Rmu_ssc0000171.1_g000020

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_ssc0000171.1
OG0018936
Physical Location & Seq
Reverse (-)
59229 .. 62398
3170 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 885 bp
atgaatacagattttggttcattgccatccaaagacaagtataagaataaggtaccttcccaaatcctcaaagaagatgaattacatggtggacttgttactcctgggtttgatgaagggtcccttgcgcggactgatatcatcagagcatgcagaagtttggcgtgtaggaatgcaatgaactttgcaattgatcatggcttcattccagctttgttggagactgatgcacaagaggtgcaacgtcaactcgcttcccaggctagcctcaatactttagctttgggacgattatatgaggatatgaatttacttttggcatctcataataatttgaaagttagtgatgttagtagaaaggcaaatgtaattgcccatatgttagctacacatggtaccgcgtcctcttctctctccccacgacactctctcttcttccctctgcaaccaccggaaaacaccgaatcaccgacatgcaccgccggtagcttccacctcgacaacccatggctgcgacgccactgttcttcgagcctcgccggtttccggcgatttccttgcccttccgccaccatccttctactcaacaagcaaggcggagcaaaaccccgaagcccctctgcccaccgacgcctgacgacgccgttcgagcatcaccggagctctcggctccccatgtctttgttttccggtctccagtccgaaaagagccaaaccaccaccatacctggggtcagcacctcaaggtctagaaaaatagcccctaacctggaccttcgatttcgaccagagccacccagcaccgccgtgagagccaccgacttacctctttcgtctggtaagctcgatttcgtcaccttgtttagtattgaggcctttgtttaa
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

294

Amino Acids

32.24

Weight (kDa)

9.59

Isoelectric Point (pI)

64.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 54 - 131 4.4e-09 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: OG0018936)

Species Orthologous Gene IDs
pyrus_communis pycom15g13560
rosa_chinensis RchiOBHm_Chr7g0224901
rosa_multiflora Rmu_co8403257.1_g000002 Rmu_sc0000307.1_g000010 Rmu_ssc0000171.1_g000020
rosa_roxburghii Rroxscaffold_3G00234300 Rroxscaffold_6G00416220
rosa_rugosa Rorug05G0194100
rosa_wichuraiana Rw3G021850

