Rroxscaffold_5G00350780

DNA polymerase I

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0004379
Physical Location & Seq
Forward (+)
25359158 .. 25371260
12103 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00350780.1

Sequence Viewer

Length: 1353 bp
ATGGCCTGCTCTTTCTCTTCGCTGCTTCACTTTCAATCCCTTTGGAGAAGCTTCAAGTTGTTTGGCCCAGGAGCTCACAAGAGGCTCGGGCACCACTTGCGCACTCCCAACAAGCTCACTTGTCTCCATTTTTCTCCGATAACATCCGCAAAGGGACATTGTAATTTAGCCACCAGTGTTCACTCGGCATTACCCGGACTTGTTCATGACAATGGAGATTTGCTGGTTGATTCAGGGAAGCGTGAAGAGAAAATTGTAAATAGTAACCCTTCAAATGGTAGAGTAATGCTCATTGACGGCACATCCATCATCTATAGATCATACTACAAGCTTCTTGCCAAGTTACACCATGGCCATCTGACACATGCTGATGGAAATGGAGATTGGGTGCTGACCATATTTACAGCGCTTTCTCTTATAATTGATGTGCTACAGTTTGTTCCTTCCCATGTGGCGGTGGTGTTTGACCATGATGCTGCTTTGGTACGTGTAGCTGTTTTCTCAAGCCCAATTTTTGATAAGACAGACCTTCTCTTTTCAGGAGGTTCATTTGGTCAAACTACACATAAGATCTGGGACCTCTCTCTCATTGCTAATTGGCATGAATTTTCGTCATACTTTATACCCCGCATACAAGAGCAATCGCCCCCTACACCAGATACCATTGTTCAGGGACTTCAGTACTTGAAAGCATCCCTCAAATCTATGTCCATCACGGTGATTGAGGTTCCAGGTGTGGAAGCTGATGATGTGATTGGAACATTGGCTGTTAGGAGTGTTGATAATGGTTACAAGGTACGAGTTGTCTCCCCAGACAAAGACTTTTTTCAGATCCTATCTCCTTCATTGCGTCTTCTACGAATTGCTTCACGTGGCTTTGAGATGGTTTCATTTGGAATGGAGGACTTTGCTAAAAAATATGGAACCTTGCAACCCTCTCAGTTTGTTGATGTGATGTCACTTGTTGGTGACAAATGTGATAACATTCCAGGGGTTGATGGAATTGGAAACGTTCATGCTCTGCAACTCATCACTAAATTTGCCTCATTGGAGAATTTATTGCAGTGTGTGCATCAAGTTGAGGAAGAACGAATCAGAAAGGCCTTGATAGCAGGTGCTGAACAGGCTATATTAAGCAAGAACTTGGCACTTTTACGTTCTGATCTTCCATTCTACATGGTACCATTCAATACAAAAGATCTGGCATTTATAAAACCTGAGGATGATGGAGAGAAATTCAGGAGTCTCTTGACTGCCATTAGTGCGTATGCGGAAGGATTTTCTGCTGATCCAGTCATAAGAAGAGCATTTTACTTATGGAACAAACTACAAAACCATAACCAAGTATCCTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
5_3_exonuc 5_3_exonuc_N

Protein Analysis

450

Amino Acids

49.93

Weight (kDa)

7.03

Isoelectric Point (pI)

