RchiOBHm_Chr4g0406021

DNA polymerase I

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
4
OG0004379
Physical Location & Seq
Forward (+)
27079977 .. 27092178
12202 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ37746

Sequence Viewer

Length: 1302 bp
ATGGTTCATATCTTATTTATGGCCTGCTCTTTCTCTTCGCTGCTTCACTTTCAATCCCTTTGGAGAAGCTTCAAGTTGTTTGGCCCAGGAGCTCACAAGAGGCTCGGGCACCACTTGCGCACTCCCAACAAGCTCACTTGTCTCCATTTTTCTCCTATAACATCCGCAAAGGGACATTGTAATCTAGCCACCAGTGTTCACTCTGCATTACCCGGACTTGTTCATGACAATGGAGATTTGCTGGTTGATTCAGGGAAGCGTGAAGAGAAAATTGTATATAGTAACCCTTCAAATGGTAGAGTAATGCTCATTGACGGCACATCCATCATCTATAGATCATACTACAAGCTTCTCGCCAAGTTACACCATGGCCATCTGACACATGCTGATGGAAATGGAGATTGGGTGCTGACCATATTTACAGCGCTTTCTCTTATAATTGATGTGCTACAGTTTGTTCCTTCCCATGTGGCGGTGGTGTTTGACCATGATGGAGGTTCATTTGGTCAAACTAGTGTTTCATCCAAAGAAAGTGTTAGAGGAAAAGGCATGAATTTTCGTCATACTTTATACCCCGCATACAAGAGCAATCGCCCCCCTACACCAGATACCATTGTTCAGGGACTTCAGTACTTGAAAGCATCCCTCAAATCTATGTCCATCACGGTGATTGAGGTTCCAGGTGTGGAAGCTGATGATGTGATTGGAACATTGGCTGTTAGGAGTGTTGATAATGGTTACAAGGTACGAGTTGTCTCCCCAGACAAAGACTTTTTTCAGATCCTATCTCCTTCATTGCGTCTTCTACGAATTGCTTCACGTGGCTTTGAGATGGTTTCGTTTGGAATGGAGGACTTTGCTAAAAAATATGGAACCTTGCAACCCTCTCAGTTTGTTGATGTGATGTCACTTGTTGGTGACAAATGTGATAACATTCCAGGGGTTGATGGAATTGGAAACGTTCATGCTCTGCAACTCATCACTAAATTTGCCTCATTGGAGAATTTGTTGCAGTGTGTGCATCAAGTTGAGGAAGAACGAATCAGAAAGGCCTTGATAGCAGGTGCTGAACAGGCTATATTAAGCAAGAACTTGGCACTATTACGTTCTGATCTTCCATTCTACATGGTACCATTCAATACAAAAGATCTGGCATTTATAAAACCCGAGGATGATGGAGAGAAATTCAGGAGTCTCTTGACTGCCATTAGTGCATATGCGGAAGGATTTTCTGCTGATCCAGTCATAAGAAGAGCATTTTACTTATGGAACAAACTACAAAACCATAACCATGTTTCCTAG
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

433

Amino Acids

48.0

Weight (kDa)

8.79

Isoelectric Point (pI)

