pycom16g25470

Component of the replication protein A complex (RPA) required for DNA recombination, repair and replication. The activity of RPA is mediated by single-stranded DNA binding and protein interactions. Probably involved in repair of double-strand DNA breaks (DSBs) induced by genotoxic stresses

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr16
OG0028737
Physical Location & Seq
Reverse (-)
27425564 .. 27426099
536 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 495 bp
ATGACATCCATTAATCCCTATGCTTTTATAATGAGAAAAAATGGCGTTGAGACTCAGAAGAGAACCCTTCAGTTGAAGTACATGTCTAAAGGGAAAAGACTGCATAATATGTGTGATTCTGGTATATTCCCGGTGCTTGTTGTAAAAGGTGGTAGAGTCAATGATTTCAATGGAAAGGTGATGGGGACAATTTCTACAAGTCAGCTTTTAATAGAGCCTAATATTGAGAAGGCTTATGAGGTGAGGAATTGGTTTGAGAAGGAAGGAAAGAATACCTTATGTATCTCTATTTCCAAGGAAACGGCAGATGTGGGTAGAACAAATATCCGAAAGACTGTATCCCAAATTAAAGATGAGAAGCTACGGACTTCCGAGAAGCCAGATTGGATCACAGTTGGTGCAACCATTTCAGTTGTAAGGGTTGATAGTTTATGTTATTCGGCATGCCCAATCATGATTGGTCGATCGACAATGCAGCAAAAAGGTTACAAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03030 ko03420 ko03430 ko03440 ko03460 map03030 map03420 map03430 map03440 map03460
Pfam Domains
Protein Families
REPA_OB_2 Rep-A_N Rep_fac-A_C tRNA_anti-codon zf-CCHC

Protein Analysis

165

Amino Acids

18.52

Weight (kDa)

9.72

Isoelectric Point (pI)

38.46

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
REPA_OB_2 PF16900 2 - 71 3.9e-07 Replication protein A OB domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Orthologous Genes (Group: OG0028737)

Species Orthologous Gene IDs
malus_domestica MD00G1001700.v1.1
pyrus_communis pycom16g25470

