Rmu_sc0006862.1_g000010

Ribonuclease H

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0006862.1
OG0004840
Physical Location & Seq
Forward (+)
42100 .. 48467
6368 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1119 bp
atgggagggaggcctcccggggagatacaggccgacctccaccatagagaggtagctcgggtgtcggtctaccagatgtatgttgtaggcgggactaaccatgtcgcggggcccacctatgaggtcgttgcttatgcttggcgggaaaaataccttcgtagtgccaatcttgttgatgactcttatgttgtccccaaggattgttccagtacatggagaagtattgttcatggggctaatcttcttaaacaaggcttgacctggagagttggagatggaagacgaaataatttctggttcgatatgtggctgcctcctttttcccttcagaatcatattcttccttctgcctcctttaatcctactgataaaatttctaacttttgggatgaccatggttgggacattgataaattaattgcttgtcttcctcaacatattatcgaccagattattcgtattcctcctggctttgatggatgtggagaagataaacaaatttgggggtatacatctaatggtatctttagtgtaaagtctgcttatgctatttttcttgcatcctattgtcaggataactctccatggaaattcatttggaaattgcagcttcctcccaaattgaagacattcacatggattgttttccatggcaaactcttaacaaatgttcaaagagccaaaaggaatttgaccaatgacaactgttgtcctttatgccatcaagctcttgagactcttgctcacctatttcgagattgccctgctgctcaattgatatggaattctttcaatataccatcttgcgtggctaatacttttcagataagttggaatggttggcttatggctcatcttctgtgcaagaccactctttttgtgttttctgatacttttcacggtatctctgaacagcagctgcatgtgacaaaatcaaatgatgagcagcaatgtaaggctcagtttgtgaaatcccagctgtgcaatttccatcagctttggagcaccgtgccggaggattcatcccattgtcatggcagagcaaccaccactccaggctctttgaatgtcatccggttcttcactttcccagtaccatcgatagacatcaaaatttag
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 zf-RVT

Protein Analysis

372

Amino Acids

42.47

Weight (kDa)

8.19

Isoelectric Point (pI)