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 2 cut(s) 52, 395
AccB1I GGYRCC 2 cut(s) 52, 395
AccII CGCG 2 cut(s) 130, 401
AciI CCGC 6 cut(s) 130, 399, 480, 567, 597, 804
AcsI RAATTY 1 cut(s) 307
AcyI GRCGYC 3 cut(s) 517, 631, 641
AfaI GTAC 2 cut(s) 54, 397
AfiI CCNNNNNNNGG 4 cut(s) 129, 546, 729, 769
AgsI TTSAA 1 cut(s) 337
AjnI CCWGG 4 cut(s) 103, 258, 727, 768
AjuI GAANNNNNNNTTGG 2 cut(s) 299, 331
AleI CACNNNNGTG 1 cut(s) 806
AluBI AGCT 6 cut(s) 212, 281, 386, 489, 663, 844
AluI AGCT 6 cut(s) 212, 281, 386, 489, 663, 844
Alw21I GWGCWC 1 cut(s) 665
Alw26I GTCTC 2 cut(s) 215, 698
AoxI GGCC 1 cut(s) 873
ApeKI GCWGC 1 cut(s) 511
ApoI RAATTY 1 cut(s) 307
Asp718I GGTACC 2 cut(s) 52, 395
AspLEI GCGC 1 cut(s) 130
AspS9I GGNCC 2 cut(s) 120, 772
AsuHPI GGTGA 3 cut(s) 459, 647, 847
AsuNHI GCTAGC 1 cut(s) 263
AvaII GGWCC 2 cut(s) 120, 772
BanI GGYRCC 2 cut(s) 52, 395
BanII GRGCYC 1 cut(s) 665
BarI GAAGNNNNNNTAC 2 cut(s) 66, 98
Bbv12I GWGCWC 1 cut(s) 665
BbvI GCAGC 1 cut(s) 498
BccI CCATC 2 cut(s) 34, 581
BceAI ACGGC 2 cut(s) 628, 791
BcgI CGANNNNNNTGC 2 cut(s) 540, 574
BciT130I CCWGG 4 cut(s) 105, 260, 729, 770
BclI TGATCA 1 cut(s) 193
BcoDI GTCTC 2 cut(s) 215, 698
BfaI CTAG 2 cut(s) 264, 750
BisI GCNGC 1 cut(s) 512
BlsI GCNGC 1 cut(s) 513
Bme1390I CCNGG 4 cut(s) 105, 260, 729, 770
Bme18I GGWCC 2 cut(s) 120, 772
BmgT120I GGNCC 2 cut(s) 120, 772
BmiI GGNNCC 5 cut(s) 54, 121, 122, 397, 671
BmrFI CCNGG 4 cut(s) 105, 260, 729, 770
BmsI GCATC 3 cut(s) 217, 329, 661
BmtI GCTAGC 1 cut(s) 267
BpmI CTGGAG 1 cut(s) 680
BpuEI CTTGAG 1 cut(s) 727
BsaHI GRCGYC 3 cut(s) 517, 631, 641
BsaI GGTCTC 1 cut(s) 698
BsaJI CCNNGG 4 cut(s) 104, 258, 506, 728
BsaWI WCCGGW 3 cut(s) 451, 657, 689
Bsc4I CCNNNNNNNGG 4 cut(s) 129, 546, 729, 769
Bse118I RCCGGY 2 cut(s) 482, 539
Bse1I ACTGG 1 cut(s) 697
Bse3DI GCAATG 2 cut(s) 20, 183
BseBI CCWGG 4 cut(s) 105, 260, 729, 770
BseDI CCNNGG 4 cut(s) 104, 258, 506, 728
BseGI GGATG 2 cut(s) 26, 573
BseLI CCNNNNNNNGG 4 cut(s) 129, 546, 729, 769
BseMI GCAATG 2 cut(s) 20, 183
BseNI ACTGG 1 cut(s) 697
BseXI GCAGC 1 cut(s) 498
BseYI CCCAGC 1 cut(s) 797
Bsh1236I CGCG 2 cut(s) 130, 401
BshFI GGCC 1 cut(s) 875
BshNI GGYRCC 2 cut(s) 52, 395
BsiHKAI GWGCWC 1 cut(s) 665
BsiSI CCGG 6 cut(s) 452, 483, 540, 547, 658, 690
BslFI GGGAC 2 cut(s) 106, 300
BslI CCNNNNNNNGG 4 cut(s) 129, 546, 729, 769
BsmAI GTCTC 2 cut(s) 215, 698
BsmFI GGGAC 2 cut(s) 106, 300
BsmI GAATGC 1 cut(s) 178
BsnI GGCC 1 cut(s) 875
Bso31I GGTCTC 1 cut(s) 698
Bsp1286I GDGCHC 1 cut(s) 665
Bsp143I GATC 1 cut(s) 193
Bsp19I CCATGG 1 cut(s) 506
BspACI CCGC 6 cut(s) 130, 399, 480, 567, 597, 804
BspANI GGCC 1 cut(s) 875
BspFNI CGCG 2 cut(s) 130, 401
BspLI GGNNCC 5 cut(s) 54, 121, 122, 397, 671
BspOI GCTAGC 1 cut(s) 267
BspT107I GGYRCC 2 cut(s) 52, 395
BspTNI GGTCTC 1 cut(s) 698
BsrDI GCAATG 2 cut(s) 20, 183
BsrFI RCCGGY 2 cut(s) 482, 539
BsrI ACTGG 1 cut(s) 697
BssAI RCCGGY 2 cut(s) 482, 539
