Rroxscaffold_7G00209340

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0017033
Physical Location & Seq
Forward (+)
59599941 .. 59602320
2380 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00209340.1

Sequence Viewer

Length: 816 bp
ATGGCGACGCGCGTCGGCCAGATGGAATCTTGCCGCACCGGGCCCATCCGACATGGCTATTTGGGAGTCCGAGGAGCAGAGGTCTTTGGATACCGGTATGGATGTGACAGCGAGCACCGATGCCGGTTCCCCAAGTATGGGCGGCGTCTCTCATTGAGTTCCTCTTCCCGGTCGATGATTACCTTCTTTGGAGGGGCCATTTCGGGTTGCGATGAGGAAGATGGTCGAAAAGAGGGTTTTTCGGGTTTAAGAGACCGAAAGGGTTTCGATGTGACAGTTGGGAATGGTTGCGGGCCAAACAGAACAAACCAGCTTATCCGGATAAATATTGGACTTCACCGTAACACGCAGCTCAAAATCAATGTTGATAAAGCTTTCTTGCCTTCGAAACTATTGGAGGATTGGTGGAGTAATGAGAAGAAGGGATGGATTTTTGTGGCCTGTTTCCCTAAAGTAGTTCAACATGTCTCTTCTCCCAAGCATGTAGAACGGCTTGCAATTCGAGAAGGCATTGACTTTCTTCGGCAACTTGGTGCACACGATGCTTGCCTTGAAAGTGACTGTCAAGTCGCCATACAAGAGATTGGAGATGATAACTTTGAACTCAATGAACATGCCAATCTACTGCTAGACATCCACCACAGTTGGCACTTTGTAAGGGGCCTGGATTTTATTTTTGCACCTAGAACTACCAATGTAGTAGCACATAGGCTAGCTGCTATGGCGTATGAATCCAATATTGATCAAGTATGGATAGACCAAGCTCCAGTTTGTATTCTGGATGCTTTGATGTTTGATTGTAATCATCTTGATTAA
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_1 RVT_3 zf-RVT

Protein Analysis

271

Amino Acids

30.64

Weight (kDa)

6.63

Isoelectric Point (pI)