39.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RVT PF13966 176 - 261 5.3e-22 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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 213
AccI GTMKAC 2 cut(s) 69, 509
AccII CGCG 1 cut(s) 107
AciI CCGC 3 cut(s) 90, 107, 142
AcsI RAATTY 6 cut(s) 372, 498, 590, 688, 784, 1113
AcuI CTGAAG 1 cut(s) 311
AfaI GTAC 2 cut(s) 211, 1095
AfiI CCNNNNNNNGG 4 cut(s) 49, 106, 213, 400
AgsI TTSAA 4 cut(s) 625, 674, 793, 1066
AjnI CCWGG 3 cut(s) 260, 466, 1054
AluBI AGCT 6 cut(s) 56, 610, 728, 919, 979, 997
AluI AGCT 6 cut(s) 56, 610, 728, 919, 979, 997
Alw21I GWGCWC 1 cut(s) 1007
Alw26I GTCTC 1 cut(s) 728
AlwNI CAGNNNCTG 1 cut(s) 919
Ama87I CYCGRG 2 cut(s) 17, 57
AoxI GGCC 3 cut(s) 11, 30, 110
ApaI GGGCCC 1 cut(s) 114
ApeKI GCWGC 6 cut(s) 310, 607, 767, 916, 919, 946
ApoI RAATTY 6 cut(s) 372, 498, 590, 688, 784, 1113
AseI ATTAAT 1 cut(s) 416
Asp700I GAANNNNTTC 2 cut(s) 629, 788
AspS9I GGNCC 2 cut(s) 110, 111
AsuC2I CCSGG 2 cut(s) 18, 19
AsuHPI GGTGA 1 cut(s) 737
AvaI CYCGRG 2 cut(s) 17, 57
BaeGI GKGCMC 1 cut(s) 114
BanII GRGCYC 1 cut(s) 114
BbsI GAAGAC 3 cut(s) 286, 419, 632
Bbv12I GWGCWC 1 cut(s) 1007
BbvI GCAGC 6 cut(s) 297, 619, 754, 906, 928, 958
BccI CCATC 6 cut(s) 269, 470, 729, 808, 999, 1105
BciT130I CCWGG 3 cut(s) 262, 468, 1056
BcnI CCSGG 2 cut(s) 18, 19
BcoDI GTCTC 1 cut(s) 728
BisI GCNGC 6 cut(s) 311, 608, 768, 917, 920, 947
BlsI GCNGC 6 cut(s) 312, 609, 769, 918, 921, 948
Bme1390I CCNGG 5 cut(s) 18, 19, 262, 468, 1056
BmeT110I CYCGRG 2 cut(s) 17, 57
BmgT120I GGNCC 2 cut(s) 110, 111
BmiI GGNNCC 2 cut(s) 111, 112
BmrFI CCNGG 5 cut(s) 18, 19, 262, 468, 1056
BmrI ACTGGG 1 cut(s) 1085
BmsI GCATC 1 cut(s) 569
BmuI ACTGGG 1 cut(s) 1085
BpiI GAAGAC 3 cut(s) 286, 419, 632
BpmI CTGGAG 2 cut(s) 283, 1038
BpuEI CTTGAG 1 cut(s) 752
BpuMI CCSGG 2 cut(s) 18, 19
Bsa29I ATCGAT 1 cut(s) 1100
BsaBI GATNNNNATC 1 cut(s) 1106
BsaJI CCNNGG 6 cut(s) 17, 18, 195, 394, 584, 649
BsaWI WCCGGW 1 cut(s) 1074
BsaXI ACNNNNNCTCC 2 cut(s) 1036, 1066
Bsc4I CCNNNNNNNGG 4 cut(s) 49, 106, 213, 400
Bse1I ACTGG 2 cut(s) 207, 1091
Bse3DI GCAATG 1 cut(s) 956
Bse8I GATNNNNATC 1 cut(s) 1106
BseBI CCWGG 3 cut(s) 262, 468, 1056
BseCI ATCGAT 1 cut(s) 1100
BseDI CCNNGG 6 cut(s) 17, 18, 195, 394, 584, 649
BseGI GGATG 5 cut(s) 394, 485, 560, 1022, 1071
BseJI GATNNNNATC 1 cut(s) 1106
BseLI CCNNNNNNNGG 4 cut(s) 49, 106, 213, 400
BseMI GCAATG 1 cut(s) 956
BseMII CTCAG 1 cut(s) 974
BseNI ACTGG 2 cut(s) 207, 1091
BseSI GKGCMC 1 cut(s) 114
BseXI GCAGC 6 cut(s) 297, 619, 754, 906, 928, 958
BseYI CCCAGC 1 cut(s) 975
Bsh1236I CGCG 1 cut(s) 107
BshFI GGCC 3 cut(s) 13, 32, 112
BshVI ATCGAT 1 cut(s) 1100
BsiHKAI GWGCWC 1 cut(s) 1007
BsiHKCI CYCGRG 2 cut(s) 17, 57
BsiSI CCGG 3 cut(s) 18, 1013, 1075
BslFI GGGAC 3 cut(s) 106, 176, 416
BslI CCNNNNNNNGG 4 cut(s) 49, 106, 213, 400