44.08

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
5_3_exonuc_N PF02739 101 - 168 2.6e-07 5'-3' exonuclease, N-terminal resolvase-like domain
5_3_exonuc_N PF02739 183 - 291 1.7e-28 5'-3' exonuclease, N-terminal resolvase-like domain
5_3_exonuc PF01367 294 - 389 2.4e-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) 437, 1160
AarI CACCTGC 1 cut(s) 1052
Acc16I TGCGCA 1 cut(s) 119
Acc36I ACCTGC 1 cut(s) 1052
Acc65I GGTACC 1 cut(s) 1129
AccB1I GGYRCC 2 cut(s) 108, 1129
AciI CCGC 4 cut(s) 165, 473, 576, 1220
AclI AACGTT 1 cut(s) 960
AclWI GGATC 2 cut(s) 775, 1232
AcoI YGGCCR 1 cut(s) 370
AcsI RAATTY 4 cut(s) 553, 986, 1003, 1184
AcuI CTGAAG 1 cut(s) 611
AcvI CACGTG 1 cut(s) 821
AfaI GTAC 3 cut(s) 632, 747, 1131
AfeI AGCGCT 1 cut(s) 426
AfiI CCNNNNNNNGG 2 cut(s) 293, 472
AgsI TTSAA 5 cut(s) 53, 73, 291, 637, 1138
AhlI ACTAGT 1 cut(s) 512
AjnI CCWGG 3 cut(s) 85, 679, 937
AjuI GAANNNNNNNTTGG 2 cut(s) 385, 417
AluBI AGCT 5 cut(s) 69, 92, 133, 349, 692
AluI AGCT 5 cut(s) 69, 92, 133, 349, 692
Alw21I GWGCWC 1 cut(s) 94
Alw26I GTCTC 3 cut(s) 146, 760, 1199
AlwI GGATC 2 cut(s) 775, 1232
AlwNI CAGNNNCTG 1 cut(s) 1067
Ama87I CYCGRG 2 cut(s) 104, 1166
Aor51HI AGCGCT 1 cut(s) 426
AoxI GGCC 4 cut(s) 21, 82, 370, 1050
ApeKI GCWGC 1 cut(s) 40
ApoI RAATTY 4 cut(s) 553, 986, 1003, 1184
Asp700I GAANNNNTTC 1 cut(s) 814
Asp718I GGTACC 1 cut(s) 1129
AspLEI GCGC 2 cut(s) 120, 427
AspS9I GGNCC 1 cut(s) 83
AsuC2I CCSGG 1 cut(s) 213
AsuHPI GGTGA 2 cut(s) 679, 929
AvaI CYCGRG 2 cut(s) 104, 1166
BaeGI GKGCMC 1 cut(s) 111
BaeI ACNNNNGTAYC 2 cut(s) 600, 633
BalI TGGCCA 1 cut(s) 372
BanI GGYRCC 2 cut(s) 108, 1129
BanII GRGCYC 1 cut(s) 94
BbrPI CACGTG 1 cut(s) 821
BbsI GAAGAC 1 cut(s) 794
Bbv12I GWGCWC 1 cut(s) 94
BbvI GCAGC 1 cut(s) 27
BccI CCATC 8 cut(s) 332, 381, 383, 485, 668, 826, 941, 1169
BceAI ACGGC 1 cut(s) 331
BciT130I CCWGG 3 cut(s) 87, 681, 939
BcnI CCSGG 1 cut(s) 213
BcoDI GTCTC 3 cut(s) 146, 760, 1199
BcuI ACTAGT 1 cut(s) 512
BfaI CTAG 3 cut(s) 185, 513, 1300
BfmI CTRYAG 2 cut(s) 331, 449
BfoI RGCGCY 1 cut(s) 428
BfuAI ACCTGC 1 cut(s) 1052
BglII AGATCT 1 cut(s) 1147