34.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RVT_3 PF13456 146 - 242 3.6e-11 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 566
AccII CGCG 2 cut(s) 10, 12
AccIII TCCGGA 1 cut(s) 318
AciI CCGC 3 cut(s) 34, 142, 291
AcoI YGGCCR 1 cut(s) 16
AcyI GRCGYC 1 cut(s) 145
AfiI CCNNNNNNNGG 3 cut(s) 137, 138, 168
AflIII ACRYGT 1 cut(s) 463
AgeI ACCGGT 1 cut(s) 93
AgsI TTSAA 3 cut(s) 461, 554, 602
AjnI CCWGG 1 cut(s) 663
AluBI AGCT 5 cut(s) 313, 352, 374, 716, 764
AluI AGCT 5 cut(s) 313, 352, 374, 716, 764
Alw21I GWGCWC 2 cut(s) 117, 538
Alw26I GTCTC 3 cut(s) 152, 246, 472
Alw44I GTGCAC 1 cut(s) 534
Aor13HI TCCGGA 1 cut(s) 318
AoxI GGCC 6 cut(s) 16, 41, 195, 293, 438, 661
ApaI GGGCCC 1 cut(s) 45
ApaLI GTGCAC 1 cut(s) 534
ApeKI GCWGC 2 cut(s) 349, 716
AsiGI ACCGGT 1 cut(s) 93
AspLEI GCGC 1 cut(s) 12
AspS9I GGNCC 5 cut(s) 41, 42, 195, 293, 661
AsuC2I CCSGG 2 cut(s) 40, 169
AsuHPI GGTGA 1 cut(s) 329
AsuII TTCGAA 1 cut(s) 386
AsuNHI GCTAGC 1 cut(s) 712
BaeGI GKGCMC 2 cut(s) 45, 538
BanII GRGCYC 1 cut(s) 45
Bbv12I GWGCWC 2 cut(s) 117, 538
BbvI GCAGC 2 cut(s) 361, 703
BccI CCATC 4 cut(s) 16, 53, 215, 420
BceAI ACGGC 1 cut(s) 506
BciT130I CCWGG 1 cut(s) 665
BciVI GTATCC 1 cut(s) 83
BclI TGATCA 1 cut(s) 742
BcnI CCSGG 2 cut(s) 40, 169
BcoDI GTCTC 3 cut(s) 152, 246, 472
BfaI CTAG 3 cut(s) 629, 684, 713
BfuI GTATCC 1 cut(s) 83
BisI GCNGC 4 cut(s) 34, 143, 350, 717
BlsI GCNGC 4 cut(s) 35, 144, 351, 718
Bme1390I CCNGG 3 cut(s) 40, 169, 665
BmgT120I GGNCC 5 cut(s) 41, 42, 195, 293, 661
BmiI GGNNCC 4 cut(s) 43, 128, 196, 662
BmrFI CCNGG 3 cut(s) 40, 169, 665
BmsI GCATC 3 cut(s) 110, 532, 772
BmtI GCTAGC 1 cut(s) 716
BoxI GACNNNNGTC 1 cut(s) 11
BpmI CTGGAG 1 cut(s) 750
Bpu14I TTCGAA 1 cut(s) 386
BpuMI CCSGG 2 cut(s) 40, 169
BsaBI GATNNNNATC 1 cut(s) 801
BsaHI GRCGYC 1 cut(s) 145
BsaI GGTCTC 1 cut(s) 246
BsaJI CCNNGG 1 cut(s) 70
BsaWI WCCGGW 2 cut(s) 93, 318
BsaXI ACNNNNNCTCC 4 cut(s) 66, 96, 389, 419
Bsc4I CCNNNNNNNGG 3 cut(s) 137, 138, 168
Bse118I RCCGGY 2 cut(s) 93, 123
Bse1I ACTGG 1 cut(s) 767
Bse8I GATNNNNATC 1 cut(s) 801
BseAI TCCGGA 1 cut(s) 318
BseBI CCWGG 1 cut(s) 665
BseDI CCNNGG 1 cut(s) 70
BseGI GGATG 5 cut(s) 45, 107, 431, 633, 787
BseJI GATNNNNATC 1 cut(s) 801
BseLI CCNNNNNNNGG 3 cut(s) 137, 138, 168
BseNI ACTGG 1 cut(s) 767
BseRI GAGGAG 1 cut(s) 87
BseSI GKGCMC 2 cut(s) 45, 538
BseXI GCAGC 2 cut(s) 361, 703
Bsh1236I CGCG 2 cut(s) 10, 12
Bsh1285I CGRYCG 1 cut(s) 173
BshFI GGCC 6 cut(s) 18, 43, 197, 295, 440, 663
BshTI ACCGGT 1 cut(s) 93
BsiEI CGRYCG 1 cut(s) 173
BsiHKAI GWGCWC 2 cut(s) 117, 538
BsiSI CCGG 5 cut(s) 39, 94, 124, 169, 319
BslI CCNNNNNNNGG 3 cut(s) 137, 138, 168
BsmAI GTCTC 3 cut(s) 152, 246, 472
BsmBI CGTCTC 1 cut(s) 152
BsnI GGCC 6 cut(s) 18, 43, 197, 295, 440, 663
Bso31I GGTCTC 1 cut(s) 246
Bsp119I TTCGAA 1 cut(s) 386
