Rroxscaffold_2G00111320

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0000519
Physical Location & Seq
Forward (+)
35895461 .. 35896293
833 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00111320.1

Sequence Viewer

Length: 516 bp
ATGGTCGTTTATAGGGGCTTTGGTACAATGGTACTTACGGTGCAACATGTTCGCTCAGCAAAGCAAGCAGAACTACTTGCTATCAGAAAGGGTTTGGACTTGGCTAAAGATCTGGAACTGCATAAGGTCACTATTGAAAGTGACTGTCTTGAAGATGTGCAGCTGATTCTTAGTAAACACCATGGGCTGGATGAGCATGGAGCTTTGATTGATGATATCCTCCTGTTAATGAGTGGTATACCAGGGGTGTGTGATCAACATGCACCAAGGACTTGTAACAAAGTAGAACATAGACATGCTGCTCTAGCTTTCGAAGCTAATCAATATGATGAGGCCGCTACGGTTAAGTTTATGCCTGTCCGACGCACGCCCTCGCGGAGCGTCGTCGGATGGGCCAAAAGGGACCTCGTGCCCGGTGATTTGCCTAGTCGAAGGAAAGGCTGCGTGGGAGATGTGTCGCCCACCATAGCGCTTGGAGGCTTTGTCGAGGAGAGGAACTGGTGGATGGTGGTGTGA
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

171

Amino Acids

18.99

Weight (kDa)

6.7

Isoelectric Point (pI)

