Rorug03G0173700

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0000519
Physical Location & Seq
Forward (+)
14679460 .. 14680244
785 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0173700.1

Sequence Viewer

Length: 573 bp
ATGGAGCTACAAACCCAGCAACAAATCGAGGATGGAGGAAACAACCAAGCAGCCGGGAGTAGTGCCAACACAGATTTCTGGCGAAGCCGTGCCAGGTGGGTTCCTACTCCAGATCAAATAAGGATCCTCAAGGATCTTTACTACGACAAGGGAGTTAAGCGCCCAACTACAGAGCATATTCACGAGATCTGTCTCCAGCTGAACCAGTATGGACATGTTGAGGGCAAGAACATTTATTTTTGGTTCCAGAATGTCAGGGCTCGAGAGAAGCAGATGAAGAGGTGCAATCAGGCTGCTCAAGTGCCCATGGGAACTAGTTCTCCTGGTACTGGTGGATCCATTGATCTCAATTTTGGGTCCACTGGTTCTACTGGTGCTGGAGGACAAACATCCCTGCAACAACGAGGAGGAGATCACCAGGAGATTGAAACCCTTCCATTGTTCCCCATGCATGGTGAGGACATCTTGGGCATCATGAAGACTACTTCCGAGGGAGGTAGCGGTTATGGCGGTGGCTCTCACATTTCCCTTGAGCTCAGCCTCAACTCCTACAGAGATGCAGACATGGCTTAG
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
RVT_3

Protein Analysis

190

Amino Acids

20.86

Weight (kDa)

5.84

Isoelectric Point (pI)