Bsp120I GGGCCC 1 cut(s) 41
Bsp1286I GDGCHC 3 cut(s) 45, 117, 538
Bsp13I TCCGGA 1 cut(s) 318
Bsp143I GATC 1 cut(s) 742
BspACI CCGC 3 cut(s) 34, 142, 291
BspANI GGCC 6 cut(s) 18, 43, 197, 295, 440, 663
BspEI TCCGGA 1 cut(s) 318
BspFNI CGCG 2 cut(s) 10, 12
BspLI GGNNCC 4 cut(s) 43, 128, 196, 662
BspOI GCTAGC 1 cut(s) 716
BspT104I TTCGAA 1 cut(s) 386
BspTNI GGTCTC 1 cut(s) 246
BsrFI RCCGGY 2 cut(s) 93, 123
BsrI ACTGG 1 cut(s) 767
BssAI RCCGGY 2 cut(s) 93, 123
BssECI CCNNGG 1 cut(s) 70
BssMI GATC 1 cut(s) 742
BssNI GRCGYC 1 cut(s) 145
Bst2UI CCWGG 1 cut(s) 665
Bst4CI ACNGT 4 cut(s) 277, 341, 563, 644
Bst6I CTCTTC 2 cut(s) 169, 475
BstACI GRCGYC 1 cut(s) 145
BstAPI GCANNNNNTGC 1 cut(s) 542
BstBI TTCGAA 1 cut(s) 386
BstC8I GCNNGC 5 cut(s) 113, 293, 495, 547, 714
BstF5I GGATG 5 cut(s) 45, 107, 431, 633, 787
BstFNI CGCG 2 cut(s) 10, 12
BstHHI GCGC 1 cut(s) 12
BstKTI GATC 1 cut(s) 745
BstMAI GTCTC 3 cut(s) 152, 246, 472
BstMBI GATC 1 cut(s) 742
BstMCI CGRYCG 1 cut(s) 173
BstMWI GCNNNNNNNGC 2 cut(s) 542, 722
BstNI CCWGG 1 cut(s) 665
BstNSI RCATGY 3 cut(s) 467, 485, 617
BstPAI GACNNNNGTC 1 cut(s) 11
BstSCI CCNGG 3 cut(s) 38, 167, 663
BstSLI GKGCMC 2 cut(s) 45, 538
BstUI CGCG 2 cut(s) 10, 12
BstV1I GCAGC 2 cut(s) 361, 703
BsuI GTATCC 1 cut(s) 83
BsuRI GGCC 6 cut(s) 18, 43, 197, 295, 440, 663
BtgZI GCGATG 1 cut(s) 225
BtsCI GGATG 5 cut(s) 45, 107, 431, 633, 787
Cac8I GCNNGC 5 cut(s) 113, 293, 495, 547, 714
CfoI GCGC 1 cut(s) 12
Cfr10I RCCGGY 2 cut(s) 93, 123
Cfr13I GGNCC 5 cut(s) 41, 42, 195, 293, 661
CseI GACGC 2 cut(s) 16, 134
CspAI ACCGGT 1 cut(s) 93
CspCI CAANNNNNGTGG 2 cut(s) 626, 661
CviAII CATG 4 cut(s) 53, 464, 482, 614
DpnI GATC 1 cut(s) 744
DpnII GATC 1 cut(s) 742
DrdI GACNNNNNNGTC 1 cut(s) 566
DseDI GACNNNNNNGTC 1 cut(s) 566
EaeI YGGCCR 1 cut(s) 16
Eam1104I CTCTTC 2 cut(s) 169, 475
EarI CTCTTC 2 cut(s) 169, 475
Eco24I GRGCYC 1 cut(s) 45
Eco31I GGTCTC 1 cut(s) 246
EcoO109I RGGNCCY 1 cut(s) 661
EcoRII CCWGG 1 cut(s) 663
EcoT38I GRGCYC 1 cut(s) 45
Esp3I CGTCTC 1 cut(s) 152
FaeI CATG 4 cut(s) 56, 467, 485, 617
FatI CATG 4 cut(s) 52, 463, 481, 613
FauI CCCGC 1 cut(s) 284
FbaI TGATCA 1 cut(s) 742
Fnu4HI GCNGC 4 cut(s) 34, 143, 350, 717
FokI GGATG 5 cut(s) 32, 114, 438, 620, 794
FriOI GRGCYC 1 cut(s) 45
Fsp4HI GCNGC 4 cut(s) 34, 143, 350, 717
FspBI CTAG 3 cut(s) 629, 684, 713
GlaI GCGC 1 cut(s) 11
GluI GCNGC 4 cut(s) 34, 143, 350, 717
GsuI CTGGAG 1 cut(s) 750
HaeIII GGCC 6 cut(s) 18, 43, 197, 295, 440, 663
HapII CCGG 5 cut(s) 39, 94, 124, 169, 319
HgaI GACGC 2 cut(s) 16, 134
HhaI GCGC 1 cut(s) 12
Hin1I GRCGYC 1 cut(s) 145
Hin1II CATG 4 cut(s) 56, 467, 485, 617
Hin6I GCGC 1 cut(s) 10
HinP1I GCGC 1 cut(s) 10
HindIII AAGCTT 1 cut(s) 372
HinfI GANTC 3 cut(s) 26, 66, 731
HpaII CCGG 5 cut(s) 39, 94, 124, 169, 319
HphI GGTGA 1 cut(s) 329