45.0

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
5_3_exonuc_N PF02739 95 - 167 1.9e-07 5'-3' exonuclease, N-terminal resolvase-like domain
5_3_exonuc_N PF02739 210 - 308 6.1e-20 5'-3' exonuclease, N-terminal resolvase-like domain
5_3_exonuc PF01367 311 - 406 2.6e-24 5'-3' exonuclease, C-terminal SAM fold
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 2 cut(s) 419, 1211
AarI CACCTGC 1 cut(s) 1103
Acc16I TGCGCA 1 cut(s) 101
Acc36I ACCTGC 1 cut(s) 1103
Acc65I GGTACC 1 cut(s) 1180
AccB1I GGYRCC 2 cut(s) 90, 1180
AciI CCGC 4 cut(s) 147, 455, 628, 1271
AclI AACGTT 1 cut(s) 1011
AclWI GGATC 2 cut(s) 826, 1283
AcoI YGGCCR 1 cut(s) 352
AcsI RAATTY 4 cut(s) 605, 1037, 1054, 1235
AcuI CTGAAG 1 cut(s) 662
AcvI CACGTG 1 cut(s) 872
AfaI GTAC 4 cut(s) 486, 683, 798, 1182
AfeI AGCGCT 1 cut(s) 408
AfiI CCNNNNNNNGG 2 cut(s) 275, 454
AflIII ACRYGT 1 cut(s) 487
AgsI TTSAA 5 cut(s) 35, 55, 273, 688, 1189
AjnI CCWGG 3 cut(s) 67, 730, 988
AjuI GAANNNNNNNTTGG 2 cut(s) 367, 399
AluBI AGCT 6 cut(s) 51, 74, 115, 331, 494, 743
AluI AGCT 6 cut(s) 51, 74, 115, 331, 494, 743
Alw21I GWGCWC 1 cut(s) 76
Alw26I GTCTC 3 cut(s) 128, 811, 1250
AlwI GGATC 2 cut(s) 826, 1283
AlwNI CAGNNNCTG 1 cut(s) 1118
Ama87I CYCGRG 1 cut(s) 86
Aor51HI AGCGCT 1 cut(s) 408
AoxI GGCC 4 cut(s) 3, 64, 352, 1101
ApeKI GCWGC 2 cut(s) 22, 476
ApoI RAATTY 4 cut(s) 605, 1037, 1054, 1235
Asp700I GAANNNNTTC 1 cut(s) 865
Asp718I GGTACC 1 cut(s) 1180
AspLEI GCGC 2 cut(s) 102, 409
AspS9I GGNCC 2 cut(s) 65, 577
AsuC2I CCSGG 1 cut(s) 195
AsuHPI GGTGA 2 cut(s) 730, 980
AvaI CYCGRG 1 cut(s) 86
AvaII GGWCC 1 cut(s) 577
AxyI CCTNAGG 1 cut(s) 1218
BaeGI GKGCMC 1 cut(s) 93
BaeI ACNNNNGTAYC 2 cut(s) 651, 684
BalI TGGCCA 1 cut(s) 354
BanI GGYRCC 2 cut(s) 90, 1180
BanII GRGCYC 1 cut(s) 76
BbrPI CACGTG 1 cut(s) 872
BbsI GAAGAC 1 cut(s) 845
Bbv12I GWGCWC 1 cut(s) 76
BbvI GCAGC 2 cut(s) 9, 463
BccI CCATC 7 cut(s) 314, 363, 365, 719, 877, 992, 1220
BceAI ACGGC 1 cut(s) 313
BciT130I CCWGG 3 cut(s) 69, 732, 990
BcnI CCSGG 1 cut(s) 195
BcoDI GTCTC 3 cut(s) 128, 811, 1250
BfaI CTAG 1 cut(s) 1351
BfmI CTRYAG 2 cut(s) 313, 431
BfoI RGCGCY 1 cut(s) 410
BfuAI ACCTGC 1 cut(s) 1103
BglII AGATCT 2 cut(s) 570, 1198
