Rroxscaffold_6G00404120

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000006
OG0021629
Physical Location & Seq
Forward (+)
26576113 .. 26585207
9095 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_6G00404120.1

Sequence Viewer

Length: 780 bp
ATGATCGATATGTATGGCATTTCCACCGAACAGGGTGTTTTACGCTCAAGAGCTGCTACCATGCCGCAAGGAATTCAGCTTTGTCGGGAGTGTGTTGCGGCGTCATCTTCTGCCGGAAACAACCTTGGAAAGTACTTGAAACTTCTTTGGCAAAGCAATGTTCCACCTAAGGTCTGCATCTTTGTTTGGCGACCGTTGAAAGGCATTGTTCCAACTAGGGGGAATTTACTACAGCGACGTGTTCCTTTGCCGTATAGTACGTGTGTTTTCCGTCATAAGGTTATCGAGGATGAGCTTCATGTTTTTAAGAATTGCAAGTTGGTGGTGCCCTCGTGGGTTTGTTCGCCTTTAAATCTGCATTCTTATAGTCATCCCACTCATTCTTTAATGGATTGGATTTTTGATATGATGGATAAGTTCATCGCACGACAAAGAGAGCTTTTCTTTGTGCTTCTTTGGGTAATTTGGAAAGAAAGAAACGTGTGGTGTGGCAGGATGGTGTTTTCCACAGCTGGAGTTCGGTGTGCTGGGCGGTACGTTGGCTTGAAGACTACCGTAAAGTTCATACCATCGCTCGACGAAAAGAAAAGCGGCCAAGAGTCTCTCGGAGATTTCCACCTAGTGGACGCCTCAAGATCAATATTGATGGGGCTTTTCGGTGGACCGGGGAAAAGGTGGTGTGTTCAATTCCAGTATACACTTGATGAACTTACCTATATGCATGTGGGAAGTGGGGCCGCTTCCTATGAAACTTGGGCAAGTCTTCTAGAGCACTCATGA
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

259

Amino Acids

29.5

Weight (kDa)

9.24

Isoelectric Point (pI)

41.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 43 - 112 4.9e-11 zinc-binding in reverse transcriptase
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: OG0021629)

Species Orthologous Gene IDs
rosa_multiflora Rmu_sc0000381.1_g000012
rosa_roxburghii Rroxscaffold_6G00404120
rosa_rugosa Rorug04G0036500 Rorug05G0359800 Rorug07G0018300

