Rroxscaffold_3G00251000

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_roxburghii
GWHEROQ00000003
OG0017447
Physical Location & Seq
Forward (+)
44863692 .. 44882904
19213 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_3G00251000.1

Sequence Viewer

Length: 1302 bp
ATGGACGCGAGGCTAACGGAGGGGGCGATACCGAAGATCACGACGGACTTTGTTGACGACAACTATAAGCCAATCCCGCAAGTGATCGACTTGAAGCATCCACACACAGCACGGCGGCGGCGGCGGGCCGAGCGTGAAGTCAATAACAACATGTCCGATGGGTCCTACATCCGGCAGGCGAATCTGGCCGCTCACCTGAACTTCCTGGTTCGGCAAGGCCACCTTCACAAAGGCTCCGTTGTCCGCCTGGATCAATTCACCTGCACCGCCATCCAAGGCCGCAAGATCATCACTATTGTCTCATTGAATGTGCTAGTTGATAAATGTGATATCATTGGACGGGCTGCCAGATTTTCGAATTCACAATCCCCACGGACAAGACTTGTAGATCAAACAACTGAGACAATTATAAGCGAACCCTACAGTCTTCCGGCGATGGACGCGAAGCTAACGGAGGGGGCGATACTGAAAATCCCGACGGAGTATTTTGACGACAACTATAAGCCTATCCTGCAAGTGATCGACTTGAAGCAGATCCACACACAGCGCCGCGGCGGCCAGGTCACTGAGCGGTACGCGATGGTCATATCCGATGGGTCCCACACAGCGCAGGGGATACTGAGCACTCAGCAGAACTTCCTGGTTCAGCAAGGCCACCTTCAGAAGGGCTCCGTTGTCTGCCTAAATCAATTCACCTGCACCACCATCCAAGGCCGCAAGATCATCATTATTGTCTTATTGGATGTGCTAGTTGATAAATGTGATATCATTGGACAGGCTGCCAGATTTTCGAATGCACTATCCCCACGGACAAGACTTGTAGATCAAACAACTGAGACAATTATAAGCGAACCCTACAGTCTTCCGGCGATGGACGCGAGGCTAACGGAGGGGGCGATACTGAACATCACGACGGAGTATTTTGACGACAACTATAAGCCTATCCTGCAAGTGATCGACTTGAGGCAAATCCACACACACGGCGGCGGCTGCGGCGGCCAGGTCACTGAACGGTACAGGGTGGCCATATCCGATGGGTCCCACACCGAACAGGGGATGCTGGCCACTCAGCAGAACTTCCTGGTTCAGCAAGGCCACCTTCAGAAGGGTTCCGTTGTCCGCCTGAATCAATTCACCTGCACCACCATCCAAGGCCGCAAGATCATCATTATAATCTCATTGAATGTGCTAGTTGATAAATGTGATATCATTGGACAGGCTGCCAGATTTTCGAATGCACAATCCCAAGGGACAATACTTATAGATCAAACAACCGAGCAATTCGGTTCCTTGGGGCTATAA
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

433

Amino Acids

48.19

Weight (kDa)

8.56

Isoelectric Point (pI)

