Rorug03G0104100

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0000710
Physical Location & Seq
Reverse (-)
8205492 .. 8209278
3787 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0104100.1

Sequence Viewer

Length: 1476 bp
ATGGTCAGAACCTCTTCCCTCACACCCAGAAGCAAATTCTTCATAAGAAAACACAGAAAATGGCCAGTCTCACCCTACAACACCAAATGGCACACCCTCTTCAATCAACACCAAGCACTACAAACCCTCAAACACTCCCCACTAAACCCACCCCAAAACCTTCTCTCCACACTCATCCACTCCTTCAAAACCTTCAACTCTGACCCAACCCCTGAAGCTTACAACTTTGTCCTCAAAACCCTAACTAAAACCTCACAACTGACCCACATCCCTTCTGTTCTTGACCGCCTTGAATCTGTAGAAAAATTCCACACACCCGAATCGATTTTCGCCAATCTGATTAGATTTTATGGCAGTGCCAATCGAATTGGGGATGCCATTGATGTTTTCTACAGGATTCCCAAGTTCAGGTGTGACCCTTCTGCGGTTTCACTCAATTCTTTGCTGTATGTGCTTTGTGGGAGTAGTGAAGGTCTTAAAATGGTGCCCCAGATTTTGTTGAACAGCCGAGCTATGGGGATTAGGCTTGAAGAGTCGAGCTTTCGGATTTTAATCACTGCATTGTGTGGAATTGGAAGGGTTGGGTATGCCATTGAGATAATGAAGTGCATGATCAGAAATGGGTATGATTTGGATGTAAAGATTTGCTCTTTGGTGCTGTCATCATTGTGTGAGCAAAAGGGTTTAGCTGGTTTGGAGGTTGTGGGTTTTTTGGAAGAAATGAAGAGAGTTGGGTTTTGTGCTGGGATGATGGACTATTCAAATGTGATTAGGTTTTTGGTGAAACAGGGGAAGGGTTTGGATGCTTTGAGGGTTTTGGGGAAGATGAAAGCGGAGGGAATGAAGCCTGATGTTGTTTGTTATACCATGGTTTTACATGGGGTTATTGCAGATGGGGATTACAAGAATGCGGATAAGGTGTTCGATGAATTGCTTGTGTTGGGTTTGGTTCCTGATGTTTATACTTACAATGTGTATATAAATGGGTTGTGTAAGCAGAACAATGTGGAAGCTGGAATAAAGATGATTACTTGTATGGAAGAGTTGGGGTGCAAGCCGAATTTGATTACTTATAACATGTTGTTGAAGGCGTTATGTAAGAATGGGGAGCTGGGTCGGGCGAAGGAGCTTGTGAGTGAGATGACCTTAAAGGGTGTTGGGGTAAACTTGCAGACACATAGAATTATGCTGGATGGTCTGTTTTGTAAAGGTGACATTGATGAAGCTTGTATCTTTATGGAGGAAATGTTGGATAAGTTTCTCTGTCGTTGTTGTTCGGCATATGATGATGTTATCTCTGGGTTGTGCCAGAGGGGTTTGGTTTGTAAAGCAATGGATTTGCTGCTGAAAATGGTTGACAAGAACGTTGCGCCCGGGGCAAGAGCTTGGGAAGCACTACTTCTTAGCTCAGGAACTAGACCTTGCTTAGTAGAGACTACTTGGACTGGTTTAGTGAACCCAATTGAAGTCGATTGA
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
DUF4283 RVT_1 RVT_3 zf-RVT

Protein Analysis

491

Amino Acids

54.87

Weight (kDa)

8.48

Isoelectric Point (pI)