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 325
AccB7I CCANNNNNTGG 1 cut(s) 622
AccI GTMKAC 1 cut(s) 695
AciI CCGC 5 cut(s) 65, 98, 532, 591, 738
AcoI YGGCCR 1 cut(s) 592
AcsI RAATTY 2 cut(s) 72, 223
AcyI GRCGYC 2 cut(s) 101, 627
AdeI CACNNNGTG 1 cut(s) 622
AfaI GTAC 3 cut(s) 134, 259, 536
AfiI CCNNNNNNNGG 4 cut(s) 200, 218, 277, 622
AflIII ACRYGT 3 cut(s) 238, 260, 480
AgsI TTSAA 4 cut(s) 139, 199, 547, 686
AjiI CACGTC 1 cut(s) 239
AjuI GAANNNNNNNTTGG 2 cut(s) 302, 334
AluBI AGCT 5 cut(s) 53, 79, 295, 439, 512
AluI AGCT 5 cut(s) 53, 79, 295, 439, 512
Alw21I GWGCWC 1 cut(s) 774
Alw26I GTCTC 1 cut(s) 606
AoxI GGCC 2 cut(s) 592, 735
ApeKI GCWGC 1 cut(s) 53
ApoI RAATTY 2 cut(s) 72, 223
AspS9I GGNCC 2 cut(s) 662, 735
AsuC2I CCSGG 1 cut(s) 666
AvaII GGWCC 1 cut(s) 662
AxyI CCTNAGG 1 cut(s) 168
BaeGI GKGCMC 1 cut(s) 330
BanI GGYRCC 1 cut(s) 325
BauI CACGAG 1 cut(s) 331
BbsI GAAGAC 2 cut(s) 554, 755
Bbv12I GWGCWC 1 cut(s) 774
BbvI GCAGC 1 cut(s) 40
BccI CCATC 4 cut(s) 403, 490, 577, 640
BceAI ACGGC 1 cut(s) 235
BcnI CCSGG 1 cut(s) 666
BcoDI GTCTC 1 cut(s) 606
BfaI CTAG 3 cut(s) 216, 620, 767
BfmI CTRYAG 1 cut(s) 230
BisI GCNGC 5 cut(s) 54, 65, 99, 592, 738
BlsI GCNGC 5 cut(s) 55, 66, 100, 593, 739
BmcAI AGTACT 1 cut(s) 134
Bme1390I CCNGG 1 cut(s) 666
Bme18I GGWCC 1 cut(s) 662
BmgBI CACGTC 1 cut(s) 239
BmgT120I GGNCC 2 cut(s) 662, 735
BmiI GGNNCC 2 cut(s) 327, 736
BmrFI CCNGG 1 cut(s) 666
BmsI GCATC 1 cut(s) 186
BpiI GAAGAC 2 cut(s) 554, 755
BpmI CTGGAG 1 cut(s) 534
BpuEI CTTGAG 2 cut(s) 31, 616
BpuMI CCSGG 1 cut(s) 666
Bsa29I ATCGAT 1 cut(s) 6
BsaAI YACGTR 1 cut(s) 261
BsaHI GRCGYC 2 cut(s) 101, 627
BsaJI CCNNGG 2 cut(s) 124, 665
Bsc4I CCNNNNNNNGG 4 cut(s) 200, 218, 277, 622
Bse1I ACTGG 1 cut(s) 691
Bse21I CCTNAGG 1 cut(s) 168
Bse3DI GCAATG 1 cut(s) 163
BseCI ATCGAT 1 cut(s) 6
BseDI CCNNGG 2 cut(s) 124, 665
BseGI GGATG 3 cut(s) 295, 370, 501
BseLI CCNNNNNNNGG 4 cut(s) 200, 218, 277, 622
BseMI GCAATG 1 cut(s) 163
BseNI ACTGG 1 cut(s) 691
BseSI GKGCMC 1 cut(s) 330
BseXI GCAGC 1 cut(s) 40
BseYI CCCAGC 1 cut(s) 527
Bsh1285I CGRYCG 1 cut(s) 194
BshFI GGCC 2 cut(s) 594, 737
BshNI GGYRCC 1 cut(s) 325
BshVI ATCGAT 1 cut(s) 6
BsiEI CGRYCG 1 cut(s) 194
BsiHKAI GWGCWC 1 cut(s) 774
BsiSI CCGG 2 cut(s) 114, 665
BslI CCNNNNNNNGG 4 cut(s) 200, 218, 277, 622
BsmAI GTCTC 1 cut(s) 606
BsmI GAATGC 1 cut(s) 358
BsnI GGCC 2 cut(s) 594, 737
Bsp1286I GDGCHC 2 cut(s) 330, 774
Bsp143I GATC 2 cut(s) 3, 635
BspACI CCGC 5 cut(s) 65, 98, 532, 591, 738
BspANI GGCC 2 cut(s) 594, 737
BspDI ATCGAT 1 cut(s) 6
BspHI TCATGA 1 cut(s) 776
