tdp1 (tdp1)


Basic Information

Item Value
gene id tdp1
gene name tdp1
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035905.1
NCBI id CM008308.1
chromosome length 42966623
location 35969637 ~ 36045110 (-)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_022673234.1
ttttgaagagcTCTGAGTCCAGCGTGTTGATTCAGACCTAAACAGAAGCAAAATCTGCATTGGAGTTCAAAACAAGCGTAAAATAAGCGATACAGAGGCTTAAACAGGCgaattctgttattttatttggtgATAGTGCAGCGTCTGCAGTGATTACAGGTTATTATATGAGGTGGAAATAGCCCTAAAGCTGCAGAATTTTCCCGCCGGATAGAACAGAATGTCACAGGAGAGTCAACACGGCAAGTGGACCCTGTCCGACAGTGACGATGATGACAACATAGTACCTCCAACACCCCCGAAAAAGCCAGACATCAAGCTAAACCCCAAGCCAAATGTGAAGCCAGACCCAGAGAGCAAAGCCTCTACGGTTAACACTGTTCCAAAACCCAAGCCTGAGCCCAAATCACAAGTTAATGTGAAACCTAAGCCACCAGTTAAGACTGAGAAAATCCCTCCCACCTCCTCCCTCCCCATGGGCTCTGAGGCCCGAGAGGCAGCGCACCTCAGCCAGAACAAtcctgtaaaatatgaaaacagcTCTTCTCCAGCTCTGAAACGCAAGAGAGAAACCGACGAGGGAGGCTGGAACCTCTCTagcagtgatgatgatgatgcagctCCTTCATCTGCCCCTAAAACAAAGCCTAAACAGCCGAGCTCCAGAAGTCCACCGAGGAAGAAGACCGAGGAGAAGCGTCCGCCGAGCCCCCACGGTGCTAATTACTATAAAGAGGAGCCCAGCGATTTCTTTGAGGCCAACTTATCAGCTATGAACGACACATACcgcttttatttaaacaaagtgTCTGGTATAGAAAAGAAGTTCAACACTGGAGCTTTGCACATCAAAGAAATACTTTCCCCTATGTTTGGCACGCTGAAGGAGTCCGTCCagTTCAACTACTGTTTTGATATTCCATGGATGGTGAAACAGTATCCTCCAGAATTTAGGGATAAGCCTGTGATTATCGTGCATGGAGAAAAACGAGAGTCGAAGGCTCGACTGATCCAACAGGCACAACCGTACAGCCACATTCGCTTCTGTCAGGCCAAGCTGGATATTGCCTTTGGAACACATCATACGAAGATGATGCTGTTGTGGTATGAGGAAGGATTCAGAGTCGTCATTCTGACATCAAACATGATCCAGGCTGACTGGTATCAGAAGACCCAGGGACTGTGGATGAGTCCTCTATACTCCAGGTTACCTGAGGGAAGCCCAGAGACTGCAGGAGAGTCTCCCACCCACTTCAAACAAGATTTGCTGGAATACCTGAGGGCATATCGAGCCCCTGAGCTGGCTGAGTGGATCGAGCGCATCAAAGAGCACGATCTGTCAGAAACCAGGATCTACCTGATTGGTTCCACTCCAGGGAGGTTCGTGGGATGTGACATGGAGAAATGGGGTCATCTGAAACTGCGCAAGTTGCTGAGTGAAAACACATGCCCAGTCCAGAATGCAGGGcagtggccagtgattggtcAGTTCTCCAGCATTGGCTCTATGGGTATTGATAAGACCAAATGGCTTGCAGCAGAGTTCCAGCGAACGCTGATGACACTAGGGAAGGCTGGGAGCTCATCATCCAGTCCGGACACACCGATGCTTCTGGTCTATCCTTCAGTGGACAATGTTCGAACCAGCTTAGAAGGATACCCAGCCGGAGGCTCGTTGCCCTACAGTATACAGACAGCGCAGAGACAGCTCTGGCTCCATTCTTACTTCCAtcgcTGGAAGGCCGAGACGTCAGGCAGGAGTAATGCCATGCCCCACATCAAGACCTACATGAGGGTCTCGCCGGACTTCTCTCAGCTGGCCTGGTTTCTCGTTACGAGTGCCAATTTGTCCAAAGCTGCCTGGGGTGCACTGGAGAAGAACAATACTCAGATCATGGTTCGCTCCTACGAGCTGGGAGTTCTGTACCTGCCCTCAGCCTTTCACATGAGCACATTTCCAGTGGAGAAGAACGTCTTCCCCGTCTCCAGCTCCTCCACAGGTTTCCCAGTACCGTTTGATTTGCCTCCACATCGCTACTCAGATAAAGATCGGCCATGGATCTGGAATATTCCGTACACACAAGCGCCGGACACCCACGGGAATATTTGGGTGCCATCCTGAAAACCTTTAACCTTAATACAAGGAGGAGTCAGGAGATAACTGCTGTATAAACTGATggatgaaagttttttttacagttaaaggCTTGTAGAGGAATGTAGGCCAGTAAAAACGGtgcttaaaatgaaaaaagaccaaaaacCAGACTAGTTCTTACTTACTActgtcaattaaaaataaataaatgattataaatgtactgaactgtatttttatgtatgtgtgttttttgataTTTGTATCATTCTGATATCAACCCGTCTTGGATATTATTTTAGCCAGTGTTTgagcatttttgtgtttaagcaGTATTATTTCAGTATGAGGAGGACTATAGCTGAGCTGTGAAGAGCTGAAAATGCTGTGCTGTGTAATAAAAGATGttttttgaatttgaa