29.86

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 238 - 292 8.4e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 253 - 294 1.9e-07 PPR repeat family
PPR_3 PF13812 276 - 327 1.4e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 283 - 332 1.4e-13 PPR repeat family
PPR_3 PF13812 306 - 367 1.6e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 315 - 347 2.8e-07 PPR repeat
PPR_2 PF13041 318 - 367 1.1e-15 PPR repeat family
PPR_1 PF12854 350 - 382 3.6e-12 PPR repeat
PPR_2 PF13041 353 - 400 7.7e-12 PPR repeat family
PPR PF01535 356 - 386 4.6e-06 PPR repeat
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1074
AccB1I GGYRCC 1 cut(s) 484
AciI CCGC 4 cut(s) 286, 425, 833, 911
AclI AACGTT 1 cut(s) 1365
AcoI YGGCCR 1 cut(s) 62
AcsI RAATTY 3 cut(s) 35, 305, 1060
AcuI CTGAAG 1 cut(s) 234
AfiI CCNNNNNNNGG 3 cut(s) 408, 424, 514
AflIII ACRYGT 1 cut(s) 1077
AgsI TTSAA 9 cut(s) 103, 187, 196, 293, 502, 530, 762, 1087, 1466
AloI GAACNNNNNNTCC 2 cut(s) 905, 937
Alw26I GTCTC 2 cut(s) 73, 1427
Ama87I CYCGRG 1 cut(s) 1373
AoxI GGCC 1 cut(s) 62
ApeKI GCWGC 1 cut(s) 1342
ApoI RAATTY 3 cut(s) 35, 305, 1060
Asp700I GAANNNNTTC 1 cut(s) 13
AspLEI GCGC 1 cut(s) 1372
AsuC2I CCSGG 2 cut(s) 1374, 1375
AsuHPI GGTGA 3 cut(s) 63, 793, 1223
AvaI CYCGRG 1 cut(s) 1373
BaeGI GKGCMC 1 cut(s) 489
BalI TGGCCA 1 cut(s) 64
BanI GGYRCC 1 cut(s) 484
BbvI GCAGC 1 cut(s) 1329
BccI CCATC 3 cut(s) 745, 887, 1187
BclI TGATCA 1 cut(s) 612
BcnI CCSGG 2 cut(s) 1374, 1375
BcoDI GTCTC 2 cut(s) 73, 1427
BfaI CTAG 1 cut(s) 1416
BfmI CTRYAG 2 cut(s) 297, 391
BisI GCNGC 1 cut(s) 1343
BlsI GCNGC 1 cut(s) 1344
Bme1390I CCNGG 2 cut(s) 1374, 1375
BmeT110I CYCGRG 1 cut(s) 1373
BmiI GGNNCC 2 cut(s) 486, 951
BmrFI CCNGG 2 cut(s) 1374, 1375
BmsI GCATC 2 cut(s) 364, 793
Bpu10I CCTNAGC 1 cut(s) 1408
BpuMI CCSGG 2 cut(s) 1374, 1375
Bsa29I ATCGAT 1 cut(s) 323
BsaBI GATNNNNATC 1 cut(s) 551
BsaJI CCNNGG 3 cut(s) 867, 1373, 1374
BsaXI ACNNNNNCTCC 4 cut(s) 149, 179, 1232, 1262
Bsc4I CCNNNNNNNGG 3 cut(s) 408, 424, 514
Bse1I ACTGG 2 cut(s) 65, 1450
Bse3DI GCAATG 1 cut(s) 1338
Bse8I GATNNNNATC 1 cut(s) 551
BseCI ATCGAT 1 cut(s) 323
BseDI CCNNGG 3 cut(s) 867, 1373, 1374
BseGI GGATG 7 cut(s) 174, 267, 379, 640, 753, 808, 1198
BseJI GATNNNNATC 1 cut(s) 551
BseLI CCNNNNNNNGG 3 cut(s) 408, 424, 514
BseMI GCAATG 1 cut(s) 1338
BseMII CTCAG 1 cut(s) 1422
BseNI ACTGG 2 cut(s) 65, 1450
BseSI GKGCMC 1 cut(s) 489
BseXI GCAGC 1 cut(s) 1329
BseYI CCCAGC 2 cut(s) 743, 1111
BshFI GGCC 1 cut(s) 64
BshNI GGYRCC 1 cut(s) 484
BshVI ATCGAT 1 cut(s) 323
BsiHKCI CYCGRG 1 cut(s) 1373
BsiSI CCGG 1 cut(s) 1374
BslI CCNNNNNNNGG 3 cut(s) 408, 424, 514
BsmAI GTCTC 2 cut(s) 73, 1427
BsmI GAATGC 1 cut(s) 913
BsnI GGCC 1 cut(s) 64