Hpy166II GTNNAC 1 cut(s) 536
Hpy188I TCNGA 2 cut(s) 50, 71
Hpy188III TCNNGA 4 cut(s) 319, 503, 779, 809
Hpy8I GTNNAC 1 cut(s) 536
Hpy99I CGWCG 2 cut(s) 10, 17
HpyAV CCTTC 4 cut(s) 193, 393, 415, 500
HpyCH4III ACNGT 4 cut(s) 277, 341, 563, 644
HpyCH4V TGCA 3 cut(s) 497, 536, 680
HpyF10VI GCNNNNNNNGC 2 cut(s) 542, 722
Hsp92I GRCGYC 1 cut(s) 145
Hsp92II CATG 4 cut(s) 56, 467, 485, 617
HspAI GCGC 1 cut(s) 10
Kpn2I TCCGGA 1 cut(s) 318
Ksp22I TGATCA 1 cut(s) 742
Kzo9I GATC 1 cut(s) 742
LmnI GCTCC 2 cut(s) 74, 769
Lsp1109I GCAGC 2 cut(s) 361, 703
LweI GCATC 3 cut(s) 110, 532, 772
MaeI CTAG 3 cut(s) 629, 684, 713
MaeIII GTNAC 4 cut(s) 104, 271, 341, 557
MalI GATC 1 cut(s) 744
MboI GATC 1 cut(s) 742
MboII GAAGA 5 cut(s) 156, 230, 430, 462, 512
MhlI GDGCHC 3 cut(s) 45, 117, 538
MluCI AATT 1 cut(s) 498
MlyI GAGTC 1 cut(s) 75
MmeI TCCRAC 1 cut(s) 73
MnlI CCTC 7 cut(s) 65, 73, 172, 185, 208, 226, 391
MroI TCCGGA 1 cut(s) 318
MseI TTAA 2 cut(s) 248, 814
MspI CCGG 5 cut(s) 39, 94, 124, 169, 319
MspR9I CCNGG 3 cut(s) 40, 169, 665
MvaI CCWGG 1 cut(s) 665
MvnI CGCG 2 cut(s) 10, 12
MwoI GCNNNNNNNGC 2 cut(s) 542, 722
NciI CCSGG 2 cut(s) 40, 169
NdeII GATC 1 cut(s) 742
NheI GCTAGC 1 cut(s) 712
NlaIII CATG 4 cut(s) 56, 467, 485, 617
NlaIV GGNNCC 4 cut(s) 43, 128, 196, 662
NmuCI GTSAC 3 cut(s) 104, 271, 557
NspI RCATGY 3 cut(s) 467, 485, 617
NspV TTCGAA 1 cut(s) 386
PciI ACATGT 1 cut(s) 463
PfeI GAWTC 2 cut(s) 26, 731
PinAI ACCGGT 1 cut(s) 93
PkrI GCNGC 4 cut(s) 35, 144, 351, 718
PleI GAGTC 1 cut(s) 74
PpsI GAGTC 1 cut(s) 74
PscI ACATGT 1 cut(s) 463
PshAI GACNNNNGTC 1 cut(s) 11
Psp6I CCWGG 1 cut(s) 663
PspGI CCWGG 1 cut(s) 663
PspN4I GGNNCC 4 cut(s) 43, 128, 196, 662
PspOMI GGGCCC 1 cut(s) 41
PspPI GGNCC 5 cut(s) 41, 42, 195, 293, 661
SaqAI TTAA 2 cut(s) 248, 814
SatI GCNGC 4 cut(s) 34, 143, 350, 717
Sau3AI GATC 1 cut(s) 742
Sau96I GGNCC 5 cut(s) 41, 42, 195, 293, 661
SchI GAGTC 1 cut(s) 75
ScrFI CCNGG 3 cut(s) 40, 169, 665
SduI GDGCHC 3 cut(s) 45, 117, 538
SetI ASST 8 cut(s) 84, 185, 315, 354, 376, 685, 718, 766
SfaNI GCATC 3 cut(s) 110, 532, 772
SfuI TTCGAA 1 cut(s) 386
Sse9I AATT 1 cut(s) 498
SsiI CCGC 3 cut(s) 34, 142, 291
SspI AATATT 2 cut(s) 328, 739
SspMI CTAG 3 cut(s) 629, 684, 713
StyD4I CCNGG 3 cut(s) 38, 167, 663
TaaI ACNGT 4 cut(s) 277, 341, 563, 644
TaqI TCGA 5 cut(s) 173, 226, 267, 386, 502
TaqII GACCGA 1 cut(s) 270
TasI AATT 1 cut(s) 498
TauI GCSGC 2 cut(s) 36, 145
TfiI GAWTC 2 cut(s) 26, 731
Tru1I TTAA 2 cut(s) 248, 814
Tru9I TTAA 2 cut(s) 248, 814
TseFI GTSAC 3 cut(s) 104, 271, 557
TseI GCWGC 2 cut(s) 349, 716
Tsp45I GTSAC 3 cut(s) 104, 271, 557
TspDTI ATGAA 2 cut(s) 624, 744
VneI GTGCAC 1 cut(s) 534
XceI RCATGY 3 cut(s) 467, 485, 617
XspI CTAG 3 cut(s) 629, 684, 713
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.