BsmAI GTCTC 1 cut(s) 728
BsmFI GGGAC 3 cut(s) 106, 176, 416
BsnI GGCC 3 cut(s) 13, 32, 112
BsoBI CYCGRG 2 cut(s) 17, 57
Bsp120I GGGCCC 1 cut(s) 110
Bsp1286I GDGCHC 2 cut(s) 114, 1007
Bsp19I CCATGG 3 cut(s) 394, 584, 649
BspACI CCGC 3 cut(s) 90, 107, 142
BspANI GGCC 3 cut(s) 13, 32, 112
BspCNI CTCAG 1 cut(s) 973
BspDI ATCGAT 1 cut(s) 1100
BspFNI CGCG 1 cut(s) 107
BspLI GGNNCC 2 cut(s) 111, 112
BsrDI GCAATG 1 cut(s) 956
BsrI ACTGG 2 cut(s) 207, 1091
BssECI CCNNGG 6 cut(s) 17, 18, 195, 394, 584, 649
BssNAI GTATAC 1 cut(s) 510
BssT1I CCWWGG 4 cut(s) 195, 394, 584, 649
Bst1107I GTATAC 1 cut(s) 510
Bst2UI CCWGG 3 cut(s) 262, 468, 1056
Bst4CI ACNGT 3 cut(s) 707, 902, 1009
BstDEI CTNAG 1 cut(s) 960
BstDSI CCRYGG 3 cut(s) 394, 584, 649
BstF5I GGATG 5 cut(s) 394, 485, 560, 1022, 1071
BstFNI CGCG 1 cut(s) 107
BstMAI GTCTC 1 cut(s) 728
BstNI CCWGG 3 cut(s) 262, 468, 1056
BstNSI RCATGY 1 cut(s) 926
BstSCI CCNGG 5 cut(s) 16, 17, 260, 466, 1054
BstSLI GKGCMC 1 cut(s) 114
BstUI CGCG 1 cut(s) 107
BstV1I GCAGC 6 cut(s) 297, 619, 754, 906, 928, 958
BstV2I GAAGAC 3 cut(s) 286, 419, 632
BstXI CCANNNNNNTGG 1 cut(s) 1034
BstZ17I GTATAC 1 cut(s) 510
Bsu15I ATCGAT 1 cut(s) 1100
BsuRI GGCC 3 cut(s) 13, 32, 112
BsuTUI ATCGAT 1 cut(s) 1100
BtgI CCRYGG 3 cut(s) 394, 584, 649
BtsCI GGATG 5 cut(s) 394, 485, 560, 1022, 1071
CaiI CAGNNNCTG 1 cut(s) 919
Cfr13I GGNCC 2 cut(s) 110, 111
Cfr9I CCCGGG 1 cut(s) 17
ClaI ATCGAT 1 cut(s) 1100
Csp6I GTAC 2 cut(s) 210, 1094
CspCI CAANNNNNGTGG 2 cut(s) 859, 894
CviAII CATG 9 cut(s) 101, 213, 230, 395, 585, 636, 650, 923, 1034
CviQI GTAC 2 cut(s) 210, 1094
DdeI CTNAG 1 cut(s) 960
Eco130I CCWWGG 4 cut(s) 195, 394, 584, 649
Eco147I AGGCCT 1 cut(s) 13
Eco24I GRGCYC 1 cut(s) 114
Eco57I CTGAAG 1 cut(s) 311
Eco88I CYCGRG 2 cut(s) 17, 57
EcoO109I RGGNCCY 1 cut(s) 110
EcoRI GAATTC 1 cut(s) 784
EcoRII CCWGG 3 cut(s) 260, 466, 1054
EcoT14I CCWWGG 4 cut(s) 195, 394, 584, 649
EcoT38I GRGCYC 1 cut(s) 114
ErhI CCWWGG 4 cut(s) 195, 394, 584, 649
FaeI CATG 9 cut(s) 104, 216, 233, 398, 588, 639, 653, 926, 1037
FaqI GGGAC 3 cut(s) 106, 176, 416
FatI CATG 9 cut(s) 100, 212, 229, 394, 584, 635, 649, 922, 1033
FauI CCCGC 3 cut(s) 83, 100, 135
FblI GTMKAC 2 cut(s) 69, 509
Fnu4HI GCNGC 6 cut(s) 311, 608, 768, 917, 920, 947
FokI GGATG 5 cut(s) 401, 492, 547, 1009, 1058
FriOI GRGCYC 1 cut(s) 114
Fsp4HI GCNGC 6 cut(s) 311, 608, 768, 917, 920, 947
GluI GCNGC 6 cut(s) 311, 608, 768, 917, 920, 947
GsaI CCCAGC 1 cut(s) 979
GsuI CTGGAG 2 cut(s) 283, 1038
HaeIII GGCC 3 cut(s) 13, 32, 112
HapII CCGG 3 cut(s) 18, 1013, 1075
Hin1II CATG 9 cut(s) 104, 216, 233, 398, 588, 639, 653, 926, 1037
HinfI GANTC 4 cut(s) 179, 331, 736, 1019
HpaII CCGG 3 cut(s) 18, 1013, 1075
HphI GGTGA 1 cut(s) 737
Hpy166II GTNNAC 2 cut(s) 70, 510
Hpy188I TCNGA 4 cut(s) 330, 825, 889, 910
Hpy188III TCNNGA 3 cut(s) 572, 731, 755
Hpy8I GTNNAC 2 cut(s) 70, 510