BssECI CCNNGG 4 cut(s) 104, 258, 506, 728
BssMI GATC 1 cut(s) 193
BssNI GRCGYC 3 cut(s) 517, 631, 641
BssT1I CCWWGG 1 cut(s) 506
Bst2UI CCWGG 4 cut(s) 105, 260, 729, 770
Bst4CI ACNGT 1 cut(s) 524
Bst6I CTCTTC 2 cut(s) 412, 437
BstACI GRCGYC 3 cut(s) 517, 631, 641
BstC8I GCNNGC 2 cut(s) 151, 265
BstDSI CCRYGG 1 cut(s) 506
BstF5I GGATG 2 cut(s) 26, 573
BstFNI CGCG 2 cut(s) 130, 401
BstHHI GCGC 1 cut(s) 130
BstKTI GATC 1 cut(s) 196
BstMAI GTCTC 2 cut(s) 215, 698
BstMBI GATC 1 cut(s) 193
BstMWI GCNNNNNNNGC 3 cut(s) 260, 649, 812
BstNI CCWGG 4 cut(s) 105, 260, 729, 770
BstNSI RCATGY 2 cut(s) 153, 477
BstSCI CCNGG 4 cut(s) 103, 258, 727, 768
BstUI CGCG 2 cut(s) 130, 401
BstV1I GCAGC 1 cut(s) 498
BsuRI GGCC 1 cut(s) 875
BtgI CCRYGG 1 cut(s) 506
BtsCI GGATG 2 cut(s) 26, 573
BtsIMutI CAGTG 1 cut(s) 520
Cac8I GCNNGC 2 cut(s) 151, 265
CfoI GCGC 1 cut(s) 130
Cfr10I RCCGGY 2 cut(s) 482, 539
Cfr13I GGNCC 2 cut(s) 120, 772
CseI GACGC 4 cut(s) 390, 525, 639, 649
Csp6I GTAC 2 cut(s) 53, 396
CviAII CATG 7 cut(s) 86, 150, 197, 392, 474, 507, 676
CviQI GTAC 2 cut(s) 53, 396
DpnI GATC 1 cut(s) 195
DpnII GATC 1 cut(s) 193
Eam1104I CTCTTC 2 cut(s) 412, 437
EarI CTCTTC 2 cut(s) 412, 437
EciI GGCGGA 2 cut(s) 556, 612
Ecl136II GAGCTC 1 cut(s) 663
Eco130I CCWWGG 1 cut(s) 506
Eco147I AGGCCT 1 cut(s) 875
Eco24I GRGCYC 1 cut(s) 665
Eco31I GGTCTC 1 cut(s) 698
Eco32I GATATC 1 cut(s) 139
Eco47I GGWCC 2 cut(s) 120, 772
Eco53kI GAGCTC 1 cut(s) 663
EcoICRI GAGCTC 1 cut(s) 663
EcoO109I RGGNCCY 1 cut(s) 120
EcoRII CCWGG 4 cut(s) 103, 258, 727, 768
EcoRV GATATC 1 cut(s) 139
EcoT14I CCWWGG 1 cut(s) 506
EcoT38I GRGCYC 1 cut(s) 665
ErhI CCWWGG 1 cut(s) 506
FaeI CATG 7 cut(s) 89, 153, 200, 395, 477, 510, 679
FalI AAGNNNNNCTT 2 cut(s) 108, 140
FaqI GGGAC 2 cut(s) 106, 300
FatI CATG 7 cut(s) 85, 149, 196, 391, 473, 506, 675
FauNDI CATATG 1 cut(s) 378
FbaI TGATCA 1 cut(s) 193
Fnu4HI GCNGC 1 cut(s) 512
FokI GGATG 2 cut(s) 13, 560
FriOI GRGCYC 1 cut(s) 665
Fsp4HI GCNGC 1 cut(s) 512
FspBI CTAG 2 cut(s) 264, 750
GlaI GCGC 1 cut(s) 129
GluI GCNGC 1 cut(s) 512
GsaI CCCAGC 1 cut(s) 801
GsuI CTGGAG 1 cut(s) 680
HaeIII GGCC 1 cut(s) 875
HapII CCGG 6 cut(s) 452, 483, 540, 547, 658, 690
HgaI GACGC 4 cut(s) 390, 525, 639, 649
HhaI GCGC 1 cut(s) 130
Hin1I GRCGYC 3 cut(s) 517, 631, 641
Hin1II CATG 7 cut(s) 89, 153, 200, 395, 477, 510, 679
Hin6I GCGC 1 cut(s) 128
HinP1I GCGC 1 cut(s) 128
HincII GTYRAC 1 cut(s) 248
HindII GTYRAC 1 cut(s) 248
HinfI GANTC 1 cut(s) 464
HpaII CCGG 6 cut(s) 452, 483, 540, 547, 658, 690
HphI GGTGA 3 cut(s) 459, 647, 847
Hpy166II GTNNAC 2 cut(s) 92, 248
Hpy188I TCNGA 2 cut(s) 146, 703
Hpy188III TCNNGA 1 cut(s) 750
Hpy8I GTNNAC 2 cut(s) 92, 248
Hpy99I CGWCG 3 cut(s) 519, 633, 643
HpyAV CCTTC 5 cut(s) 66, 110, 573, 587, 785
HpyCH4III ACNGT 1 cut(s) 524
HpyCH4IV ACGT 1 cut(s) 244
HpyCH4V TGCA 7 cut(s) 153, 176, 188, 230, 241, 445, 477
HpyF10VI GCNNNNNNNGC 3 cut(s) 260, 649, 812
HpySE526I ACGT 1 cut(s) 244
Hsp92I GRCGYC 3 cut(s) 517, 631, 641