BspLI GGNNCC 2 cut(s) 327, 736
BspT107I GGYRCC 1 cut(s) 325
BsrDI GCAATG 1 cut(s) 163
BsrI ACTGG 1 cut(s) 691
BssECI CCNNGG 2 cut(s) 124, 665
BssMI GATC 2 cut(s) 3, 635
BssNAI GTATAC 1 cut(s) 696
BssNI GRCGYC 2 cut(s) 101, 627
BssSI CACGAG 1 cut(s) 331
BssT1I CCWWGG 1 cut(s) 124
Bst1107I GTATAC 1 cut(s) 696
Bst2BI CACGAG 1 cut(s) 331
Bst4CI ACNGT 2 cut(s) 195, 556
BstACI GRCGYC 2 cut(s) 101, 627
BstBAI YACGTR 1 cut(s) 261
BstDEI CTNAG 1 cut(s) 168
BstF5I GGATG 3 cut(s) 295, 370, 501
BstKTI GATC 2 cut(s) 6, 638
BstMAI GTCTC 1 cut(s) 606
BstMBI GATC 2 cut(s) 3, 635
BstMCI CGRYCG 1 cut(s) 194
BstNSI RCATGY 1 cut(s) 725
BstSCI CCNGG 1 cut(s) 664
BstSFI CTRYAG 1 cut(s) 230
BstSLI GKGCMC 1 cut(s) 330
BstV1I GCAGC 1 cut(s) 40
BstV2I GAAGAC 2 cut(s) 554, 755
BstZ17I GTATAC 1 cut(s) 696
Bsu15I ATCGAT 1 cut(s) 6
Bsu36I CCTNAGG 1 cut(s) 168
BsuRI GGCC 2 cut(s) 594, 737
BsuTUI ATCGAT 1 cut(s) 6
BtgZI GCGATG 2 cut(s) 406, 555
BtrI CACGTC 1 cut(s) 239
BtsCI GGATG 3 cut(s) 295, 370, 501
CciI TCATGA 1 cut(s) 776
Cfr13I GGNCC 2 cut(s) 662, 735
ClaI ATCGAT 1 cut(s) 6
CseI GACGC 2 cut(s) 90, 635
Csp6I GTAC 3 cut(s) 133, 258, 535
CviAII CATG 4 cut(s) 61, 299, 722, 777
CviJI RGCY 9 cut(s) 53, 79, 295, 439, 512, 543, 594, 652, 737
CviKI_1 RGCY 9 cut(s) 53, 79, 295, 439, 512, 543, 594, 652, 737
CviQI GTAC 3 cut(s) 133, 258, 535
DdeI CTNAG 1 cut(s) 168
DpnI GATC 2 cut(s) 5, 637
DpnII GATC 2 cut(s) 3, 635
DraI TTTAAA 1 cut(s) 351
DraIII CACNNNGTG 1 cut(s) 622
EaeI YGGCCR 1 cut(s) 592
Eco130I CCWWGG 1 cut(s) 124
Eco47I GGWCC 1 cut(s) 662
Eco81I CCTNAGG 1 cut(s) 168
EcoRI GAATTC 1 cut(s) 72
EcoT14I CCWWGG 1 cut(s) 124
EcoT22I ATGCAT 1 cut(s) 723
ErhI CCWWGG 1 cut(s) 124
FaeI CATG 4 cut(s) 64, 302, 725, 780
FatI CATG 4 cut(s) 60, 298, 721, 776
FblI GTMKAC 1 cut(s) 695
Fnu4HI GCNGC 5 cut(s) 54, 65, 99, 592, 738
FokI GGATG 3 cut(s) 302, 357, 508
Fsp4HI GCNGC 5 cut(s) 54, 65, 99, 592, 738
FspBI CTAG 3 cut(s) 216, 620, 767
GluI GCNGC 5 cut(s) 54, 65, 99, 592, 738
GsaI CCCAGC 1 cut(s) 531
GsuI CTGGAG 1 cut(s) 534
HaeIII GGCC 2 cut(s) 594, 737
HapII CCGG 2 cut(s) 114, 665
HgaI GACGC 2 cut(s) 90, 635
Hin1I GRCGYC 2 cut(s) 101, 627
Hin1II CATG 4 cut(s) 64, 302, 725, 780
HinfI GANTC 1 cut(s) 599
HpaII CCGG 2 cut(s) 114, 665
Hpy166II GTNNAC 3 cut(s) 625, 662, 696
Hpy188I TCNGA 1 cut(s) 608
Hpy188III TCNNGA 5 cut(s) 48, 86, 633, 767, 777
Hpy8I GTNNAC 3 cut(s) 625, 662, 696
Hpy99I CGWCG 2 cut(s) 240, 581
HpyCH4III ACNGT 2 cut(s) 195, 556
HpyCH4IV ACGT 4 cut(s) 238, 260, 480, 537
HpyCH4V TGCA 4 cut(s) 177, 315, 358, 721