55.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Homeodomain PF00046 30 - 91 7.2e-10 Homeodomain
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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Orthologous Genes (Group: OG0000519)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g27751 FvH4_2g10620 FvH4_4g13701 FvH4_4g17370 FvH4_6g49051
pyrus_communis pycom11g18020
rosa_chinensis RchiOBHm_Chr1g0331041 RchiOBHm_Chr2g0088901 RchiOBHm_Chr2g0100641 RchiOBHm_Chr6g0281891
rosa_laevigata RLG00000011791 RLG00000028155 RLG00000035981
rosa_multiflora Rmu_co8368635.1_g000001 Rmu_co8370105.1_g000001 Rmu_sc0000850.1_g000010 Rmu_sc0001374.1_g000060 Rmu_sc0001654.1_g000024 Rmu_sc0001840.1_g000023 Rmu_sc0001900.1_g000032 Rmu_sc0002687.1_g000008 Rmu_sc0003133.1_g000026 Rmu_sc0003252.1_g000002 Rmu_sc0004206.1_g000011 Rmu_sc0004666.1_g000002 Rmu_sc0006255.1_g000004 Rmu_sc0006812.1_g000001 Rmu_sc0007025.1_g000012 Rmu_sc0007767.1_g000020 Rmu_sc0007833.1_g000004 Rmu_sc0007848.1_g000020 Rmu_sc0007883.1_g000010 Rmu_sc0008270.1_g000003 Rmu_sc0012097.1_g000011 Rmu_sc0014445.1_g000002 Rmu_sc0023292.1_g000001
rosa_roxburghii Rroxscaffold_1G00021670 Rroxscaffold_1G00027660 Rroxscaffold_1G00056090 Rroxscaffold_2G00111250 Rroxscaffold_2G00111320 Rroxscaffold_3G00248390 Rroxscaffold_6G00394880 Rroxscaffold_7G00192450
rosa_rugosa Rorug01G0071500 Rorug01G0183900 Rorug01G0242400 Rorug02G0045300 Rorug02G0051000 Rorug02G0061700 Rorug02G0091500 Rorug02G0091600 Rorug02G0091700 Rorug02G0091800 Rorug02G0284700 Rorug02G0335100 Rorug02G0336900 Rorug02G0405500.1 Rorug02G0498300 Rorug03G0173700 Rorug03G0228900 Rorug03G0256300 Rorug04G0014300 Rorug04G0130400 Rorug04G0138100 Rorug04G0138100 Rorug04G0150400.1 Rorug05G0000600 Rorug05G0160400 Rorug05G0165600 Rorug05G0378500 Rorug06G0072000 Rorug06G0107900 Rorug06G0268700 Rorug07G0015500 Rorug07G0266300 Rorug07G0274500
rosa_samantha Rh2AG439400 Rh2AG561100 Rh2DG459400 Rh3AG236100 Rh4BG212500 Rh6AG046300 Rh6BG073000 Rh7DG249100
rosa_wichuraiana Rw2G010910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 501, 510
AclWI GGATC 5 cut(s) 118, 131, 141, 330, 343
AfaI GTAC 1 cut(s) 328
AfiI CCNNNNNNNGG 2 cut(s) 329, 452
AflIII ACRYGT 1 cut(s) 214
AgsI TTSAA 1 cut(s) 428
AhlI ACTAGT 1 cut(s) 314
AjnI CCWGG 3 cut(s) 92, 322, 417
AjuI GAANNNNNNNTTGG 2 cut(s) 59, 91
AloI GAACNNNNNNTCC 2 cut(s) 304, 336
AluBI AGCT 3 cut(s) 7, 199, 535
AluI AGCT 3 cut(s) 7, 199, 535
Alw21I GWGCWC 1 cut(s) 537