BisI GCNGC 2 cut(s) 23, 477
BlsI GCNGC 2 cut(s) 24, 478
BmcAI AGTACT 1 cut(s) 683
Bme1390I CCNGG 4 cut(s) 69, 195, 732, 990
Bme18I GGWCC 1 cut(s) 577
BmeT110I CYCGRG 1 cut(s) 86
BmgT120I GGNCC 2 cut(s) 65, 577
BmiI GGNNCC 5 cut(s) 92, 578, 729, 925, 1182
BmrFI CCNGG 4 cut(s) 69, 195, 732, 990
BmsI GCATC 3 cut(s) 463, 701, 1081
BpiI GAAGAC 1 cut(s) 845
BplI GAGNNNNNCTC 2 cut(s) 273, 305
BpuEI CTTGAG 1 cut(s) 487
BpuMI CCSGG 1 cut(s) 195
BsaAI YACGTR 2 cut(s) 488, 872
BsaJI CCNNGG 3 cut(s) 67, 349, 989
BsaXI ACNNNNNCTCC 2 cut(s) 372, 402
Bsc4I CCNNNNNNNGG 2 cut(s) 275, 454
Bse1I ACTGG 2 cut(s) 174, 1292
Bse21I CCTNAGG 1 cut(s) 1218
Bse3DI GCAATG 2 cut(s) 588, 845
BseBI CCWGG 3 cut(s) 69, 732, 990
BseDI CCNNGG 3 cut(s) 67, 349, 989
BseGI GGATG 4 cut(s) 143, 302, 692, 1228
BseLI CCNNNNNNNGG 2 cut(s) 275, 454
BseMI GCAATG 2 cut(s) 588, 845
BseMII CTCAG 2 cut(s) 953, 1209
BseNI ACTGG 2 cut(s) 174, 1292
BseSI GKGCMC 1 cut(s) 93
BseXI GCAGC 2 cut(s) 9, 463
BshFI GGCC 4 cut(s) 5, 66, 354, 1103
BshNI GGYRCC 2 cut(s) 90, 1180
BsiHKAI GWGCWC 1 cut(s) 76
BsiHKCI CYCGRG 1 cut(s) 86
BsiSI CCGG 1 cut(s) 195
BslFI GGGAC 3 cut(s) 168, 590, 687
BslI CCNNNNNNNGG 2 cut(s) 275, 454
BsmAI GTCTC 3 cut(s) 128, 811, 1250
BsmFI GGGAC 3 cut(s) 168, 590, 687
BsnI GGCC 4 cut(s) 5, 66, 354, 1103
BsoBI CYCGRG 1 cut(s) 86
Bsp1286I GDGCHC 2 cut(s) 76, 93
Bsp143I GATC 6 cut(s) 317, 570, 831, 1162, 1198, 1288
Bsp19I CCATGG 1 cut(s) 349
BspACI CCGC 4 cut(s) 147, 455, 628, 1271
BspANI GGCC 4 cut(s) 5, 66, 354, 1103
BspCNI CTCAG 2 cut(s) 952, 1210
BspHI TCATGA 1 cut(s) 205
BspLI GGNNCC 5 cut(s) 92, 578, 729, 925, 1182
BspMI ACCTGC 1 cut(s) 1103
BspPI GGATC 2 cut(s) 826, 1283
BspQI GCTCTTC 1 cut(s) 1297
BspT107I GGYRCC 2 cut(s) 90, 1180
BsrDI GCAATG 2 cut(s) 588, 845
BsrI ACTGG 2 cut(s) 174, 1292
BssECI CCNNGG 3 cut(s) 67, 349, 989
BssMI GATC 6 cut(s) 317, 570, 831, 1162, 1198, 1288
BssT1I CCWWGG 1 cut(s) 349
Bst2UI CCWGG 3 cut(s) 69, 732, 990
Bst4CI ACNGT 2 cut(s) 435, 718
Bst6I CTCTTC 3 cut(s) 22, 240, 1297
BstAPI GCANNNNNTGC 2 cut(s) 97, 1069
BstBAI YACGTR 2 cut(s) 488, 872
BstC8I GCNNGC 1 cut(s) 7
BstDEI CTNAG 2 cut(s) 939, 1218
BstDSI CCRYGG 1 cut(s) 349