BsoBI CYCGRG 1 cut(s) 1373
Bsp1286I GDGCHC 1 cut(s) 489
Bsp143I GATC 1 cut(s) 612
Bsp19I CCATGG 1 cut(s) 867
BspACI CCGC 4 cut(s) 286, 425, 833, 911
BspANI GGCC 1 cut(s) 64
BspCNI CTCAG 1 cut(s) 1421
BspDI ATCGAT 1 cut(s) 323
BspLI GGNNCC 2 cut(s) 486, 951
BspT107I GGYRCC 1 cut(s) 484
BsrDI GCAATG 1 cut(s) 1338
BsrI ACTGG 2 cut(s) 65, 1450
BssECI CCNNGG 3 cut(s) 867, 1373, 1374
BssMI GATC 1 cut(s) 612
BssT1I CCWWGG 1 cut(s) 867
Bst6I CTCTTC 5 cut(s) 19, 104, 525, 719, 1035
BstC8I GCNNGC 1 cut(s) 1055
BstDEI CTNAG 3 cut(s) 1403, 1408, 1426
BstDSI CCRYGG 1 cut(s) 867
BstF5I GGATG 7 cut(s) 174, 267, 379, 640, 753, 808, 1198
BstHHI GCGC 1 cut(s) 1372
BstKTI GATC 1 cut(s) 615
BstMAI GTCTC 2 cut(s) 73, 1427
BstMBI GATC 1 cut(s) 612
BstMWI GCNNNNNNNGC 3 cut(s) 451, 1376, 1391
BstNSI RCATGY 1 cut(s) 1081
BstSCI CCNGG 2 cut(s) 1372, 1373
BstSFI CTRYAG 2 cut(s) 297, 391
BstSLI GKGCMC 1 cut(s) 489
BstV1I GCAGC 1 cut(s) 1329
Bsu15I ATCGAT 1 cut(s) 323
BsuRI GGCC 1 cut(s) 64
BsuTUI ATCGAT 1 cut(s) 323
BtgI CCRYGG 1 cut(s) 867
BtsCI GGATG 7 cut(s) 174, 267, 379, 640, 753, 808, 1198
BtsI GCAGTG 2 cut(s) 361, 555
BtsIMutI CAGTG 2 cut(s) 361, 555
Cac8I GCNNGC 1 cut(s) 1055
CfoI GCGC 1 cut(s) 1372
Cfr9I CCCGGG 1 cut(s) 1373
ClaI ATCGAT 1 cut(s) 323
CviAII CATG 4 cut(s) 610, 868, 878, 1078
DdeI CTNAG 3 cut(s) 1403, 1408, 1426
DpnI GATC 1 cut(s) 614
DpnII GATC 1 cut(s) 612
EaeI YGGCCR 1 cut(s) 62
Eam1104I CTCTTC 5 cut(s) 19, 104, 525, 719, 1035
EarI CTCTTC 5 cut(s) 19, 104, 525, 719, 1035
Eco130I CCWWGG 1 cut(s) 867
Eco57I CTGAAG 1 cut(s) 234
Eco88I CYCGRG 1 cut(s) 1373
EcoT14I CCWWGG 1 cut(s) 867
ErhI CCWWGG 1 cut(s) 867
FaeI CATG 4 cut(s) 613, 871, 881, 1081
FalI AAGNNNNNCTT 2 cut(s) 1383, 1415
FatI CATG 4 cut(s) 609, 867, 877, 1077
FauNDI CATATG 1 cut(s) 1282
FbaI TGATCA 1 cut(s) 612
Fnu4HI GCNGC 1 cut(s) 1343
FokI GGATG 7 cut(s) 161, 254, 386, 647, 760, 815, 1205
Fsp4HI GCNGC 1 cut(s) 1343
FspBI CTAG 1 cut(s) 1416
GlaI GCGC 1 cut(s) 1371
GluI GCNGC 1 cut(s) 1343
GsaI CCCAGC 2 cut(s) 747, 1115
HaeIII GGCC 1 cut(s) 64
HapII CCGG 1 cut(s) 1374
HhaI GCGC 1 cut(s) 1372
Hin1II CATG 4 cut(s) 613, 871, 881, 1081
Hin6I GCGC 1 cut(s) 1370
HinP1I GCGC 1 cut(s) 1370
HincII GTYRAC 1 cut(s) 1357
HindII GTYRAC 1 cut(s) 1357
HindIII AAGCTT 2 cut(s) 216, 1224
HinfI GANTC 4 cut(s) 293, 320, 397, 533
HpaII CCGG 1 cut(s) 1374
HphI GGTGA 3 cut(s) 63, 793, 1223
Hpy166II GTNNAC 3 cut(s) 1165, 1357, 1456
Hpy188I TCNGA 5 cut(s) 8, 202, 339, 546, 617
Hpy188III TCNNGA 3 cut(s) 281, 953, 1410
Hpy8I GTNNAC 3 cut(s) 1165, 1357, 1456
HpyCH4IV ACGT 1 cut(s) 1365
HpyCH4V TGCA 5 cut(s) 560, 609, 890, 1053, 1171
HpyF10VI GCNNNNNNNGC 3 cut(s) 451, 1376, 1391
HpyF3I CTNAG 3 cut(s) 1403, 1408, 1426