Alw26I GTCTC 1 cut(s) 197
AlwI GGATC 5 cut(s) 118, 131, 141, 330, 343
Ama87I CYCGRG 1 cut(s) 261
ApeKI GCWGC 2 cut(s) 50, 293
Asp700I GAANNNNTTC 2 cut(s) 316, 432
AspLEI GCGC 1 cut(s) 162
AspS9I GGNCC 1 cut(s) 357
AsuC2I CCSGG 1 cut(s) 55
AsuHPI GGTGA 2 cut(s) 407, 467
AvaI CYCGRG 1 cut(s) 261
AvaII GGWCC 1 cut(s) 357
BaeGI GKGCMC 1 cut(s) 306
BamHI GGATCC 2 cut(s) 123, 335
BanII GRGCYC 2 cut(s) 262, 537
BauI CACGAG 1 cut(s) 182
BbsI GAAGAC 1 cut(s) 485
Bbv12I GWGCWC 1 cut(s) 537
BbvI GCAGC 2 cut(s) 62, 280
BccI CCATC 1 cut(s) 26
BceAI ACGGC 1 cut(s) 72
BciT130I CCWGG 3 cut(s) 94, 324, 419
BcnI CCSGG 1 cut(s) 55
BcoDI GTCTC 1 cut(s) 197
BcuI ACTAGT 1 cut(s) 314
BfaI CTAG 1 cut(s) 315
BfmI CTRYAG 2 cut(s) 168, 550
BfoI RGCGCY 1 cut(s) 163
BglII AGATCT 1 cut(s) 186
BisI GCNGC 2 cut(s) 51, 294
BlpI GCTNAGC 1 cut(s) 536
BlsI GCNGC 2 cut(s) 52, 295
Bme1390I CCNGG 4 cut(s) 55, 94, 324, 419
Bme18I GGWCC 1 cut(s) 357
BmeT110I CYCGRG 1 cut(s) 261
BmgT120I GGNCC 1 cut(s) 357
BmiI GGNNCC 5 cut(s) 102, 125, 245, 337, 358
BmrFI CCNGG 4 cut(s) 55, 94, 324, 419
BmsI GCATC 2 cut(s) 480, 547
BpiI GAAGAC 1 cut(s) 485
BpmI CTGGAG 3 cut(s) 93, 179, 399
Bpu1102I GCTNAGC 1 cut(s) 536
BpuEI CTTGAG 3 cut(s) 113, 282, 551
BpuMI CCSGG 1 cut(s) 55
BsaJI CCNNGG 2 cut(s) 306, 489
BsaXI ACNNNNNCTCC 2 cut(s) 304, 334
Bsc4I CCNNNNNNNGG 2 cut(s) 329, 452
Bse1I ACTGG 4 cut(s) 205, 334, 367, 376
BseBI CCWGG 3 cut(s) 94, 324, 419
BseDI CCNNGG 2 cut(s) 306, 489
BseGI GGATG 2 cut(s) 37, 389
BseLI CCNNNNNNNGG 2 cut(s) 329, 452
BseMII CTCAG 1 cut(s) 550
BseNI ACTGG 4 cut(s) 205, 334, 367, 376
BseRI GAGGAG 2 cut(s) 420, 423
BseSI GKGCMC 1 cut(s) 306
BseXI GCAGC 2 cut(s) 62, 280
BseYI CCCAGC 1 cut(s) 15
BsiHKAI GWGCWC 1 cut(s) 537
BsiHKCI CYCGRG 1 cut(s) 261
BsiSI CCGG 1 cut(s) 54
BslI CCNNNNNNNGG 2 cut(s) 329, 452
BsmAI GTCTC 1 cut(s) 197
BsoBI CYCGRG 1 cut(s) 261
Bsp1286I GDGCHC 3 cut(s) 262, 306, 537
Bsp143I GATC 7 cut(s) 112, 123, 133, 186, 335, 343, 412
Bsp1720I GCTNAGC 1 cut(s) 536
Bsp19I CCATGG 1 cut(s) 306
BspACI CCGC 2 cut(s) 501, 510
BspCNI CTCAG 1 cut(s) 549
BspHI TCATGA 1 cut(s) 474
BspLI GGNNCC 5 cut(s) 102, 125, 245, 337, 358
BspPI GGATC 5 cut(s) 118, 131, 141, 330, 343
BsrI ACTGG 4 cut(s) 205, 334, 367, 376
BssECI CCNNGG 2 cut(s) 306, 489
BssMI GATC 7 cut(s) 112, 123, 133, 186, 335, 343, 412
BssSI CACGAG 1 cut(s) 182
BssT1I CCWWGG 1 cut(s) 306
Bst2BI CACGAG 1 cut(s) 182
Bst2UI CCWGG 3 cut(s) 94, 324, 419