BisI GCNGC 1 cut(s) 41
BlsI GCNGC 1 cut(s) 42
BmcAI AGTACT 1 cut(s) 632
Bme1390I CCNGG 4 cut(s) 87, 213, 681, 939
BmeT110I CYCGRG 2 cut(s) 104, 1166
BmgT120I GGNCC 1 cut(s) 83
BmiI GGNNCC 4 cut(s) 110, 678, 874, 1131
BmrFI CCNGG 4 cut(s) 87, 213, 681, 939
BmsI GCATC 2 cut(s) 650, 1030
BpiI GAAGAC 1 cut(s) 794
BplI GAGNNNNNCTC 2 cut(s) 291, 323
BpuMI CCSGG 1 cut(s) 213
BsaAI YACGTR 1 cut(s) 821
BsaJI CCNNGG 4 cut(s) 85, 367, 938, 1167
BsaXI ACNNNNNCTCC 4 cut(s) 390, 420, 992, 1022
Bsc4I CCNNNNNNNGG 2 cut(s) 293, 472
Bse1I ACTGG 2 cut(s) 192, 1241
Bse3DI GCAATG 1 cut(s) 794
BseBI CCWGG 3 cut(s) 87, 681, 939
BseDI CCNNGG 4 cut(s) 85, 367, 938, 1167
BseGI GGATG 5 cut(s) 161, 320, 521, 641, 1177
BseLI CCNNNNNNNGG 2 cut(s) 293, 472
BseMI GCAATG 1 cut(s) 794
BseMII CTCAG 1 cut(s) 902
BseNI ACTGG 2 cut(s) 192, 1241
BseSI GKGCMC 1 cut(s) 111
BseXI GCAGC 1 cut(s) 27
BshFI GGCC 4 cut(s) 23, 84, 372, 1052
BshNI GGYRCC 2 cut(s) 108, 1129
BsiHKAI GWGCWC 1 cut(s) 94
BsiHKCI CYCGRG 2 cut(s) 104, 1166
BsiSI CCGG 1 cut(s) 213
BslFI GGGAC 2 cut(s) 186, 636
BslI CCNNNNNNNGG 2 cut(s) 293, 472
BsmAI GTCTC 3 cut(s) 146, 760, 1199
BsmFI GGGAC 2 cut(s) 186, 636
BsnI GGCC 4 cut(s) 23, 84, 372, 1052
BsoBI CYCGRG 2 cut(s) 104, 1166
Bsp1286I GDGCHC 2 cut(s) 94, 111
Bsp143I GATC 5 cut(s) 335, 780, 1111, 1147, 1237
Bsp19I CCATGG 1 cut(s) 367
BspACI CCGC 4 cut(s) 165, 473, 576, 1220
BspANI GGCC 4 cut(s) 23, 84, 372, 1052
BspCNI CTCAG 1 cut(s) 901
BspHI TCATGA 1 cut(s) 223
BspLI GGNNCC 4 cut(s) 110, 678, 874, 1131
BspMI ACCTGC 1 cut(s) 1052
BspPI GGATC 2 cut(s) 775, 1232
BspQI GCTCTTC 1 cut(s) 1246
BspT107I GGYRCC 2 cut(s) 108, 1129
BsrDI GCAATG 1 cut(s) 794
BsrI ACTGG 2 cut(s) 192, 1241
BssECI CCNNGG 4 cut(s) 85, 367, 938, 1167
BssMI GATC 5 cut(s) 335, 780, 1111, 1147, 1237
BssT1I CCWWGG 1 cut(s) 367
Bst2UI CCWGG 3 cut(s) 87, 681, 939
Bst4CI ACNGT 2 cut(s) 453, 667
Bst6I CTCTTC 3 cut(s) 40, 258, 1246
BstAPI GCANNNNNTGC 2 cut(s) 115, 1018
BstBAI YACGTR 1 cut(s) 821
BstC8I GCNNGC 1 cut(s) 25
BstDEI CTNAG 1 cut(s) 888
BstDSI CCRYGG 1 cut(s) 367
BstF5I GGATG 5 cut(s) 161, 320, 521, 641, 1177
BstH2I RGCGCY 1 cut(s) 428