BstF5I GGATG 4 cut(s) 143, 302, 692, 1228
BstH2I RGCGCY 1 cut(s) 410
BstHHI GCGC 2 cut(s) 102, 409
BstKTI GATC 6 cut(s) 320, 573, 834, 1165, 1201, 1291
BstMAI GTCTC 3 cut(s) 128, 811, 1250
BstMBI GATC 6 cut(s) 317, 570, 831, 1162, 1198, 1288
BstMWI GCNNNNNNNGC 5 cut(s) 97, 1069, 1109, 1124, 1262
BstNI CCWGG 3 cut(s) 69, 732, 990
BstNSI RCATGY 1 cut(s) 368
BstSCI CCNGG 4 cut(s) 67, 193, 730, 988
BstSFI CTRYAG 2 cut(s) 313, 431
BstSLI GKGCMC 1 cut(s) 93
BstV1I GCAGC 2 cut(s) 9, 463
BstV2I GAAGAC 1 cut(s) 845
BstX2I RGATCY 3 cut(s) 570, 831, 1198
BstYI RGATCY 3 cut(s) 570, 831, 1198
Bsu36I CCTNAGG 1 cut(s) 1218
BsuRI GGCC 4 cut(s) 5, 66, 354, 1103
BtgI CCRYGG 1 cut(s) 349
BtsCI GGATG 4 cut(s) 143, 302, 692, 1228
BtsI GCAGTG 1 cut(s) 1070
BtsIMutI CAGTG 2 cut(s) 181, 1070
BveI ACCTGC 1 cut(s) 1103
Cac8I GCNNGC 1 cut(s) 7
CaiI CAGNNNCTG 1 cut(s) 1118
CciI TCATGA 1 cut(s) 205
CfoI GCGC 2 cut(s) 102, 409
Cfr13I GGNCC 2 cut(s) 65, 577
CseI GACGC 1 cut(s) 839
Csp6I GTAC 4 cut(s) 485, 682, 797, 1181
CviAII CATG 8 cut(s) 206, 350, 365, 449, 470, 602, 1016, 1177
CviQI GTAC 4 cut(s) 485, 682, 797, 1181
DdeI CTNAG 2 cut(s) 939, 1218
DpnI GATC 6 cut(s) 319, 572, 833, 1164, 1200, 1290
DpnII GATC 6 cut(s) 317, 570, 831, 1162, 1198, 1288
EaeI YGGCCR 1 cut(s) 352
Eam1104I CTCTTC 3 cut(s) 22, 240, 1297
EarI CTCTTC 3 cut(s) 22, 240, 1297
Ecl136II GAGCTC 1 cut(s) 74
Eco130I CCWWGG 1 cut(s) 349
Eco147I AGGCCT 1 cut(s) 1103
Eco24I GRGCYC 1 cut(s) 76
Eco47I GGWCC 1 cut(s) 577
Eco47III AGCGCT 1 cut(s) 408
Eco53kI GAGCTC 1 cut(s) 74
Eco57I CTGAAG 1 cut(s) 662
Eco72I CACGTG 1 cut(s) 872
Eco81I CCTNAGG 1 cut(s) 1218
Eco88I CYCGRG 1 cut(s) 86
EcoICRI GAGCTC 1 cut(s) 74
EcoO109I RGGNCCY 1 cut(s) 577
EcoRII CCWGG 3 cut(s) 67, 730, 988
EcoT14I CCWWGG 1 cut(s) 349
EcoT38I GRGCYC 1 cut(s) 76
ErhI CCWWGG 1 cut(s) 349
FaeI CATG 8 cut(s) 209, 353, 368, 452, 473, 605, 1019, 1180
FaqI GGGAC 3 cut(s) 168, 590, 687
FatI CATG 8 cut(s) 205, 349, 364, 448, 469, 601, 1015, 1176
FauI CCCGC 1 cut(s) 635
Fnu4HI GCNGC 2 cut(s) 23, 477
FokI GGATG 4 cut(s) 130, 289, 679, 1235
FriOI GRGCYC 1 cut(s) 76
Fsp4HI GCNGC 2 cut(s) 23, 477
FspBI CTAG 1 cut(s) 1351
FspI TGCGCA 1 cut(s) 101
GlaI GCGC 2 cut(s) 101, 408