HpyF3I CTNAG 1 cut(s) 168
HpySE526I ACGT 4 cut(s) 238, 260, 480, 537
Hsp92I GRCGYC 2 cut(s) 101, 627
Hsp92II CATG 4 cut(s) 64, 302, 725, 780
Kzo9I GATC 2 cut(s) 3, 635
LpnPI CCDG 7 cut(s) 17, 127, 478, 498, 513, 678, 704
Lsp1109I GCAGC 1 cut(s) 40
LweI GCATC 1 cut(s) 186
MaeI CTAG 3 cut(s) 216, 620, 767
MaeII ACGT 4 cut(s) 238, 260, 480, 537
MalI GATC 2 cut(s) 5, 637
MboI GATC 2 cut(s) 3, 635
MboII GAAGA 3 cut(s) 99, 559, 755
MhlI GDGCHC 2 cut(s) 330, 774
MluCI AATT 5 cut(s) 72, 223, 310, 462, 686
MlyI GAGTC 1 cut(s) 608
MmeI TCCRAC 1 cut(s) 236
MnlI CCTC 3 cut(s) 280, 340, 640
Mph1103I ATGCAT 1 cut(s) 723
MseI TTAA 3 cut(s) 306, 350, 386
MspA1I CMGCKG 1 cut(s) 512
MspI CCGG 2 cut(s) 114, 665
MspR9I CCNGG 1 cut(s) 666
Mva1269I GAATGC 1 cut(s) 358
NciI CCSGG 1 cut(s) 666
NdeII GATC 2 cut(s) 3, 635
NlaIII CATG 4 cut(s) 64, 302, 725, 780
NlaIV GGNNCC 2 cut(s) 327, 736
NsiI ATGCAT 1 cut(s) 723
NspI RCATGY 1 cut(s) 725
PagI TCATGA 1 cut(s) 776
PctI GAATGC 1 cut(s) 358
PflMI CCANNNNNTGG 1 cut(s) 622
PkrI GCNGC 5 cut(s) 55, 66, 100, 593, 739
PleI GAGTC 1 cut(s) 607
PpsI GAGTC 1 cut(s) 607
Ppu21I YACGTR 1 cut(s) 261
PspFI CCCAGC 1 cut(s) 527
PspN4I GGNNCC 2 cut(s) 327, 736
PspPI GGNCC 2 cut(s) 662, 735
PvuII CAGCTG 1 cut(s) 512
RsaI GTAC 3 cut(s) 134, 259, 536
RsaNI GTAC 3 cut(s) 133, 258, 535
SaqAI TTAA 3 cut(s) 306, 350, 386
SatI GCNGC 5 cut(s) 54, 65, 99, 592, 738
Sau3AI GATC 2 cut(s) 3, 635
Sau96I GGNCC 2 cut(s) 662, 735
ScaI AGTACT 1 cut(s) 134
SchI GAGTC 1 cut(s) 608
ScrFI CCNGG 1 cut(s) 666
SduI GDGCHC 2 cut(s) 330, 774
SfaNI GCATC 1 cut(s) 186
SfcI CTRYAG 1 cut(s) 230
SinI GGWCC 1 cut(s) 662
SmlI CTYRAG 2 cut(s) 46, 631
SmoI CTYRAG 2 cut(s) 46, 631
Sse9I AATT 5 cut(s) 72, 223, 310, 462, 686
SsiI CCGC 5 cut(s) 65, 98, 532, 591, 738
SspI AATATT 1 cut(s) 642
SspMI CTAG 3 cut(s) 216, 620, 767
StyD4I CCNGG 1 cut(s) 664
StyI CCWWGG 1 cut(s) 124
TaaI ACNGT 2 cut(s) 195, 556
TaiI ACGT 4 cut(s) 241, 263, 483, 540
TaqI TCGA 3 cut(s) 6, 285, 576
TasI AATT 5 cut(s) 72, 223, 310, 462, 686
TatI WGTACW 1 cut(s) 132
TauI GCSGC 4 cut(s) 67, 101, 594, 740
Tru1I TTAA 3 cut(s) 306, 350, 386
Tru9I TTAA 3 cut(s) 306, 350, 386
TseI GCWGC 1 cut(s) 53
TspDTI ATGAA 5 cut(s) 287, 409, 553, 720, 762
TspGWI ACGGA 1 cut(s) 260
Van91I CCANNNNNTGG 1 cut(s) 622
VpaK11BI GGWCC 1 cut(s) 662
XapI RAATTY 2 cut(s) 72, 223
XbaI TCTAGA 1 cut(s) 766
XceI RCATGY 1 cut(s) 725
XmiI GTMKAC 1 cut(s) 695
XspI CTAG 3 cut(s) 216, 620, 767
ZrmI AGTACT 1 cut(s) 134
Zsp2I ATGCAT 1 cut(s) 723
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.