RchiOBHm_Chr5g0032071

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
rosa_chinensis
5
OG0019887
Physical Location & Seq
Forward (+)
25760079 .. 25760702
624 bp
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UTR
Exon/CDS
Intron
PRQ31127

Sequence Viewer

Length: 528 bp
ATGGTGGTTAATTATTTAGTAATTTCATATACTTATTTTCATCGTGACATTTGTTTAAAATGTTCAAGGCTTAGGTTCTCCAATAACCTTTCTGTGGCAAAAAAAATCCCTAATATTGAATATCTTATCGTACTTGTTACTGGAAATATGAACAACATTTCTGCAAACATTGTACATAGAGTTATAGTATTGGCTAGATGGTTTATTTTTGATATTGTTTGGCTACTTGGTAATTTCTTTGTATATAACAGATGGCTATTCTCTTCAAGTTCTAGTGTACTTTCAAGATCCACCATTCAACATTTACCAGCTTCTATATTCCTTAACAAGGGAACCATGCATACTTACACGAATGCTAGAGGTCAAGGCCGTGTCTTCAATGTGGAGTTAACAGATGAAGATGGAGCTGAACTTCAAGCTACAATGTTTAATGAAGCTGCGAGGAAGTTTTTTGAAAAGTTTCAACTAGGGAAGGTCTATTATGTTTCAAAGGGAGCTCTGAGGTTAATGAAGTCAGCAATGAAATGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0000003 GO:0000228 GO:0000278 GO:0000723 GO:0000724 GO:0000725 GO:0000781 GO:0000784 GO:0000785 GO:0000790 GO:0003674 GO:0003676 GO:0003677 GO:0003697 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005657 GO:0005662 GO:0005694 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006268 GO:0006278 GO:0006279 GO:0006281 GO:0006302 GO:0006310 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006996 GO:0007004 GO:0007049 GO:0007063 GO:0007088 GO:0007346 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010224 GO:0010556 GO:0010557 GO:0010564 GO:0010604 GO:0010638 GO:0010639 GO:0010833 GO:0010948 GO:0016043 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022402 GO:0022414 GO:0030894 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031974 GO:0031981 GO:0032200 GO:0032204 GO:0032206 GO:0032210 GO:0032212 GO:0032392 GO:0032508 GO:0032879 GO:0032880 GO:0032991 GO:0032993 GO:0033043 GO:0033044 GO:0033045 GO:0033046 GO:0033047 GO:0033048 GO:0033260 GO:0033554 GO:0034641 GO:0034645 GO:0034654 GO:0035861 GO:0042162 GO:0042592 GO:0043047 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043565 GO:0043596 GO:0043601 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044427 GO:0044428 GO:0044446 GO:0044454 GO:0044464 GO:0044786 GO:0045786 GO:0045839 GO:0045875 GO:0045930 GO:0045935 GO:0046483 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051098 GO:0051101 GO:0051128 GO:0051129 GO:0051130 GO:0051171 GO:0051173 GO:0051276 GO:0051321 GO:0051716 GO:0051726 GO:0051783 GO:0051784 GO:0051983 GO:0051985 GO:0060249 GO:0060255 GO:0060341 GO:0065007 GO:0065008 GO:0065009 GO:0070013 GO:0070034 GO:0071103 GO:0071704 GO:0071840 GO:0071897 GO:0071922 GO:0071923 GO:0080090 GO:0090304 GO:0090734 GO:0097159 GO:0098687 GO:0098847 GO:0106111 GO:0106112 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902969 GO:1903046 GO:1903047 GO:1903827 GO:1903828 GO:1904356 GO:1904358 GO:1905405 GO:1905412 GO:1905634 GO:2000112 GO:2000278 GO:2000573 GO:2001251 GO:2001252
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

Protein Analysis

175

Amino Acids

20.21

Weight (kDa)

9.92

Isoelectric Point (pI)

