811 ~ 25318277 (+)
LOC117598238 LOC108191637 other upstream 2548981 25176374 ~ 25177897 (+)
LOC113533782 cldn20,LOC108269830,LOC107573130,LOC107675320,LOC107571061,LOC101886267,LOC107728965,LOC108443299 other downstream 267134 28028000 ~ 28071081 (+)
brms1la brms1l,brms1la,LOC107682295,LOC107693096 other downstream 1100596 28861462 ~ 28935700 (+)
kif28 kif28p,LOC108270380 other downstream 1293367 29054233 ~ 29138878 (+)
G173221 mrpl57 other downstream 1308854 29069720 ~ 29073089 (+)
nrde2 NA other downstream 1332598 29093464 ~ 29138776 (+)

Expression


Co-expression Network