HpySE526I ACGT 1 cut(s) 1365
Hsp92II CATG 4 cut(s) 613, 871, 881, 1081
HspAI GCGC 1 cut(s) 1370
Ksp22I TGATCA 1 cut(s) 612
Kzo9I GATC 1 cut(s) 612
LmnI GCTCC 2 cut(s) 1108, 1126
Lsp1109I GCAGC 1 cut(s) 1329
LweI GCATC 2 cut(s) 364, 793
MaeI CTAG 1 cut(s) 1416
MaeII ACGT 1 cut(s) 1365
MaeIII GTNAC 2 cut(s) 413, 1211
MalI GATC 1 cut(s) 614
MboI GATC 1 cut(s) 612
MboII GAAGA 8 cut(s) 6, 31, 91, 542, 728, 736, 835, 1052
MfeI CAATTG 1 cut(s) 1461
MhlI GDGCHC 1 cut(s) 489
MlsI TGGCCA 1 cut(s) 64
MluCI AATT 9 cut(s) 35, 305, 366, 436, 570, 929, 1060, 1182, 1461
MluNI TGGCCA 1 cut(s) 64
MlyI GAGTC 1 cut(s) 542
MmeI TCCRAC 1 cut(s) 1230
Mox20I TGGCCA 1 cut(s) 64
MroXI GAANNNNTTC 1 cut(s) 13
MscI TGGCCA 1 cut(s) 64
MseI TTAA 3 cut(s) 477, 551, 1148
MslI CAYNNNNRTG 1 cut(s) 667
Msp20I TGGCCA 1 cut(s) 64
MspI CCGG 1 cut(s) 1374
MspR9I CCNGG 2 cut(s) 1374, 1375
MunI CAATTG 1 cut(s) 1461
Mva1269I GAATGC 1 cut(s) 913
MwoI GCNNNNNNNGC 3 cut(s) 451, 1376, 1391
NciI CCSGG 2 cut(s) 1374, 1375
NcoI CCATGG 1 cut(s) 867
NdeI CATATG 1 cut(s) 1282
NdeII GATC 1 cut(s) 612
NlaIII CATG 4 cut(s) 613, 871, 881, 1081
NlaIV GGNNCC 2 cut(s) 486, 951
NmeAIII GCCGAG 1 cut(s) 533
NmuCI GTSAC 2 cut(s) 413, 1211
NspI RCATGY 1 cut(s) 1081
PciI ACATGT 1 cut(s) 1077
PctI GAATGC 1 cut(s) 913
PdmI GAANNNNTTC 1 cut(s) 13
PfeI GAWTC 3 cut(s) 293, 320, 397
PkrI GCNGC 1 cut(s) 1344
PleI GAGTC 1 cut(s) 541
PpsI GAGTC 1 cut(s) 541
PscI ACATGT 1 cut(s) 1077
PsiI TTATAA 1 cut(s) 1074
Psp1406I AACGTT 1 cut(s) 1365
PspFI CCCAGC 2 cut(s) 743, 1111
PspN4I GGNNCC 2 cut(s) 486, 951
RseI CAYNNNNRTG 1 cut(s) 667
SaqAI TTAA 3 cut(s) 477, 551, 1148
SatI GCNGC 1 cut(s) 1343
Sau3AI GATC 1 cut(s) 612
SchI GAGTC 1 cut(s) 542
ScrFI CCNGG 2 cut(s) 1374, 1375
SduI GDGCHC 1 cut(s) 489
SfaNI GCATC 2 cut(s) 364, 793
SfcI CTRYAG 2 cut(s) 297, 391
SmaI CCCGGG 1 cut(s) 1375
SmiMI CAYNNNNRTG 1 cut(s) 667
Sse9I AATT 9 cut(s) 35, 305, 366, 436, 570, 929, 1060, 1182, 1461
SsiI CCGC 4 cut(s) 286, 425, 833, 911
SspMI CTAG 1 cut(s) 1416
StyD4I CCNGG 2 cut(s) 1372, 1373
StyI CCWWGG 1 cut(s) 867
TaiI ACGT 1 cut(s) 1368
TaqI TCGA 5 cut(s) 323, 364, 536, 924, 1470
TasI AATT 9 cut(s) 35, 305, 366, 436, 570, 929, 1060, 1182, 1461
TfiI GAWTC 3 cut(s) 293, 320, 397
Tru1I TTAA 3 cut(s) 477, 551, 1148
Tru9I TTAA 3 cut(s) 477, 551, 1148
TscAI CASTG 2 cut(s) 361, 562
TseFI GTSAC 2 cut(s) 413, 1211
TseI GCWGC 1 cut(s) 1342
Tsp45I GTSAC 2 cut(s) 413, 1211
TspDTI ATGAA 7 cut(s) 31, 617, 737, 842, 857, 942, 1236
TspMI CCCGGG 1 cut(s) 1373
TspRI CASTG 2 cut(s) 361, 562
XapI RAATTY 3 cut(s) 35, 305, 1060
XceI RCATGY 1 cut(s) 1081
XmaI CCCGGG 1 cut(s) 1373
XmnI GAANNNNTTC 1 cut(s) 13
XspI CTAG 1 cut(s) 1416
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.