GluI GCNGC 2 cut(s) 23, 477
HaeII RGCGCY 1 cut(s) 410
HaeIII GGCC 4 cut(s) 5, 66, 354, 1103
HapII CCGG 1 cut(s) 195
HgaI GACGC 1 cut(s) 839
HhaI GCGC 2 cut(s) 102, 409
Hin1II CATG 8 cut(s) 209, 353, 368, 452, 473, 605, 1019, 1180
Hin6I GCGC 2 cut(s) 100, 407
HinP1I GCGC 2 cut(s) 100, 407
HindIII AAGCTT 2 cut(s) 49, 329
HinfI GANTC 3 cut(s) 230, 1092, 1243
HpaII CCGG 1 cut(s) 195
HphI GGTGA 2 cut(s) 730, 980
Hpy166II GTNNAC 1 cut(s) 181
Hpy188I TCNGA 5 cut(s) 138, 360, 831, 1097, 1162
Hpy188III TCNNGA 4 cut(s) 206, 540, 1240, 1249
Hpy8I GTNNAC 1 cut(s) 181
HpyAV CCTTC 5 cut(s) 279, 453, 539, 852, 1268
HpyCH4III ACNGT 2 cut(s) 435, 718
HpyCH4IV ACGT 4 cut(s) 487, 871, 1011, 1156
HpyCH4V TGCA 4 cut(s) 931, 1024, 1063, 1072
HpyF10VI GCNNNNNNNGC 5 cut(s) 97, 1069, 1109, 1124, 1262
HpyF3I CTNAG 2 cut(s) 939, 1218
HpySE526I ACGT 4 cut(s) 487, 871, 1011, 1156
Hsp92II CATG 8 cut(s) 209, 353, 368, 452, 473, 605, 1019, 1180
HspAI GCGC 2 cut(s) 100, 407
KpnI GGTACC 1 cut(s) 1184
Kzo9I GATC 6 cut(s) 317, 570, 831, 1162, 1198, 1288
LguI GCTCTTC 1 cut(s) 1297
LmnI GCTCC 1 cut(s) 71
Lsp1109I GCAGC 2 cut(s) 9, 463
LweI GCATC 3 cut(s) 463, 701, 1081
MaeI CTAG 1 cut(s) 1351
MaeII ACGT 4 cut(s) 487, 871, 1011, 1156
MaeIII GTNAC 5 cut(s) 263, 342, 788, 957, 968
MalI GATC 6 cut(s) 319, 572, 833, 1164, 1200, 1290
MboI GATC 6 cut(s) 317, 570, 831, 1162, 1198, 1288
MboII GAAGA 6 cut(s) 9, 257, 845, 1097, 1157, 1314
MflI RGATCY 3 cut(s) 570, 831, 1198
MhlI GDGCHC 2 cut(s) 76, 93
MlsI TGGCCA 1 cut(s) 354
MluNI TGGCCA 1 cut(s) 354
MlyI GAGTC 1 cut(s) 1252
Mox20I TGGCCA 1 cut(s) 354
MroXI GAANNNNTTC 1 cut(s) 865
MscI TGGCCA 1 cut(s) 354
MseI TTAA 1 cut(s) 1133
MslI CAYNNNNRTG 3 cut(s) 210, 369, 716
Msp20I TGGCCA 1 cut(s) 354
MspI CCGG 1 cut(s) 195
MspR9I CCNGG 4 cut(s) 69, 195, 732, 990
MvaI CCWGG 3 cut(s) 69, 732, 990
MwoI GCNNNNNNNGC 5 cut(s) 97, 1069, 1109, 1124, 1262
NciI CCSGG 1 cut(s) 195
NcoI CCATGG 1 cut(s) 349
NdeII GATC 6 cut(s) 317, 570, 831, 1162, 1198, 1288
NlaIII CATG 8 cut(s) 209, 353, 368, 452, 473, 605, 1019, 1180
NlaIV GGNNCC 5 cut(s) 92, 578, 729, 925, 1182
NmeAIII GCCGAG 1 cut(s) 164
NmuCI GTSAC 2 cut(s) 957, 968
NsbI TGCGCA 1 cut(s) 101