Hsp92II CATG 7 cut(s) 89, 153, 200, 395, 477, 510, 679
HspAI GCGC 1 cut(s) 128
KflI GGGWCCC 1 cut(s) 120
KpnI GGTACC 2 cut(s) 56, 399
Ksp22I TGATCA 1 cut(s) 193
Kzo9I GATC 1 cut(s) 193
LmnI GCTCC 3 cut(s) 599, 660, 675
Lsp1109I GCAGC 1 cut(s) 498
LweI GCATC 3 cut(s) 217, 329, 661
MaeI CTAG 2 cut(s) 264, 750
MaeII ACGT 1 cut(s) 244
MaeIII GTNAC 2 cut(s) 97, 853
MalI GATC 1 cut(s) 195
MboI GATC 1 cut(s) 193
MboII GAAGA 5 cut(s) 86, 399, 424, 427, 519
MfeI CAATTG 1 cut(s) 189
MhlI GDGCHC 1 cut(s) 665
MluCI AATT 5 cut(s) 80, 189, 307, 331, 369
MmeI TCCRAC 1 cut(s) 198
MseI TTAA 1 cut(s) 883
MslI CAYNNNNRTG 2 cut(s) 472, 806
MspI CCGG 6 cut(s) 452, 483, 540, 547, 658, 690
MspR9I CCNGG 4 cut(s) 105, 260, 729, 770
MunI CAATTG 1 cut(s) 189
Mva1269I GAATGC 1 cut(s) 178
MvaI CCWGG 4 cut(s) 105, 260, 729, 770
MvnI CGCG 2 cut(s) 130, 401
MwoI GCNNNNNNNGC 3 cut(s) 260, 649, 812
NcoI CCATGG 1 cut(s) 506
NdeI CATATG 1 cut(s) 378
NdeII GATC 1 cut(s) 193
NheI GCTAGC 1 cut(s) 263
NlaIII CATG 7 cut(s) 89, 153, 200, 395, 477, 510, 679
NlaIV GGNNCC 5 cut(s) 54, 121, 122, 397, 671
NmeAIII GCCGAG 1 cut(s) 646
NmuCI GTSAC 1 cut(s) 853
NspI RCATGY 2 cut(s) 153, 477
OliI CACNNNNGTG 1 cut(s) 806
PaeI GCATGC 1 cut(s) 153
PceI AGGCCT 1 cut(s) 875
PctI GAATGC 1 cut(s) 178
PfeI GAWTC 1 cut(s) 464
PkrI GCNGC 1 cut(s) 513
PpuMI RGGWCCY 1 cut(s) 120
Psp124BI GAGCTC 1 cut(s) 665
Psp5II RGGWCCY 1 cut(s) 120
Psp6I CCWGG 4 cut(s) 103, 258, 727, 768
PspFI CCCAGC 1 cut(s) 797
PspGI CCWGG 4 cut(s) 103, 258, 727, 768
PspN4I GGNNCC 5 cut(s) 54, 121, 122, 397, 671
PspPI GGNCC 2 cut(s) 120, 772
PspPPI RGGWCCY 1 cut(s) 120
RsaI GTAC 2 cut(s) 54, 397
RsaNI GTAC 2 cut(s) 53, 396
RseI CAYNNNNRTG 2 cut(s) 472, 806
SacI GAGCTC 1 cut(s) 665
SaqAI TTAA 1 cut(s) 883
SatI GCNGC 1 cut(s) 512
Sau3AI GATC 1 cut(s) 193
Sau96I GGNCC 2 cut(s) 120, 772
ScrFI CCNGG 4 cut(s) 105, 260, 729, 770
SduI GDGCHC 1 cut(s) 665
SfaNI GCATC 3 cut(s) 217, 329, 661
SinI GGWCC 2 cut(s) 120, 772
SmiMI CAYNNNNRTG 2 cut(s) 472, 806
SmlI CTYRAG 1 cut(s) 742
SmoI CTYRAG 1 cut(s) 742
SphI GCATGC 1 cut(s) 153
Sse9I AATT 5 cut(s) 80, 189, 307, 331, 369
SseBI AGGCCT 1 cut(s) 875
SsiI CCGC 6 cut(s) 130, 399, 480, 567, 597, 804
SspMI CTAG 2 cut(s) 264, 750
SstI GAGCTC 1 cut(s) 665
StuI AGGCCT 1 cut(s) 875
StyD4I CCNGG 4 cut(s) 103, 258, 727, 768
StyI CCWWGG 1 cut(s) 506
TaaI ACNGT 1 cut(s) 524
TaiI ACGT 1 cut(s) 247
TaqI TCGA 6 cut(s) 498, 530, 648, 778, 784, 846
TasI AATT 5 cut(s) 80, 189, 307, 331, 369
TfiI GAWTC 1 cut(s) 464
Tru1I TTAA 1 cut(s) 883
Tru9I TTAA 1 cut(s) 883
TscAI CASTG 1 cut(s) 527
TseFI GTSAC 1 cut(s) 853
TseI GCWGC 1 cut(s) 511
Tsp45I GTSAC 1 cut(s) 853
TspDTI ATGAA 7 cut(s) 9, 17, 93, 129, 193, 194, 320
TspRI CASTG 1 cut(s) 527
VpaK11BI GGWCC 2 cut(s) 120, 772
XapI RAATTY 1 cut(s) 307
XbaI TCTAGA 1 cut(s) 749
XceI RCATGY 2 cut(s) 153, 477
XspI CTAG 2 cut(s) 264, 750
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.