HpyAV CCTTC 3 cut(s) 164, 335, 354
HpyCH4III ACNGT 3 cut(s) 707, 902, 1009
HpyCH4V TGCA 5 cut(s) 560, 607, 864, 922, 984
HpyF3I CTNAG 1 cut(s) 960
Hsp92II CATG 9 cut(s) 104, 216, 233, 398, 588, 639, 653, 926, 1037
LmnI GCTCC 1 cut(s) 1002
Lsp1109I GCAGC 6 cut(s) 297, 619, 754, 906, 928, 958
LweI GCATC 1 cut(s) 569
MaeIII GTNAC 1 cut(s) 925
MboII GAAGA 8 cut(s) 233, 291, 332, 419, 500, 637, 848, 1072
MfeI CAATTG 1 cut(s) 773
MhlI GDGCHC 2 cut(s) 114, 1007
MlyI GAGTC 2 cut(s) 173, 730
MmeI TCCRAC 2 cut(s) 250, 812
MroXI GAANNNNTTC 2 cut(s) 629, 788
MseI TTAA 4 cut(s) 246, 357, 416, 662
MslI CAYNNNNRTG 2 cut(s) 634, 1032
MspA1I CMGCKG 2 cut(s) 919, 979
MspI CCGG 3 cut(s) 18, 1013, 1075
MspR9I CCNGG 5 cut(s) 18, 19, 262, 468, 1056
MunI CAATTG 1 cut(s) 773
MvaI CCWGG 3 cut(s) 262, 468, 1056
MvnI CGCG 1 cut(s) 107
NciI CCSGG 2 cut(s) 18, 19
NcoI CCATGG 3 cut(s) 394, 584, 649
NlaIII CATG 9 cut(s) 104, 216, 233, 398, 588, 639, 653, 926, 1037
NlaIV GGNNCC 2 cut(s) 111, 112
NmuCI GTSAC 1 cut(s) 925
NspI RCATGY 1 cut(s) 926
PceI AGGCCT 1 cut(s) 13
PdmI GAANNNNTTC 2 cut(s) 629, 788
PfeI GAWTC 2 cut(s) 331, 1019
PflMI CCANNNNNTGG 1 cut(s) 213
PkrI GCNGC 6 cut(s) 312, 609, 769, 918, 921, 948
PleI GAGTC 2 cut(s) 173, 730
PpsI GAGTC 2 cut(s) 173, 730
PshBI ATTAAT 1 cut(s) 416
Psp6I CCWGG 3 cut(s) 260, 466, 1054
PspFI CCCAGC 1 cut(s) 975
PspGI CCWGG 3 cut(s) 260, 466, 1054
PspN4I GGNNCC 2 cut(s) 111, 112
PspOMI GGGCCC 1 cut(s) 110
PspPI GGNCC 2 cut(s) 110, 111
PstNI CAGNNNCTG 1 cut(s) 919
PvuII CAGCTG 2 cut(s) 919, 979
RsaI GTAC 2 cut(s) 211, 1095
RsaNI GTAC 2 cut(s) 210, 1094
RseI CAYNNNNRTG 2 cut(s) 634, 1032
SaqAI TTAA 4 cut(s) 246, 357, 416, 662
SatI GCNGC 6 cut(s) 311, 608, 768, 917, 920, 947
Sau96I GGNCC 2 cut(s) 110, 111
SchI GAGTC 2 cut(s) 173, 730
ScrFI CCNGG 5 cut(s) 18, 19, 262, 468, 1056
SduI GDGCHC 2 cut(s) 114, 1007
SfaNI GCATC 1 cut(s) 569
SmaI CCCGGG 1 cut(s) 19
SmiMI CAYNNNNRTG 2 cut(s) 634, 1032
SmlI CTYRAG 1 cut(s) 731
SmoI CTYRAG 1 cut(s) 731
SseBI AGGCCT 1 cut(s) 13
SsiI CCGC 3 cut(s) 90, 107, 142
StuI AGGCCT 1 cut(s) 13
StyD4I CCNGG 5 cut(s) 16, 17, 260, 466, 1054
StyI CCWWGG 4 cut(s) 195, 394, 584, 649
TaaI ACNGT 3 cut(s) 707, 902, 1009
TaqI TCGA 4 cut(s) 300, 444, 754, 1100
TaqII GACCGA 1 cut(s) 55
TatI WGTACW 1 cut(s) 209
TfiI GAWTC 2 cut(s) 331, 1019
Tru1I TTAA 4 cut(s) 246, 357, 416, 662
Tru9I TTAA 4 cut(s) 246, 357, 416, 662
TseFI GTSAC 1 cut(s) 925
TseI GCWGC 6 cut(s) 310, 607, 767, 916, 919, 946
Tsp45I GTSAC 1 cut(s) 925
TspDTI ATGAA 3 cut(s) 218, 583, 1011
TspMI CCCGGG 1 cut(s) 17
Van91I CCANNNNNTGG 1 cut(s) 213
VspI ATTAAT 1 cut(s) 416
XapI RAATTY 6 cut(s) 372, 498, 590, 688, 784, 1113
XceI RCATGY 1 cut(s) 926
XmaI CCCGGG 1 cut(s) 17
XmiI GTMKAC 2 cut(s) 69, 509
XmnI GAANNNNTTC 2 cut(s) 629, 788
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.