BstHHI GCGC 2 cut(s) 120, 427
BstKTI GATC 5 cut(s) 338, 783, 1114, 1150, 1240
BstMAI GTCTC 3 cut(s) 146, 760, 1199
BstMBI GATC 5 cut(s) 335, 780, 1111, 1147, 1237
BstMWI GCNNNNNNNGC 5 cut(s) 115, 1018, 1058, 1073, 1211
BstNI CCWGG 3 cut(s) 87, 681, 939
BstNSI RCATGY 1 cut(s) 386
BstSCI CCNGG 4 cut(s) 85, 211, 679, 937
BstSFI CTRYAG 2 cut(s) 331, 449
BstSLI GKGCMC 1 cut(s) 111
BstV1I GCAGC 1 cut(s) 27
BstV2I GAAGAC 1 cut(s) 794
BstX2I RGATCY 2 cut(s) 780, 1147
BstYI RGATCY 2 cut(s) 780, 1147
BsuRI GGCC 4 cut(s) 23, 84, 372, 1052
BtgI CCRYGG 1 cut(s) 367
BtsCI GGATG 5 cut(s) 161, 320, 521, 641, 1177
BtsI GCAGTG 1 cut(s) 1019
BtsIMutI CAGTG 2 cut(s) 199, 1019
BveI ACCTGC 1 cut(s) 1052
Cac8I GCNNGC 1 cut(s) 25
CaiI CAGNNNCTG 1 cut(s) 1067
CciI TCATGA 1 cut(s) 223
CfoI GCGC 2 cut(s) 120, 427
Cfr13I GGNCC 1 cut(s) 83
CseI GACGC 1 cut(s) 788
Csp6I GTAC 3 cut(s) 631, 746, 1130
CviAII CATG 9 cut(s) 224, 368, 383, 467, 488, 550, 965, 1126, 1292
CviQI GTAC 3 cut(s) 631, 746, 1130
DdeI CTNAG 1 cut(s) 888
DpnI GATC 5 cut(s) 337, 782, 1113, 1149, 1239
DpnII GATC 5 cut(s) 335, 780, 1111, 1147, 1237
EaeI YGGCCR 1 cut(s) 370
Eam1104I CTCTTC 3 cut(s) 40, 258, 1246
EarI CTCTTC 3 cut(s) 40, 258, 1246
Ecl136II GAGCTC 1 cut(s) 92
Eco130I CCWWGG 1 cut(s) 367
Eco147I AGGCCT 1 cut(s) 1052
Eco24I GRGCYC 1 cut(s) 94
Eco47III AGCGCT 1 cut(s) 426
Eco53kI GAGCTC 1 cut(s) 92
Eco57I CTGAAG 1 cut(s) 611
Eco72I CACGTG 1 cut(s) 821
Eco88I CYCGRG 2 cut(s) 104, 1166
EcoICRI GAGCTC 1 cut(s) 92
EcoRII CCWGG 3 cut(s) 85, 679, 937
EcoT14I CCWWGG 1 cut(s) 367
EcoT38I GRGCYC 1 cut(s) 94
ErhI CCWWGG 1 cut(s) 367
FaeI CATG 9 cut(s) 227, 371, 386, 470, 491, 553, 968, 1129, 1295
FaqI GGGAC 2 cut(s) 186, 636
FatI CATG 9 cut(s) 223, 367, 382, 466, 487, 549, 964, 1125, 1291
FauI CCCGC 1 cut(s) 583
FauNDI CATATG 1 cut(s) 1216
Fnu4HI GCNGC 1 cut(s) 41
FokI GGATG 5 cut(s) 148, 307, 508, 628, 1184
FriOI GRGCYC 1 cut(s) 94
Fsp4HI GCNGC 1 cut(s) 41
FspBI CTAG 3 cut(s) 185, 513, 1300
FspI TGCGCA 1 cut(s) 119
GlaI GCGC 2 cut(s) 119, 426
GluI GCNGC 1 cut(s) 41
HaeII RGCGCY 1 cut(s) 428
HaeIII GGCC 4 cut(s) 23, 84, 372, 1052