36.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Rep-A_N PF04057 5 - 106 1.8e-18 Replication factor-A protein 1, N-terminal domain
Rep-A_N PF04057 150 - 251 1.3e-25 Replication factor-A protein 1, N-terminal domain
Rep-A_N PF04057 295 - 398 1e-27 Replication factor-A protein 1, N-terminal domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 3 cut(s) 410, 845, 1172
AarI CACCTGC 3 cut(s) 269, 704, 1145
Acc36I ACCTGC 3 cut(s) 269, 704, 1145
AccBSI CCGCTC 2 cut(s) 191, 571
AccII CGCG 5 cut(s) 8, 443, 552, 578, 878
AclWI GGATC 2 cut(s) 258, 529
AcoI YGGCCR 5 cut(s) 186, 556, 997, 1023, 1062
AcsI RAATTY 1 cut(s) 358
AcuI CTGAAG 2 cut(s) 644, 1085
AfaI GTAC 2 cut(s) 575, 1016
AfiI CCNNNNNNNGG 4 cut(s) 171, 664, 1053, 1105
AflIII ACRYGT 1 cut(s) 150
AgsI TTSAA 4 cut(s) 94, 307, 529, 1183
AjnI CCWGG 6 cut(s) 204, 246, 558, 639, 999, 1080
AluBI AGCT 1 cut(s) 448
AluI AGCT 1 cut(s) 448
Alw21I GWGCWC 1 cut(s) 626
Alw26I GTCTC 3 cut(s) 304, 395, 830
AlwI GGATC 2 cut(s) 258, 529
ApeKI GCWGC 4 cut(s) 344, 779, 990, 1220
ApoI RAATTY 1 cut(s) 358
Asp700I GAANNNNTTC 1 cut(s) 1130
AspLEI GCGC 2 cut(s) 549, 610
AspS9I GGNCC 4 cut(s) 126, 162, 597, 1038
AsuHPI GGTGA 4 cut(s) 185, 250, 685, 1126
AsuII TTCGAA 3 cut(s) 356, 791, 1232
AvaII GGWCC 3 cut(s) 162, 597, 1038
BalI TGGCCA 2 cut(s) 1025, 1064
BanII GRGCYC 1 cut(s) 671
BbsI GAAGAC 2 cut(s) 419, 854
Bbv12I GWGCWC 1 cut(s) 626
BbvI GCAGC 4 cut(s) 331, 766, 977, 1207
BccI CCATC 9 cut(s) 152, 278, 430, 574, 587, 713, 865, 1028, 1154
BceAI ACGGC 2 cut(s) 128, 997
BciT130I CCWGG 6 cut(s) 206, 248, 560, 641, 1001, 1082
BciVI GTATCC 1 cut(s) 609
BcoDI GTCTC 3 cut(s) 304, 395, 830
BfaI CTAG 3 cut(s) 314, 749, 1190
BfmI CTRYAG 2 cut(s) 421, 856
BfoI RGCGCY 1 cut(s) 550
BfuAI ACCTGC 3 cut(s) 269, 704, 1145
BfuI GTATCC 1 cut(s) 609
BglI GCCNNNNNGGC 1 cut(s) 555
Bme1390I CCNGG 6 cut(s) 206, 248, 560, 641, 1001, 1082
Bme18I GGWCC 3 cut(s) 162, 597, 1038
BmgT120I GGNCC 4 cut(s) 126, 162, 597, 1038
BmiI GGNNCC 9 cut(s) 163, 235, 598, 599, 670, 1039, 1040, 1111, 1288
BmrFI CCNGG 6 cut(s) 206, 248, 560, 641, 1001, 1082
BmsI GCATC 2 cut(s) 106, 1047
BpiI GAAGAC 2 cut(s) 419, 854
Bpu14I TTCGAA 3 cut(s) 356, 791, 1232
BpuEI CTTGAG 1 cut(s) 982
BsaJI CCNNGG 8 cut(s) 274, 371, 550, 709, 806, 1150, 1246, 1290
BsaXI ACNNNNNCTCC 2 cut(s) 218, 248
Bsc4I CCNNNNNNNGG 4 cut(s) 171, 664, 1053, 1105