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 29
AclWI GGATC 1 cut(s) 395
AcuI CTGAAG 1 cut(s) 53
AfaI GTAC 1 cut(s) 80
AflIII ACRYGT 1 cut(s) 81
AgsI TTSAA 2 cut(s) 76, 169
AluBI AGCT 2 cut(s) 205, 361
AluI AGCT 2 cut(s) 205, 361
Alw26I GTCTC 1 cut(s) 44
AlwI GGATC 1 cut(s) 395
ApeKI GCWGC 1 cut(s) 475
AseI ATTAAT 1 cut(s) 12
AsuC2I CCSGG 1 cut(s) 131
AsuHPI GGTGA 2 cut(s) 190, 253
BbvI GCAGC 1 cut(s) 487
BccI CCATC 1 cut(s) 175
BceAI ACGGC 1 cut(s) 318
BciVI GTATCC 1 cut(s) 349
BcnI CCSGG 1 cut(s) 131
BcoDI GTCTC 1 cut(s) 44
BfuI GTATCC 1 cut(s) 349
BisI GCNGC 1 cut(s) 476
BlsI GCNGC 1 cut(s) 477
Bme1390I CCNGG 1 cut(s) 131
BmrFI CCNGG 1 cut(s) 131
BpuMI CCSGG 1 cut(s) 131
BsaJI CCNNGG 1 cut(s) 294
BseDI CCNNGG 1 cut(s) 294
BseGI GGATG 1 cut(s) 5
BseMII CTCAG 1 cut(s) 68
BseXI GCAGC 1 cut(s) 487
Bsh1285I CGRYCG 1 cut(s) 467
BsiEI CGRYCG 1 cut(s) 467
BsiSI CCGG 1 cut(s) 131
BslFI GGGAC 1 cut(s) 199
BsmAI GTCTC 1 cut(s) 44
BsmFI GGGAC 1 cut(s) 199
Bsp143I GATC 2 cut(s) 387, 464
BspCNI CTCAG 1 cut(s) 67
BspHI TCATGA 1 cut(s) 453
BspPI GGATC 1 cut(s) 395
BssECI CCNNGG 1 cut(s) 294
BssMI GATC 2 cut(s) 387, 464
BssT1I CCWWGG 1 cut(s) 294
Bst4CI ACNGT 2 cut(s) 337, 394
Bst6I CTCTTC 1 cut(s) 53
BstC8I GCNNGC 1 cut(s) 445
BstDEI CTNAG 1 cut(s) 54
BstF5I GGATG 1 cut(s) 5
BstKTI GATC 2 cut(s) 390, 467
BstMAI GTCTC 1 cut(s) 44
BstMBI GATC 2 cut(s) 387, 464
BstMCI CGRYCG 1 cut(s) 467
BstNSI RCATGY 2 cut(s) 85, 447
BstSCI CCNGG 1 cut(s) 129
BstV1I GCAGC 1 cut(s) 487
BsuI GTATCC 1 cut(s) 349
BtsCI GGATG 1 cut(s) 5
Cac8I GCNNGC 1 cut(s) 445
CciI TCATGA 1 cut(s) 453
Csp6I GTAC 1 cut(s) 79
CviAII CATG 3 cut(s) 82, 444, 454
CviJI RGCY 5 cut(s) 205, 217, 233, 361, 379
CviKI_1 RGCY 5 cut(s) 205, 217, 233, 361, 379
CviQI GTAC 1 cut(s) 79
DdeI CTNAG 1 cut(s) 54
DpnI GATC 2 cut(s) 389, 466
DpnII GATC 2 cut(s) 387, 464
Eam1104I CTCTTC 1 cut(s) 53
EarI CTCTTC 1 cut(s) 53
Eco130I CCWWGG 1 cut(s) 294
Eco57I CTGAAG 1 cut(s) 53
EcoT14I CCWWGG 1 cut(s) 294
ErhI CCWWGG 1 cut(s) 294
FaeI CATG 3 cut(s) 85, 447, 457
FalI AAGNNNNNCTT 2 cut(s) 260, 292
FaqI GGGAC 1 cut(s) 199
FatI CATG 3 cut(s) 81, 443, 453
Fnu4HI GCNGC 1 cut(s) 476
Fsp4HI GCNGC 1 cut(s) 476
GluI GCNGC 1 cut(s) 476
HapII CCGG 1 cut(s) 131
Hin1II CATG 3 cut(s) 85, 447, 457
HinfI GANTC 3 cut(s) 52, 116, 156
HpaII CCGG 1 cut(s) 131
HphI GGTGA 2 cut(s) 190, 253
Hpy188I TCNGA 3 cut(s) 57, 329, 373
Hpy188III TCNNGA 1 cut(s) 454
HpyAV CCTTC 4 cut(s) 77, 223, 253, 257
HpyCH4III ACNGT 2 cut(s) 337, 394
HpyCH4V TGCA 3 cut(s) 103, 401, 475
HpyF3I CTNAG 1 cut(s) 54
Hsp92II CATG 3 cut(s) 85, 447, 457
Kzo9I GATC 2 cut(s) 387, 464
LpnPI CCDG 3 cut(s) 105, 144, 393
Lsp1109I GCAGC 1 cut(s) 487
MaeIII GTNAC 1 cut(s) 485
MalI GATC 2 cut(s) 389, 466
MboI GATC 2 cut(s) 387, 464
MboII GAAGA 1 cut(s) 70
MluCI AATT 3 cut(s) 189, 247, 345
MlyI GAGTC 2 cut(s) 46, 165
MnlI CCTC 2 cut(s) 232, 237
MseI TTAA 3 cut(s) 12, 209, 348
MspI CCGG 1 cut(s) 131
MspR9I CCNGG 1 cut(s) 131
NciI CCSGG 1 cut(s) 131
NdeII GATC 2 cut(s) 387, 464
NlaIII CATG 3 cut(s) 85, 447, 457
NspI RCATGY 2 cut(s) 85, 447
PaeI GCATGC 1 cut(s) 447
PagI TCATGA 1 cut(s) 453
PciI ACATGT 1 cut(s) 81
PfeI GAWTC 1 cut(s) 116
PkrI GCNGC 1 cut(s) 477
Ple19I CGATCG 1 cut(s) 467
PleI GAGTC 2 cut(s) 46, 164
PpsI GAGTC 2 cut(s) 46, 164
PscI ACATGT 1 cut(s) 81
PshBI ATTAAT 1 cut(s) 12
PsiI TTATAA 1 cut(s) 29
PvuI CGATCG 1 cut(s) 467
RsaI GTAC 1 cut(s) 80
RsaNI GTAC 1 cut(s) 79
SaqAI TTAA 3 cut(s) 12, 209, 348
SatI GCNGC 1 cut(s) 476
Sau3AI GATC 2 cut(s) 387, 464
SchI GAGTC 2 cut(s) 46, 165
ScrFI CCNGG 1 cut(s) 131
SetI ASST 7 cut(s) 151, 180, 207, 243, 278, 363, 487
SphI GCATGC 1 cut(s) 447
Sse9I AATT 3 cut(s) 189, 247, 345
SspI AATATT 1 cut(s) 223
StyD4I CCNGG 1 cut(s) 129
StyI CCWWGG 1 cut(s) 294
TaaI ACNGT 2 cut(s) 337, 394
TaqI TCGA 2 cut(s) 463, 467
TasI AATT 3 cut(s) 189, 247, 345
TatI WGTACW 1 cut(s) 78
TfiI GAWTC 1 cut(s) 116
Tru1I TTAA 3 cut(s) 12, 209, 348
Tru9I TTAA 3 cut(s) 12, 209, 348
TseI GCWGC 1 cut(s) 475
TspGWI ACGGA 1 cut(s) 379
VspI ATTAAT 1 cut(s) 12
XceI RCATGY 2 cut(s) 85, 447
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.