HapII CCGG 1 cut(s) 213
HgaI GACGC 1 cut(s) 788
HhaI GCGC 2 cut(s) 120, 427
Hin1II CATG 9 cut(s) 227, 371, 386, 470, 491, 553, 968, 1129, 1295
Hin6I GCGC 2 cut(s) 118, 425
HinP1I GCGC 2 cut(s) 118, 425
HindIII AAGCTT 2 cut(s) 67, 347
HinfI GANTC 3 cut(s) 248, 1041, 1192
HpaII CCGG 1 cut(s) 213
HphI GGTGA 2 cut(s) 679, 929
Hpy166II GTNNAC 1 cut(s) 199
Hpy188I TCNGA 4 cut(s) 378, 780, 1046, 1111
Hpy188III TCNNGA 3 cut(s) 224, 1189, 1198
Hpy8I GTNNAC 1 cut(s) 199
HpyAV CCTTC 4 cut(s) 297, 471, 801, 1217
HpyCH4III ACNGT 2 cut(s) 453, 667
HpyCH4IV ACGT 3 cut(s) 820, 960, 1105
HpyCH4V TGCA 6 cut(s) 206, 880, 973, 1012, 1021, 1214
HpyF10VI GCNNNNNNNGC 5 cut(s) 115, 1018, 1058, 1073, 1211
HpyF3I CTNAG 1 cut(s) 888
HpySE526I ACGT 3 cut(s) 820, 960, 1105
Hsp92II CATG 9 cut(s) 227, 371, 386, 470, 491, 553, 968, 1129, 1295
HspAI GCGC 2 cut(s) 118, 425
KpnI GGTACC 1 cut(s) 1133
Kzo9I GATC 5 cut(s) 335, 780, 1111, 1147, 1237
LguI GCTCTTC 1 cut(s) 1246
LmnI GCTCC 1 cut(s) 89
Lsp1109I GCAGC 1 cut(s) 27
LweI GCATC 2 cut(s) 650, 1030
MaeI CTAG 3 cut(s) 185, 513, 1300
MaeII ACGT 3 cut(s) 820, 960, 1105
MaeIII GTNAC 5 cut(s) 281, 360, 737, 906, 917
MalI GATC 5 cut(s) 337, 782, 1113, 1149, 1239
MboI GATC 5 cut(s) 335, 780, 1111, 1147, 1237
MboII GAAGA 6 cut(s) 27, 275, 794, 1046, 1106, 1263
MflI RGATCY 2 cut(s) 780, 1147
MhlI GDGCHC 2 cut(s) 94, 111
MlsI TGGCCA 1 cut(s) 372
MluCI AATT 8 cut(s) 270, 438, 553, 810, 951, 986, 1003, 1184
MluNI TGGCCA 1 cut(s) 372
MlyI GAGTC 1 cut(s) 1201
Mox20I TGGCCA 1 cut(s) 372
MroXI GAANNNNTTC 1 cut(s) 814
MscI TGGCCA 1 cut(s) 372
MseI TTAA 1 cut(s) 1082
MslI CAYNNNNRTG 4 cut(s) 228, 387, 665, 1290
Msp20I TGGCCA 1 cut(s) 372
MspI CCGG 1 cut(s) 213
MspR9I CCNGG 4 cut(s) 87, 213, 681, 939
MvaI CCWGG 3 cut(s) 87, 681, 939
MwoI GCNNNNNNNGC 5 cut(s) 115, 1018, 1058, 1073, 1211
NciI CCSGG 1 cut(s) 213
NcoI CCATGG 1 cut(s) 367
NdeI CATATG 1 cut(s) 1216
NdeII GATC 5 cut(s) 335, 780, 1111, 1147, 1237
NlaIII CATG 9 cut(s) 227, 371, 386, 470, 491, 553, 968, 1129, 1295
NlaIV GGNNCC 4 cut(s) 110, 678, 874, 1131
NmuCI GTSAC 2 cut(s) 906, 917
NsbI TGCGCA 1 cut(s) 119