Bst6I CTCTTC 1 cut(s) 272
BstDEI CTNAG 2 cut(s) 536, 570
BstDSI CCRYGG 1 cut(s) 306
BstF5I GGATG 2 cut(s) 37, 389
BstH2I RGCGCY 1 cut(s) 163
BstHHI GCGC 1 cut(s) 162
BstKTI GATC 7 cut(s) 115, 126, 136, 189, 338, 346, 415
BstMAI GTCTC 1 cut(s) 197
BstMBI GATC 7 cut(s) 112, 123, 133, 186, 335, 343, 412
BstMWI GCNNNNNNNGC 2 cut(s) 507, 566
BstNI CCWGG 3 cut(s) 94, 324, 419
BstNSI RCATGY 1 cut(s) 218
BstSCI CCNGG 4 cut(s) 53, 92, 322, 417
BstSFI CTRYAG 2 cut(s) 168, 550
BstSLI GKGCMC 1 cut(s) 306
BstV1I GCAGC 2 cut(s) 62, 280
BstV2I GAAGAC 1 cut(s) 485
BstX2I RGATCY 4 cut(s) 123, 133, 186, 335
BstYI RGATCY 4 cut(s) 123, 133, 186, 335
BtgI CCRYGG 1 cut(s) 306
BtsCI GGATG 2 cut(s) 37, 389
BtsIMutI CAGTG 1 cut(s) 360
CciI TCATGA 1 cut(s) 474
CfoI GCGC 1 cut(s) 162
Cfr13I GGNCC 1 cut(s) 357
Csp6I GTAC 1 cut(s) 327
CviAII CATG 6 cut(s) 215, 307, 448, 452, 475, 565
CviQI GTAC 1 cut(s) 327
DdeI CTNAG 2 cut(s) 536, 570
DpnI GATC 7 cut(s) 114, 125, 135, 188, 337, 345, 414
DpnII GATC 7 cut(s) 112, 123, 133, 186, 335, 343, 412
Eam1104I CTCTTC 1 cut(s) 272
EarI CTCTTC 1 cut(s) 272
Ecl136II GAGCTC 1 cut(s) 535
Eco130I CCWWGG 1 cut(s) 306
Eco24I GRGCYC 2 cut(s) 262, 537
Eco47I GGWCC 1 cut(s) 357
Eco53kI GAGCTC 1 cut(s) 535
Eco88I CYCGRG 1 cut(s) 261
EcoICRI GAGCTC 1 cut(s) 535
EcoRII CCWGG 3 cut(s) 92, 322, 417
EcoT14I CCWWGG 1 cut(s) 306
EcoT22I ATGCAT 1 cut(s) 453
EcoT38I GRGCYC 2 cut(s) 262, 537
ErhI CCWWGG 1 cut(s) 306
FaeI CATG 6 cut(s) 218, 310, 451, 455, 478, 568
FaiI YATR 9 cut(s) 177, 210, 216, 308, 449, 453, 476, 507, 566
FatI CATG 6 cut(s) 214, 306, 447, 451, 474, 564
Fnu4HI GCNGC 2 cut(s) 51, 294
FokI GGATG 2 cut(s) 44, 376
FriOI GRGCYC 2 cut(s) 262, 537
Fsp4HI GCNGC 2 cut(s) 51, 294
FspBI CTAG 1 cut(s) 315
GlaI GCGC 1 cut(s) 161
GluI GCNGC 2 cut(s) 51, 294
GsaI CCCAGC 1 cut(s) 19
GsuI CTGGAG 3 cut(s) 93, 179, 399
HaeII RGCGCY 1 cut(s) 163
HapII CCGG 1 cut(s) 54
HhaI GCGC 1 cut(s) 162
Hin1II CATG 6 cut(s) 218, 310, 451, 455, 478, 568
Hin6I GCGC 1 cut(s) 160
HinP1I GCGC 1 cut(s) 160
HpaII CCGG 1 cut(s) 54
HphI GGTGA 2 cut(s) 407, 467
Hpy166II GTNNAC 1 cut(s) 360
Hpy188I TCNGA 1 cut(s) 490
Hpy188III TCNNGA 5 cut(s) 110, 182, 247, 263, 475
Hpy8I GTNNAC 1 cut(s) 360
HpyAV CCTTC 1 cut(s) 443
HpyCH4V TGCA 4 cut(s) 285, 397, 451, 560
HpyF10VI GCNNNNNNNGC 2 cut(s) 507, 566
HpyF3I CTNAG 2 cut(s) 536, 570
Hsp92II CATG 6 cut(s) 218, 310, 451, 455, 478, 568
HspAI GCGC 1 cut(s) 160
Kzo9I GATC 7 cut(s) 112, 123, 133, 186, 335, 343, 412