BseBI CCWGG 6 cut(s) 206, 248, 560, 641, 1001, 1082
BseDI CCNNGG 8 cut(s) 274, 371, 550, 709, 806, 1150, 1246, 1290
BseGI GGATG 7 cut(s) 97, 168, 270, 705, 748, 1062, 1146
BseLI CCNNNNNNNGG 4 cut(s) 171, 664, 1053, 1105
BseMII CTCAG 6 cut(s) 390, 558, 611, 641, 825, 1082
BseXI GCAGC 4 cut(s) 331, 766, 977, 1207
BsgI GTGCAG 3 cut(s) 247, 682, 1123
Bsh1236I CGCG 5 cut(s) 8, 443, 552, 578, 878
BsiHKAI GWGCWC 1 cut(s) 626
BsiSI CCGG 3 cut(s) 172, 431, 866
BslFI GGGAC 3 cut(s) 583, 1024, 1264
BslI CCNNNNNNNGG 4 cut(s) 171, 664, 1053, 1105
BsmAI GTCTC 3 cut(s) 304, 395, 830
BsmFI GGGAC 3 cut(s) 583, 1024, 1264
BsmI GAATGC 2 cut(s) 799, 1240
Bsp119I TTCGAA 3 cut(s) 356, 791, 1232
Bsp1286I GDGCHC 2 cut(s) 626, 671
BspCNI CTCAG 6 cut(s) 391, 559, 612, 640, 826, 1081
BspFNI CGCG 5 cut(s) 8, 443, 552, 578, 878
BspLI GGNNCC 9 cut(s) 163, 235, 598, 599, 670, 1039, 1040, 1111, 1288
BspMI ACCTGC 3 cut(s) 269, 704, 1145
BspPI GGATC 2 cut(s) 258, 529
BspT104I TTCGAA 3 cut(s) 356, 791, 1232
BsrBI CCGCTC 2 cut(s) 191, 571
BssECI CCNNGG 8 cut(s) 274, 371, 550, 709, 806, 1150, 1246, 1290
BssT1I CCWWGG 5 cut(s) 274, 709, 1150, 1246, 1290
Bst2UI CCWGG 6 cut(s) 206, 248, 560, 641, 1001, 1082
Bst4CI ACNGT 3 cut(s) 425, 860, 1014
BstBI TTCGAA 3 cut(s) 356, 791, 1232
BstC8I GCNNGC 3 cut(s) 126, 177, 1062
BstDEI CTNAG 6 cut(s) 399, 567, 620, 627, 834, 1068
BstDSI CCRYGG 3 cut(s) 371, 550, 806
BstENI CCTNNNNNAGG 2 cut(s) 662, 1103
BstF5I GGATG 7 cut(s) 97, 168, 270, 705, 748, 1062, 1146
BstFNI CGCG 5 cut(s) 8, 443, 552, 578, 878
BstH2I RGCGCY 1 cut(s) 550
BstHHI GCGC 2 cut(s) 549, 610
BstMAI GTCTC 3 cut(s) 304, 395, 830
BstNI CCWGG 6 cut(s) 206, 248, 560, 641, 1001, 1082
BstNSI RCATGY 1 cut(s) 154
BstSCI CCNGG 6 cut(s) 204, 246, 558, 639, 999, 1080
BstSFI CTRYAG 2 cut(s) 421, 856
BstUI CGCG 5 cut(s) 8, 443, 552, 578, 878
BstV1I GCAGC 4 cut(s) 331, 766, 977, 1207
BstV2I GAAGAC 2 cut(s) 419, 854
BstX2I RGATCY 1 cut(s) 534
BstYI RGATCY 1 cut(s) 534
BsuI GTATCC 1 cut(s) 609
BtgI CCRYGG 3 cut(s) 371, 550, 806
BtgZI GCGATG 3 cut(s) 449, 593, 884
BtsCI GGATG 7 cut(s) 97, 168, 270, 705, 748, 1062, 1146
BtsIMutI CAGTG 2 cut(s) 564, 1005
BveI ACCTGC 3 cut(s) 269, 704, 1145
Cac8I GCNNGC 3 cut(s) 126, 177, 1062
CfoI GCGC 2 cut(s) 549, 610
Cfr13I GGNCC 4 cut(s) 126, 162, 597, 1038
Cfr42I CCGCGG 1 cut(s) 553
CseI GACGC 3 cut(s) 14, 449, 884
Csp6I GTAC 2 cut(s) 574, 1015