NspI RCATGY 1 cut(s) 368
PagI TCATGA 1 cut(s) 205
PaqCI CACCTGC 1 cut(s) 1103
PceI AGGCCT 1 cut(s) 1103
PciSI GCTCTTC 1 cut(s) 1297
PdmI GAANNNNTTC 1 cut(s) 865
PfeI GAWTC 2 cut(s) 230, 1092
PkrI GCNGC 2 cut(s) 24, 478
PleI GAGTC 1 cut(s) 1251
PmaCI CACGTG 1 cut(s) 872
PmlI CACGTG 1 cut(s) 872
PpsI GAGTC 1 cut(s) 1251
Ppu21I YACGTR 2 cut(s) 488, 872
PpuMI RGGWCCY 1 cut(s) 577
PsiI TTATAA 2 cut(s) 419, 1211
Psp124BI GAGCTC 1 cut(s) 76
Psp1406I AACGTT 1 cut(s) 1011
Psp5II RGGWCCY 1 cut(s) 577
Psp6I CCWGG 3 cut(s) 67, 730, 988
PspCI CACGTG 1 cut(s) 872
PspGI CCWGG 3 cut(s) 67, 730, 988
PspN4I GGNNCC 5 cut(s) 92, 578, 729, 925, 1182
PspPI GGNCC 2 cut(s) 65, 577
PspPPI RGGWCCY 1 cut(s) 577
PstNI CAGNNNCTG 1 cut(s) 1118
PsuI RGATCY 3 cut(s) 570, 831, 1198
RsaI GTAC 4 cut(s) 486, 683, 798, 1182
RsaNI GTAC 4 cut(s) 485, 682, 797, 1181
RseI CAYNNNNRTG 3 cut(s) 210, 369, 716
SacI GAGCTC 1 cut(s) 76
SapI GCTCTTC 1 cut(s) 1297
SaqAI TTAA 1 cut(s) 1133
SatI GCNGC 2 cut(s) 23, 477
Sau3AI GATC 6 cut(s) 317, 570, 831, 1162, 1198, 1288
Sau96I GGNCC 2 cut(s) 65, 577
ScaI AGTACT 1 cut(s) 683
SchI GAGTC 1 cut(s) 1252
ScrFI CCNGG 4 cut(s) 69, 195, 732, 990
SduI GDGCHC 2 cut(s) 76, 93
SfaNI GCATC 3 cut(s) 463, 701, 1081
SfcI CTRYAG 2 cut(s) 313, 431
SinI GGWCC 1 cut(s) 577
SmiMI CAYNNNNRTG 3 cut(s) 210, 369, 716
SmlI CTYRAG 1 cut(s) 502
SmoI CTYRAG 1 cut(s) 502
SseBI AGGCCT 1 cut(s) 1103
SsiI CCGC 4 cut(s) 147, 455, 628, 1271
SspMI CTAG 1 cut(s) 1351
SstI GAGCTC 1 cut(s) 76
StuI AGGCCT 1 cut(s) 1103
StyD4I CCNGG 4 cut(s) 67, 193, 730, 988
StyI CCWWGG 1 cut(s) 349
TaaI ACNGT 2 cut(s) 435, 718
TaiI ACGT 4 cut(s) 490, 874, 1014, 1159
TatI WGTACW 1 cut(s) 681
TfiI GAWTC 2 cut(s) 230, 1092
Tru1I TTAA 1 cut(s) 1133
Tru9I TTAA 1 cut(s) 1133
TscAI CASTG 2 cut(s) 181, 1070
TseFI GTSAC 2 cut(s) 957, 968
TseI GCWGC 2 cut(s) 22, 476
Tsp45I GTSAC 2 cut(s) 957, 968
TspDTI ATGAA 6 cut(s) 194, 537, 618, 834, 879, 1004
TspRI CASTG 2 cut(s) 181, 1070
VpaK11BI GGWCC 1 cut(s) 577
XapI RAATTY 4 cut(s) 605, 1037, 1054, 1235
XceI RCATGY 1 cut(s) 368
XmnI GAANNNNTTC 1 cut(s) 865
XspI CTAG 1 cut(s) 1351
ZrmI AGTACT 1 cut(s) 683
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.