49.28

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 13 - 100 3.3e-13 Reverse transcriptase-like
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)
AccB7I CCANNNNNTGG 1 cut(s) 187
AccI GTMKAC 1 cut(s) 238
AccII CGCG 1 cut(s) 376
AciI CCGC 2 cut(s) 336, 376
AfaI GTAC 2 cut(s) 25, 33
AfeI AGCGCT 1 cut(s) 471
AfiI CCNNNNNNNGG 1 cut(s) 187
AflIII ACRYGT 1 cut(s) 46
AgsI TTSAA 2 cut(s) 137, 152
AjnI CCWGG 1 cut(s) 241
AluBI AGCT 4 cut(s) 163, 203, 308, 317
AluI AGCT 4 cut(s) 163, 203, 308, 317
Aor51HI AGCGCT 1 cut(s) 471
AoxI GGCC 2 cut(s) 333, 393
ApeKI GCWGC 3 cut(s) 160, 299, 441
AspLEI GCGC 1 cut(s) 472
AspS9I GGNCC 2 cut(s) 393, 403
AsuC2I CCSGG 1 cut(s) 414
AsuHPI GGTGA 1 cut(s) 428
AsuII TTCGAA 1 cut(s) 312
AvaII GGWCC 1 cut(s) 403
BaeGI GKGCMC 1 cut(s) 414
BaeI ACNNNNGTAYC 2 cut(s) 15, 48
BauI CACGAG 1 cut(s) 407
BbvI GCAGC 3 cut(s) 172, 286, 428
BccI CCATC 2 cut(s) 384, 499
BcgI CGANNNNNNTGC 2 cut(s) 32, 66
BciT130I CCWGG 1 cut(s) 243
BclI TGATCA 1 cut(s) 253
BcnI CCSGG 1 cut(s) 414
BfaI CTAG 2 cut(s) 305, 426
BfoI RGCGCY 1 cut(s) 473
BglII AGATCT 1 cut(s) 109
BisI GCNGC 4 cut(s) 161, 300, 336, 442
BlpI GCTNAGC 1 cut(s) 55
BlsI GCNGC 4 cut(s) 162, 301, 337, 443
Bme1390I CCNGG 2 cut(s) 243, 414
Bme18I GGWCC 1 cut(s) 403
BmgT120I GGNCC 2 cut(s) 393, 403
BmiI GGNNCC 1 cut(s) 404
BmrFI CCNGG 2 cut(s) 243, 414
Bpu1102I GCTNAGC 1 cut(s) 55
Bpu14I TTCGAA 1 cut(s) 312
BpuMI CCSGG 1 cut(s) 414
BsaJI CCNNGG 3 cut(s) 181, 242, 266
BsaXI ACNNNNNCTCC 2 cut(s) 468, 498
Bsc4I CCNNNNNNNGG 1 cut(s) 187
Bse1I ACTGG 1 cut(s) 503
BseBI CCWGG 1 cut(s) 243
BseDI CCNNGG 3 cut(s) 181, 242, 266
BseGI GGATG 3 cut(s) 196, 395, 510
BseLI CCNNNNNNNGG 1 cut(s) 187
BseMII CTCAG 1 cut(s) 69
BseNI ACTGG 1 cut(s) 503
BseRI GAGGAG 1 cut(s) 503
BseSI GKGCMC 1 cut(s) 414
BseXI GCAGC 3 cut(s) 172, 286, 428
BsgI GTGCAG 1 cut(s) 179
Bsh1236I CGCG 1 cut(s) 376
BshFI GGCC 2 cut(s) 335, 395
BsiSI CCGG 1 cut(s) 414
BslFI GGGAC 1 cut(s) 416
BslI CCNNNNNNNGG 1 cut(s) 187
BsmFI GGGAC 1 cut(s) 416
BsnI GGCC 2 cut(s) 335, 395
Bsp119I TTCGAA 1 cut(s) 312
Bsp1286I GDGCHC 1 cut(s) 414
Bsp143I GATC 2 cut(s) 109, 253
Bsp1720I GCTNAGC 1 cut(s) 55
Bsp19I CCATGG 1 cut(s) 181
BspACI CCGC 2 cut(s) 336, 376
BspANI GGCC 2 cut(s) 335, 395
BspCNI CTCAG 1 cut(s) 68
BspFNI CGCG 1 cut(s) 376
BspLI GGNNCC 1 cut(s) 404
BspT104I TTCGAA 1 cut(s) 312
BsrI ACTGG 1 cut(s) 503
BssECI CCNNGG 3 cut(s) 181, 242, 266
BssMI GATC 2 cut(s) 109, 253
BssNAI GTATAC 1 cut(s) 239
BssSI CACGAG 1 cut(s) 407
BssT1I CCWWGG 2 cut(s) 181, 266
Bst1107I GTATAC 1 cut(s) 239
Bst2BI CACGAG 1 cut(s) 407
Bst2UI CCWGG 1 cut(s) 243
Bst4CI ACNGT 3 cut(s) 40, 146, 343
BstBI TTCGAA 1 cut(s) 312
BstC8I GCNNGC 2 cut(s) 66, 368
BstDEI CTNAG 2 cut(s) 55, 170
BstDSI CCRYGG 1 cut(s) 181
BstF5I GGATG 3 cut(s) 196, 395, 510
BstFNI CGCG 1 cut(s) 376
BstH2I RGCGCY 1 cut(s) 473
BstHHI GCGC 1 cut(s) 472
BstKTI GATC 2 cut(s) 112, 256
BstMBI GATC 2 cut(s) 109, 253
BstMWI GCNNNNNNNGC 4 cut(s) 65, 193, 305, 314
BstNI CCWGG 1 cut(s) 243
BstNSI RCATGY 3 cut(s) 50, 263, 299
BstSCI CCNGG 2 cut(s) 241, 412
BstSLI GKGCMC 1 cut(s) 414
BstUI CGCG 1 cut(s) 376
BstV1I GCAGC 3 cut(s) 172, 286, 428
BstX2I RGATCY 1 cut(s) 109
BstYI RGATCY 1 cut(s) 109
BstZ17I GTATAC 1 cut(s) 239
BsuRI GGCC 2 cut(s) 335, 395
BtgI CCRYGG 1 cut(s) 181
BtsCI GGATG 3 cut(s) 196, 395, 510
Cac8I GCNNGC 2 cut(s) 66, 368
CfoI GCGC 1 cut(s) 472
Cfr13I GGNCC 2 cut(s) 393, 403
CseI GACGC 2 cut(s) 370, 372
Csp6I GTAC 2 cut(s) 24, 32
CviAII CATG 5 cut(s) 47, 182, 197, 260, 296
CviQI GTAC 2 cut(s) 24, 32
DdeI CTNAG 2 cut(s) 55, 170
DpnI GATC 2 cut(s) 111, 255
DpnII GATC 2 cut(s) 109, 253