CviAII CATG 1 cut(s) 151
CviQI GTAC 2 cut(s) 574, 1015
DdeI CTNAG 6 cut(s) 399, 567, 620, 627, 834, 1068
EaeI YGGCCR 5 cut(s) 186, 556, 997, 1023, 1062
EciI GGCGGA 2 cut(s) 233, 1109
Eco130I CCWWGG 5 cut(s) 274, 709, 1150, 1246, 1290
Eco24I GRGCYC 1 cut(s) 671
Eco32I GATATC 3 cut(s) 331, 766, 1207
Eco47I GGWCC 3 cut(s) 162, 597, 1038
Eco57I CTGAAG 2 cut(s) 644, 1085
EcoNI CCTNNNNNAGG 2 cut(s) 662, 1103
EcoO109I RGGNCCY 3 cut(s) 162, 597, 1038
EcoRI GAATTC 1 cut(s) 358
EcoRII CCWGG 6 cut(s) 204, 246, 558, 639, 999, 1080
EcoRV GATATC 3 cut(s) 331, 766, 1207
EcoT14I CCWWGG 5 cut(s) 274, 709, 1150, 1246, 1290
EcoT38I GRGCYC 1 cut(s) 671
ErhI CCWWGG 5 cut(s) 274, 709, 1150, 1246, 1290
FaeI CATG 1 cut(s) 154
FalI AAGNNNNNCTT 6 cut(s) 207, 239, 642, 674, 1083, 1115
FaqI GGGAC 3 cut(s) 583, 1024, 1264
FatI CATG 1 cut(s) 150
FauI CCCGC 2 cut(s) 84, 117
FokI GGATG 7 cut(s) 84, 155, 257, 692, 755, 1069, 1133
FriOI GRGCYC 1 cut(s) 671
FspBI CTAG 3 cut(s) 314, 749, 1190
GlaI GCGC 2 cut(s) 548, 609
HaeII RGCGCY 1 cut(s) 550
HapII CCGG 3 cut(s) 172, 431, 866
HgaI GACGC 3 cut(s) 14, 449, 884
HhaI GCGC 2 cut(s) 549, 610
Hin1II CATG 1 cut(s) 154
Hin6I GCGC 2 cut(s) 547, 608
HinP1I GCGC 2 cut(s) 547, 608
HincII GTYRAC 1 cut(s) 55
HindII GTYRAC 1 cut(s) 55
HinfI GANTC 2 cut(s) 181, 1126
HpaII CCGG 3 cut(s) 172, 431, 866
HphI GGTGA 4 cut(s) 185, 250, 685, 1126
Hpy166II GTNNAC 1 cut(s) 55
Hpy188I TCNGA 5 cut(s) 157, 592, 663, 1033, 1104
Hpy188III TCNNGA 3 cut(s) 40, 475, 910
Hpy8I GTNNAC 1 cut(s) 55
Hpy99I CGWCG 3 cut(s) 46, 481, 916
HpyAV CCTTC 5 cut(s) 233, 658, 668, 1099, 1109
HpyCH4III ACNGT 3 cut(s) 425, 860, 1014
HpyCH4V TGCA 7 cut(s) 264, 514, 699, 797, 949, 1140, 1238
HpyF3I CTNAG 6 cut(s) 399, 567, 620, 627, 834, 1068
Hsp92II CATG 1 cut(s) 154
HspAI GCGC 2 cut(s) 547, 608
KflI GGGWCCC 2 cut(s) 597, 1038
KspI CCGCGG 1 cut(s) 553
LmnI GCTCC 2 cut(s) 239, 674
Lsp1109I GCAGC 4 cut(s) 331, 766, 977, 1207
LweI GCATC 2 cut(s) 106, 1047
MaeI CTAG 3 cut(s) 314, 749, 1190
MaeIII GTNAC 2 cut(s) 562, 1003
MbiI CCGCTC 2 cut(s) 191, 571
MboII GAAGA 3 cut(s) 46, 419, 854
MflI RGATCY 1 cut(s) 534
MhlI GDGCHC 2 cut(s) 626, 671
MlsI TGGCCA 2 cut(s) 1025, 1064
MluCI AATT 7 cut(s) 254, 358, 405, 689, 840, 1130, 1280
MluNI TGGCCA 2 cut(s) 1025, 1064
MnlI CCTC 6 cut(s) 3, 13, 448, 873, 883, 957
Mox20I TGGCCA 2 cut(s) 1025, 1064
MroXI GAANNNNTTC 1 cut(s) 1130