38.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
tRNA_anti-codon PF01336 111 - 167 2.4e-08 OB-fold nucleic acid binding domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0019887)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr2g0106871 RchiOBHm_Chr4g0402291 RchiOBHm_Chr5g0032071 RchiOBHm_Chr5g0038981
rosa_laevigata RLG00000019627
rosa_samantha Rh2BG201800 Rh5BG223600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AclWI GGATC 1 cut(s) 282
AfaI GTAC 3 cut(s) 132, 174, 279
AfiI CCNNNNNNNGG 2 cut(s) 94, 328
AluBI AGCT 5 cut(s) 311, 407, 419, 437, 497
AluI AGCT 5 cut(s) 311, 407, 419, 437, 497
Alw21I GWGCWC 1 cut(s) 499
AlwI GGATC 1 cut(s) 282
AoxI GGCC 1 cut(s) 367
ApeKI GCWGC 1 cut(s) 437
Asp700I GAANNNNTTC 1 cut(s) 459
BanII GRGCYC 1 cut(s) 499
BbsI GAAGAC 1 cut(s) 367
Bbv12I GWGCWC 1 cut(s) 499
BbvI GCAGC 1 cut(s) 424
BccI CCATC 3 cut(s) 192, 246, 395
BceAI ACGGC 1 cut(s) 354
BfaI CTAG 4 cut(s) 195, 273, 357, 467
BisI GCNGC 1 cut(s) 438
BlsI GCNGC 1 cut(s) 439
BmiI GGNNCC 1 cut(s) 334
BpiI GAAGAC 1 cut(s) 367
Bpu10I CCTNAGC 1 cut(s) 71
Bsc4I CCNNNNNNNGG 2 cut(s) 94, 328
Bse1I ACTGG 1 cut(s) 145
Bse3DI GCAATG 1 cut(s) 525
BseLI CCNNNNNNNGG 2 cut(s) 94, 328
BseMI GCAATG 1 cut(s) 525
BseMII CTCAG 1 cut(s) 491
BseNI ACTGG 1 cut(s) 145
BseXI GCAGC 1 cut(s) 424
BshFI GGCC 1 cut(s) 369
BsiHKAI GWGCWC 1 cut(s) 499
BslI CCNNNNNNNGG 2 cut(s) 94, 328
BsmI GAATGC 1 cut(s) 358
BsnI GGCC 1 cut(s) 369
Bsp1286I GDGCHC 1 cut(s) 499
Bsp1407I TGTACA 1 cut(s) 172
Bsp143I GATC 1 cut(s) 287
BspANI GGCC 1 cut(s) 369
BspCNI CTCAG 1 cut(s) 492
BspLI GGNNCC 1 cut(s) 334
BspPI GGATC 1 cut(s) 282
BsrDI GCAATG 1 cut(s) 525
BsrGI TGTACA 1 cut(s) 172
BsrI ACTGG 1 cut(s) 145
BssMI GATC 1 cut(s) 287
Bst6I CTCTTC 1 cut(s) 268
BstAUI TGTACA 1 cut(s) 172
BstDEI CTNAG 2 cut(s) 71, 500
BstENI CCTNNNNNAGG 1 cut(s) 326
BstKTI GATC 1 cut(s) 290
BstMBI GATC 1 cut(s) 287
BstV1I GCAGC 1 cut(s) 424
BstV2I GAAGAC 1 cut(s) 367
BstX2I RGATCY 1 cut(s) 287
BstYI RGATCY 1 cut(s) 287
BsuRI GGCC 1 cut(s) 369
Csp6I GTAC 3 cut(s) 131, 173, 278
CviAII CATG 1 cut(s) 337
CviQI GTAC 3 cut(s) 131, 173, 278
DdeI CTNAG 2 cut(s) 71, 500
DpnI GATC 1 cut(s) 289
DpnII GATC 1 cut(s) 287
DraI TTTAAA 1 cut(s) 57
Eam1104I CTCTTC 1 cut(s) 268
EarI CTCTTC 1 cut(s) 268
Ecl136II GAGCTC 1 cut(s) 497
Eco24I GRGCYC 1 cut(s) 499