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:

id name namespace
GO:0006281 DNA repair biological_process
GO:0005634 nucleus cellular_component
GO:0008081 phosphoric diester hydrolase activity molecular_function

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_022673234.1 True 2520 mRNA 0.47 16 35969637 36045110

Neighbor

gene id symbol gene type direction distance location
kcnk13 kcnk13,LOC107680770,LOC107588297,LOC107751801,LOC107755770,LOC107693081 coding downstream 34741 35921481 ~ 35934896 (-)
LOC103039887 LOC108437743 coding downstream 57792 35891077 ~ 35911845 (-)
LOC103031708 LOC103031708 coding downstream 251425 35694549 ~ 35718212 (-)
LOC103042065 LOC108437746 coding downstream 336882 35607086 ~ 35632755 (-)
scaf8 scaf8,LOC107749595,LOC107675315 coding downstream 369350 35557208 ~ 35600287 (-)
adck1 adck1,LOC107740534,LOC107680795,LOC107751735,LOC107676278 coding upstream 1099387 37144497 ~ 37395219 (-)
slirp slirp coding upstream 1355478 37400588 ~ 37403021 (-)
hhipl1 hhipl1,LOC107740569,LOC107668615,LOC107680789,LOC107588281 coding upstream 1556298 37601408 ~ 37617010 (-)
vrk1 vrk1,LOC106602366 coding upstream 2620015 38665125 ~ 38698331 (-)
LOC111193258 NA coding upstream 2726918 38772028 ~ 38781288 (-)
G86032 NA non-coding downstream 66164 35903069 ~ 35903473 (-)
G86022 NA non-coding downstream 81923 35879400 ~ 35887714 (-)
G86027 kif13b,kif13ba,LOC108437739 non-coding downstream 112529 35853638 ~ 35857108 (-)
G86026 LOC108437739,LOC107680773,LOC107751739,LOC107588271,LOC107693111 non-coding downstream 116090 35851774 ~ 35853547 (-)
G86024 kif13b,LOC108437739,LOC107751739,LOC107583481 non-coding downstream 125990 35839946 ~ 35843647 (-)
G86121 NA non-coding upstream 117422 36162532 ~ 36164252 (-)
G86203 NA non-coding upstream 357402 36402512 ~ 36402721 (-)
G86205 ston2 non-coding upstream 389600 36434710 ~ 36454220 (-)
G86210 NA non-coding upstream 426807 36471917 ~ 36474032 (-)
G86211 NA non-coding upstream 428961 36474071 ~ 36476268 (-)
G85902 tfb1m other downstream 674603 35288232 ~ 35295034 (-)
daam2 daam2 other downstream 1498032 34274391 ~ 34471605 (-)
rbks rbks,LOC107553733,LOC107656748 other downstream 1957075 33955195 ~ 34012562 (-)
G85618 slc4a1ap other downstream 2130008 33834012 ~ 33839629 (-)
G85550 NA other downstream 2450966 33509680 ~ 33518671 (-)
nrxn3 nrxn3,LOC107755774,LOC107583487 other upstream 543794 36588904 ~ 37101581 (-)
G86432 NA other upstream 1937764 37982874 ~ 38069052 (-)
dicer1 dicer1,LOC107552827,LOC107671118,LOC107668604 other upstream 3763020 39808130 ~ 39858569 (-)
LOC111193261 NA other upstream 4488258 40533368 ~ 40536334 (-)
LOC103044865 NA other upstream 4717562 40762672 ~ 40770501 (-)

Expression


Co-expression Network