NspI RCATGY 1 cut(s) 386
PagI TCATGA 1 cut(s) 223
PaqCI CACCTGC 1 cut(s) 1052
PceI AGGCCT 1 cut(s) 1052
PciSI GCTCTTC 1 cut(s) 1246
PdmI GAANNNNTTC 1 cut(s) 814
PfeI GAWTC 2 cut(s) 248, 1041
PkrI GCNGC 1 cut(s) 42
PleI GAGTC 1 cut(s) 1200
PmaCI CACGTG 1 cut(s) 821
PmlI CACGTG 1 cut(s) 821
PpsI GAGTC 1 cut(s) 1200
Ppu21I YACGTR 1 cut(s) 821
PsiI TTATAA 2 cut(s) 437, 1160
Psp124BI GAGCTC 1 cut(s) 94
Psp1406I AACGTT 1 cut(s) 960
Psp6I CCWGG 3 cut(s) 85, 679, 937
PspCI CACGTG 1 cut(s) 821
PspGI CCWGG 3 cut(s) 85, 679, 937
PspN4I GGNNCC 4 cut(s) 110, 678, 874, 1131
PspPI GGNCC 1 cut(s) 83
PstNI CAGNNNCTG 1 cut(s) 1067
PsuI RGATCY 2 cut(s) 780, 1147
RsaI GTAC 3 cut(s) 632, 747, 1131
RsaNI GTAC 3 cut(s) 631, 746, 1130
RseI CAYNNNNRTG 4 cut(s) 228, 387, 665, 1290
SacI GAGCTC 1 cut(s) 94
SapI GCTCTTC 1 cut(s) 1246
SaqAI TTAA 1 cut(s) 1082
SatI GCNGC 1 cut(s) 41
Sau3AI GATC 5 cut(s) 335, 780, 1111, 1147, 1237
Sau96I GGNCC 1 cut(s) 83
ScaI AGTACT 1 cut(s) 632
SchI GAGTC 1 cut(s) 1201
ScrFI CCNGG 4 cut(s) 87, 213, 681, 939
SduI GDGCHC 2 cut(s) 94, 111
SfaNI GCATC 2 cut(s) 650, 1030
SfcI CTRYAG 2 cut(s) 331, 449
SmiMI CAYNNNNRTG 4 cut(s) 228, 387, 665, 1290
SpeI ACTAGT 1 cut(s) 512
Sse9I AATT 8 cut(s) 270, 438, 553, 810, 951, 986, 1003, 1184
SseBI AGGCCT 1 cut(s) 1052
SsiI CCGC 4 cut(s) 165, 473, 576, 1220
SspMI CTAG 3 cut(s) 185, 513, 1300
SstI GAGCTC 1 cut(s) 94
StuI AGGCCT 1 cut(s) 1052
StyD4I CCNGG 4 cut(s) 85, 211, 679, 937
StyI CCWWGG 1 cut(s) 367
TaaI ACNGT 2 cut(s) 453, 667
TaiI ACGT 3 cut(s) 823, 963, 1108
TasI AATT 8 cut(s) 270, 438, 553, 810, 951, 986, 1003, 1184
TatI WGTACW 1 cut(s) 630
TfiI GAWTC 2 cut(s) 248, 1041
Tru1I TTAA 1 cut(s) 1082
Tru9I TTAA 1 cut(s) 1082
TscAI CASTG 2 cut(s) 199, 1019
TseFI GTSAC 2 cut(s) 906, 917
TseI GCWGC 1 cut(s) 40
Tsp45I GTSAC 2 cut(s) 906, 917
TspDTI ATGAA 6 cut(s) 212, 489, 510, 566, 783, 953
TspRI CASTG 2 cut(s) 199, 1019
XapI RAATTY 4 cut(s) 553, 986, 1003, 1184
XceI RCATGY 1 cut(s) 386
XmnI GAANNNNTTC 1 cut(s) 814
XspI CTAG 3 cut(s) 185, 513, 1300
ZrmI AGTACT 1 cut(s) 632
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.