MscI TGGCCA 2 cut(s) 1025, 1064
Msp20I TGGCCA 2 cut(s) 1025, 1064
MspA1I CMGCKG 1 cut(s) 552
MspI CCGG 3 cut(s) 172, 431, 866
MspR9I CCNGG 6 cut(s) 206, 248, 560, 641, 1001, 1082
Mva1269I GAATGC 2 cut(s) 799, 1240
MvaI CCWGG 6 cut(s) 206, 248, 560, 641, 1001, 1082
MvnI CGCG 5 cut(s) 8, 443, 552, 578, 878
NlaIII CATG 1 cut(s) 154
NlaIV GGNNCC 9 cut(s) 163, 235, 598, 599, 670, 1039, 1040, 1111, 1288
NmeAIII GCCGAG 1 cut(s) 154
NmuCI GTSAC 2 cut(s) 562, 1003
NspI RCATGY 1 cut(s) 154
NspV TTCGAA 3 cut(s) 356, 791, 1232
PaqCI CACCTGC 3 cut(s) 269, 704, 1145
PciI ACATGT 1 cut(s) 150
PcsI WCGNNNNNNNCGW 3 cut(s) 23, 458, 893
PctI GAATGC 2 cut(s) 799, 1240
PdmI GAANNNNTTC 1 cut(s) 1130
PfeI GAWTC 2 cut(s) 181, 1126
PpuMI RGGWCCY 3 cut(s) 162, 597, 1038
PscI ACATGT 1 cut(s) 150
PsiI TTATAA 3 cut(s) 410, 845, 1172
Psp5II RGGWCCY 3 cut(s) 162, 597, 1038
Psp6I CCWGG 6 cut(s) 204, 246, 558, 639, 999, 1080
PspGI CCWGG 6 cut(s) 204, 246, 558, 639, 999, 1080
PspN4I GGNNCC 9 cut(s) 163, 235, 598, 599, 670, 1039, 1040, 1111, 1288
PspPI GGNCC 4 cut(s) 126, 162, 597, 1038
PspPPI RGGWCCY 3 cut(s) 162, 597, 1038
PsuI RGATCY 1 cut(s) 534
RsaI GTAC 2 cut(s) 575, 1016
RsaNI GTAC 2 cut(s) 574, 1015
SacII CCGCGG 1 cut(s) 553
Sau96I GGNCC 4 cut(s) 126, 162, 597, 1038
ScrFI CCNGG 6 cut(s) 206, 248, 560, 641, 1001, 1082
SduI GDGCHC 2 cut(s) 626, 671
SfaNI GCATC 2 cut(s) 106, 1047
SfcI CTRYAG 2 cut(s) 421, 856
Sfr303I CCGCGG 1 cut(s) 553
SfuI TTCGAA 3 cut(s) 356, 791, 1232
SgrBI CCGCGG 1 cut(s) 553
SinI GGWCC 3 cut(s) 162, 597, 1038
SmlI CTYRAG 1 cut(s) 961
SmoI CTYRAG 1 cut(s) 961
Sse9I AATT 7 cut(s) 254, 358, 405, 689, 840, 1130, 1280
SspMI CTAG 3 cut(s) 314, 749, 1190
StyD4I CCNGG 6 cut(s) 204, 246, 558, 639, 999, 1080
StyI CCWWGG 5 cut(s) 274, 709, 1150, 1246, 1290
TaaI ACNGT 3 cut(s) 425, 860, 1014
TaqI TCGA 6 cut(s) 87, 356, 522, 791, 957, 1232
TasI AATT 7 cut(s) 254, 358, 405, 689, 840, 1130, 1280
TfiI GAWTC 2 cut(s) 181, 1126
TscAI CASTG 2 cut(s) 571, 1012
TseFI GTSAC 2 cut(s) 562, 1003
TseI GCWGC 4 cut(s) 344, 779, 990, 1220
Tsp45I GTSAC 2 cut(s) 562, 1003
TspRI CASTG 2 cut(s) 571, 1012
VpaK11BI GGWCC 3 cut(s) 162, 597, 1038
XagI CCTNNNNNAGG 2 cut(s) 662, 1103
XapI RAATTY 1 cut(s) 358
XceI RCATGY 1 cut(s) 154
XmnI GAANNNNTTC 1 cut(s) 1130
XspI CTAG 3 cut(s) 314, 749, 1190
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.