LmnI GCTCC 1 cut(s) 4
Lsp1109I GCAGC 2 cut(s) 62, 280
LweI GCATC 2 cut(s) 480, 547
MaeI CTAG 1 cut(s) 315
MalI GATC 7 cut(s) 114, 125, 135, 188, 337, 345, 414
MboI GATC 7 cut(s) 112, 123, 133, 186, 335, 343, 412
MboII GAAGA 2 cut(s) 289, 490
MflI RGATCY 4 cut(s) 123, 133, 186, 335
MhlI GDGCHC 3 cut(s) 262, 306, 537
MluCI AATT 1 cut(s) 349
Mph1103I ATGCAT 1 cut(s) 453
MroXI GAANNNNTTC 2 cut(s) 316, 432
MseI TTAA 1 cut(s) 156
MspA1I CMGCKG 1 cut(s) 199
MspI CCGG 1 cut(s) 54
MspR9I CCNGG 4 cut(s) 55, 94, 324, 419
MvaI CCWGG 3 cut(s) 94, 324, 419
MwoI GCNNNNNNNGC 2 cut(s) 507, 566
NciI CCSGG 1 cut(s) 55
NcoI CCATGG 1 cut(s) 306
NdeII GATC 7 cut(s) 112, 123, 133, 186, 335, 343, 412
NlaIII CATG 6 cut(s) 218, 310, 451, 455, 478, 568
NlaIV GGNNCC 5 cut(s) 102, 125, 245, 337, 358
NsiI ATGCAT 1 cut(s) 453
NspI RCATGY 1 cut(s) 218
PaeR7I CTCGAG 1 cut(s) 261
PagI TCATGA 1 cut(s) 474
PciI ACATGT 1 cut(s) 214
PdmI GAANNNNTTC 2 cut(s) 316, 432
PkrI GCNGC 2 cut(s) 52, 295
PscI ACATGT 1 cut(s) 214
Psp124BI GAGCTC 1 cut(s) 537
Psp6I CCWGG 3 cut(s) 92, 322, 417
PspFI CCCAGC 1 cut(s) 15
PspGI CCWGG 3 cut(s) 92, 322, 417
PspN4I GGNNCC 5 cut(s) 102, 125, 245, 337, 358
PspPI GGNCC 1 cut(s) 357
PsuI RGATCY 4 cut(s) 123, 133, 186, 335
PvuII CAGCTG 1 cut(s) 199
RsaI GTAC 1 cut(s) 328
RsaNI GTAC 1 cut(s) 327
SacI GAGCTC 1 cut(s) 537
SaqAI TTAA 1 cut(s) 156
SatI GCNGC 2 cut(s) 51, 294
Sau3AI GATC 7 cut(s) 112, 123, 133, 186, 335, 343, 412
Sau96I GGNCC 1 cut(s) 357
ScrFI CCNGG 4 cut(s) 55, 94, 324, 419
SduI GDGCHC 3 cut(s) 262, 306, 537
SetI ASST 6 cut(s) 9, 98, 201, 284, 499, 537
SfaNI GCATC 2 cut(s) 480, 547
SfcI CTRYAG 2 cut(s) 168, 550
Sfr274I CTCGAG 1 cut(s) 261
SinI GGWCC 1 cut(s) 357
SlaI CTCGAG 1 cut(s) 261
SmlI CTYRAG 4 cut(s) 128, 261, 297, 530
SmoI CTYRAG 4 cut(s) 128, 261, 297, 530
SpeI ACTAGT 1 cut(s) 314
Sse9I AATT 1 cut(s) 349
SsiI CCGC 2 cut(s) 501, 510
SspMI CTAG 1 cut(s) 315
SstI GAGCTC 1 cut(s) 537
StyD4I CCNGG 4 cut(s) 53, 92, 322, 417
StyI CCWWGG 1 cut(s) 306
TaqI TCGA 2 cut(s) 27, 262
TasI AATT 1 cut(s) 349
Tru1I TTAA 1 cut(s) 156
Tru9I TTAA 1 cut(s) 156
TscAI CASTG 1 cut(s) 367
TseI GCWGC 2 cut(s) 50, 293
TspDTI ATGAA 2 cut(s) 290, 491
TspRI CASTG 1 cut(s) 367
VpaK11BI GGWCC 1 cut(s) 357
XceI RCATGY 1 cut(s) 218
XhoI CTCGAG 1 cut(s) 261
XmnI GAANNNNTTC 2 cut(s) 316, 432
XspI CTAG 1 cut(s) 315
Zsp2I ATGCAT 1 cut(s) 453
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.