Eco130I CCWWGG 2 cut(s) 181, 266
Eco32I GATATC 1 cut(s) 217
Eco47I GGWCC 1 cut(s) 403
Eco47III AGCGCT 1 cut(s) 471
EcoO109I RGGNCCY 1 cut(s) 403
EcoRII CCWGG 1 cut(s) 241
EcoRV GATATC 1 cut(s) 217
EcoT14I CCWWGG 2 cut(s) 181, 266
ErhI CCWWGG 2 cut(s) 181, 266
FaeI CATG 5 cut(s) 50, 185, 200, 263, 299
FaqI GGGAC 1 cut(s) 416
FatI CATG 5 cut(s) 46, 181, 196, 259, 295
FbaI TGATCA 1 cut(s) 253
FblI GTMKAC 1 cut(s) 238
Fnu4HI GCNGC 4 cut(s) 161, 300, 336, 442
FokI GGATG 2 cut(s) 203, 402
Fsp4HI GCNGC 4 cut(s) 161, 300, 336, 442
FspBI CTAG 2 cut(s) 305, 426
GlaI GCGC 1 cut(s) 471
GluI GCNGC 4 cut(s) 161, 300, 336, 442
HaeII RGCGCY 1 cut(s) 473
HaeIII GGCC 2 cut(s) 335, 395
HapII CCGG 1 cut(s) 414
HgaI GACGC 2 cut(s) 370, 372
HhaI GCGC 1 cut(s) 472
Hin1II CATG 5 cut(s) 50, 185, 200, 263, 299
Hin6I GCGC 1 cut(s) 470
HinP1I GCGC 1 cut(s) 470
HinfI GANTC 1 cut(s) 166
HpaII CCGG 1 cut(s) 414
HphI GGTGA 1 cut(s) 428
Hpy166II GTNNAC 2 cut(s) 176, 239
Hpy188I TCNGA 3 cut(s) 86, 362, 389
Hpy188III TCNNGA 2 cut(s) 113, 149
Hpy8I GTNNAC 2 cut(s) 176, 239
Hpy99I CGWCG 3 cut(s) 366, 386, 389
HpyAV CCTTC 1 cut(s) 426
HpyCH4III ACNGT 3 cut(s) 40, 146, 343
HpyCH4V TGCA 4 cut(s) 43, 121, 160, 263
HpyF10VI GCNNNNNNNGC 4 cut(s) 65, 193, 305, 314
HpyF3I CTNAG 2 cut(s) 55, 170
Hsp92II CATG 5 cut(s) 50, 185, 200, 263, 299
HspAI GCGC 1 cut(s) 470
Ksp22I TGATCA 1 cut(s) 253
Kzo9I GATC 2 cut(s) 109, 253
LmnI GCTCC 2 cut(s) 200, 378
LpnPI CCDG 8 cut(s) 98, 173, 228, 236, 255, 369, 427, 484
Lsp1109I GCAGC 3 cut(s) 172, 286, 428
MaeI CTAG 2 cut(s) 305, 426
MaeIII GTNAC 3 cut(s) 127, 140, 275
MalI GATC 2 cut(s) 111, 255
MboI GATC 2 cut(s) 109, 253
MboII GAAGA 1 cut(s) 164
MflI RGATCY 1 cut(s) 109
MhlI GDGCHC 1 cut(s) 414
MmeI TCCRAC 2 cut(s) 367, 385
MnlI CCTC 7 cut(s) 230, 325, 382, 416, 470, 481, 486
MseI TTAA 2 cut(s) 227, 345
MslI CAYNNNNRTG 1 cut(s) 294
MspA1I CMGCKG 1 cut(s) 163
MspI CCGG 1 cut(s) 414
MspR9I CCNGG 2 cut(s) 243, 414
MvaI CCWGG 1 cut(s) 243
MvnI CGCG 1 cut(s) 376
MwoI GCNNNNNNNGC 4 cut(s) 65, 193, 305, 314
NciI CCSGG 1 cut(s) 414
NcoI CCATGG 1 cut(s) 181
NdeII GATC 2 cut(s) 109, 253
NlaIII CATG 5 cut(s) 50, 185, 200, 263, 299
NlaIV GGNNCC 1 cut(s) 404
NmuCI GTSAC 2 cut(s) 127, 140
NspI RCATGY 3 cut(s) 50, 263, 299
NspV TTCGAA 1 cut(s) 312
PciI ACATGT 1 cut(s) 46
PfeI GAWTC 1 cut(s) 166
PflMI CCANNNNNTGG 1 cut(s) 187
PkrI GCNGC 4 cut(s) 162, 301, 337, 443
PpuMI RGGWCCY 1 cut(s) 403
PscI ACATGT 1 cut(s) 46
Psp5II RGGWCCY 1 cut(s) 403
Psp6I CCWGG 1 cut(s) 241
PspGI CCWGG 1 cut(s) 241
PspN4I GGNNCC 1 cut(s) 404
PspPI GGNCC 2 cut(s) 393, 403
PspPPI RGGWCCY 1 cut(s) 403
PsuI RGATCY 1 cut(s) 109
PvuII CAGCTG 1 cut(s) 163
RsaI GTAC 2 cut(s) 25, 33
RsaNI GTAC 2 cut(s) 24, 32
RseI CAYNNNNRTG 1 cut(s) 294
SaqAI TTAA 2 cut(s) 227, 345
SatI GCNGC 4 cut(s) 161, 300, 336, 442
Sau3AI GATC 2 cut(s) 109, 253
Sau96I GGNCC 2 cut(s) 393, 403
ScrFI CCNGG 2 cut(s) 243, 414
SduI GDGCHC 1 cut(s) 414
SetI ASST 6 cut(s) 129, 165, 205, 310, 319, 408
SfuI TTCGAA 1 cut(s) 312
SinI GGWCC 1 cut(s) 403
SmiMI CAYNNNNRTG 1 cut(s) 294
SsiI CCGC 2 cut(s) 336, 376
SspMI CTAG 2 cut(s) 305, 426
StyD4I CCNGG 2 cut(s) 241, 412
StyI CCWWGG 2 cut(s) 181, 266
TaaI ACNGT 3 cut(s) 40, 146, 343
TaqI TCGA 3 cut(s) 312, 430, 486
TauI GCSGC 1 cut(s) 338
TfiI GAWTC 1 cut(s) 166
Tru1I TTAA 2 cut(s) 227, 345
Tru9I TTAA 2 cut(s) 227, 345
TseFI GTSAC 2 cut(s) 127, 140
TseI GCWGC 3 cut(s) 160, 299, 441
Tsp45I GTSAC 2 cut(s) 127, 140
Van91I CCANNNNNTGG 1 cut(s) 187
VpaK11BI GGWCC 1 cut(s) 403
XceI RCATGY 3 cut(s) 50, 263, 299
XmiI GTMKAC 1 cut(s) 238
XspI CTAG 2 cut(s) 305, 426
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.