Eco53kI GAGCTC 1 cut(s) 497
EcoICRI GAGCTC 1 cut(s) 497
EcoNI CCTNNNNNAGG 1 cut(s) 326
EcoT22I ATGCAT 1 cut(s) 342
EcoT38I GRGCYC 1 cut(s) 499
FaeI CATG 1 cut(s) 340
FatI CATG 1 cut(s) 336
Fnu4HI GCNGC 1 cut(s) 438
FriOI GRGCYC 1 cut(s) 499
Fsp4HI GCNGC 1 cut(s) 438
FspBI CTAG 4 cut(s) 195, 273, 357, 467
GluI GCNGC 1 cut(s) 438
HaeIII GGCC 1 cut(s) 369
Hin1II CATG 1 cut(s) 340
HincII GTYRAC 1 cut(s) 390
HindII GTYRAC 1 cut(s) 390
HpaI GTTAAC 1 cut(s) 390
Hpy166II GTNNAC 2 cut(s) 278, 390
Hpy188I TCNGA 1 cut(s) 501
Hpy188III TCNNGA 2 cut(s) 44, 285
Hpy8I GTNNAC 2 cut(s) 278, 390
HpyAV CCTTC 1 cut(s) 466
HpyCH4V TGCA 2 cut(s) 164, 340
HpyF3I CTNAG 2 cut(s) 71, 500
Hsp92II CATG 1 cut(s) 340
KspAI GTTAAC 1 cut(s) 390
Kzo9I GATC 1 cut(s) 287
LmnI GCTCC 2 cut(s) 404, 494
LpnPI CCDG 2 cut(s) 126, 321
Lsp1109I GCAGC 1 cut(s) 424
MaeI CTAG 4 cut(s) 195, 273, 357, 467
MaeIII GTNAC 2 cut(s) 44, 136
MalI GATC 1 cut(s) 289
MboI GATC 1 cut(s) 287
MboII GAAGA 3 cut(s) 255, 367, 410
MflI RGATCY 1 cut(s) 287
MhlI GDGCHC 1 cut(s) 499
MluCI AATT 3 cut(s) 10, 21, 232
MnlI CCTC 3 cut(s) 353, 435, 495
Mph1103I ATGCAT 1 cut(s) 342
MroXI GAANNNNTTC 1 cut(s) 459
MseI TTAA 6 cut(s) 9, 56, 324, 389, 429, 506
Mva1269I GAATGC 1 cut(s) 358
NdeII GATC 1 cut(s) 287
NlaIII CATG 1 cut(s) 340
NlaIV GGNNCC 1 cut(s) 334
NmuCI GTSAC 1 cut(s) 44
NsiI ATGCAT 1 cut(s) 342
PctI GAATGC 1 cut(s) 358
PdmI GAANNNNTTC 1 cut(s) 459
PkrI GCNGC 1 cut(s) 439
Psp124BI GAGCTC 1 cut(s) 499
PspN4I GGNNCC 1 cut(s) 334
PsrI GAACNNNNNNTAC 2 cut(s) 325, 357
PsuI RGATCY 1 cut(s) 287
RsaI GTAC 3 cut(s) 132, 174, 279
RsaNI GTAC 3 cut(s) 131, 173, 278
SacI GAGCTC 1 cut(s) 499
SaqAI TTAA 6 cut(s) 9, 56, 324, 389, 429, 506
SatI GCNGC 1 cut(s) 438
Sau3AI GATC 1 cut(s) 287
SduI GDGCHC 1 cut(s) 499
Sse9I AATT 3 cut(s) 10, 21, 232
SspI AATATT 1 cut(s) 115
SspMI CTAG 4 cut(s) 195, 273, 357, 467
SstI GAGCTC 1 cut(s) 499
TasI AATT 3 cut(s) 10, 21, 232
TatI WGTACW 2 cut(s) 172, 277
Tru1I TTAA 6 cut(s) 9, 56, 324, 389, 429, 506
Tru9I TTAA 6 cut(s) 9, 56, 324, 389, 429, 506
TseFI GTSAC 1 cut(s) 44
TseI GCWGC 1 cut(s) 437
Tsp45I GTSAC 1 cut(s) 44
TspDTI ATGAA 6 cut(s) 15, 29, 164, 411, 447, 524
XagI CCTNNNNNAGG 1 cut(s) 326
XmnI GAANNNNTTC 1 cut(s) 459
XspI CTAG 4 cut(s) 195, 273, 357, 467
Zsp2I ATGCAT 1 cut(s) 342
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.