Rmu_sc0000938.1_g000009

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0000938.1
OG0000194
Physical Location & Seq
Forward (+)
32772 .. 34791
2020 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0000938.1_g000009.1.cds

Sequence Viewer

Length: 984 bp
atgagatacggcaagatatattgcagagaacacatggatatgagtcctaacaggcaagaattcagcaaaattagtggagaggagtggagatcatacattgaaagcggagttgagaacaacaaactccgctttggtgacaggaatataaatgttgagcaggtcttaatcttcttctgttggcattgggtatcggcagagggggcacatgtggttcatctccaggtactgaacaatgcaatggacatgaaaatggtgtccaagaatgaggccctttcttttatcaaagagaagatcaggcacaaaatcgatggccggaaacagaaggttttgtctcaagctagaagaactgttttgatcaaatcgatagctatggcagtccccacttatcctatgacgtgcttcaagatccctaaaggcatctgcaatgatattaactctgcccttggtaactttttgtggggttataatgaaaatggcaacaagattcactggaatagttgggaacacttgggcaagtctaacaacatgggaggcttagggttcagggacctccaccatttcaacctagccctccttaccaagcaggcctggcgccttatacaacagcctaattccctatggactcgtgtgactaaagctaggtactacccaaattgtgacttcatcaaggctgaaaaaggataccgggcttcatggggttggtcgaatcttttggaagcaagggacatagatctaaaaggctcttgctggcaagtcatcagtggctcatccatcaatatatggactgattactggattcctcctcctaattttggtctggtacatactattgatgctatccctagtaatgctccaactcgagttgttgaaattattgatccggacacccggacgtggactctagaccaaattctccacatcttattaccctctgaggtcaaagagatattgtctgttcctataggcagggggggatggagatga
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-CCHC_4 zf-RVT

Protein Analysis

327

Amino Acids

37.82

Weight (kDa)

9.3

Isoelectric Point (pI)

33.65

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000194)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G34320 AT4G29090 AT5G42965
fragaria_vesca FvH4_1g19471 FvH4_1g29471 FvH4_1g29601 FvH4_2g04611 FvH4_2g05763 FvH4_2g11451 FvH4_2g11841 FvH4_3g10391 FvH4_3g21491 FvH4_3g21492 FvH4_3g32111 FvH4_3g35051 FvH4_4g06793 FvH4_5g08844 FvH4_5g15942 FvH4_5g18751 FvH4_5g27367 FvH4_6g11612 FvH4_6g20242 FvH4_6g27671 FvH4_6g31921 FvH4_7g32463
malus_domestica MD06G1107000.v1.1 MD07G1135800.v1.1 MD08G1205700.v1.1
prunus_persica Prupe.1G202000_v2.0.a1 Prupe.2G049100_v2.0.a1 Prupe.2G060500_v2.0.a1 Prupe.3G120300_v2.0.a1 Prupe.3G135000_v2.0.a1 Prupe.6G087800_v2.0.a1 Prupe.6G158500_v2.0.a1 Prupe.6G353900_v2.0.a1 Prupe.7G008600_v2.0.a1 Prupe.8G090500_v2.0.a1
pyrus_communis pycom01g21690 pycom02g19910 pycom04g18080 pycom07g08600 pycom07g18710 pycom07g26560 pycom08g03130 pycom08g13950 pycom09g06380 pycom10g13390 pycom10g22280 pycom11g04440 pycom11g10940 pycom12g04710 pycom13g08790 pycom15g31740 pycom17g14740 pycom17g24980
rosa_chinensis RchiOBHm_Chr1g0327801 RchiOBHm_Chr1g0347181 RchiOBHm_Chr1g0348821 RchiOBHm_Chr2g0157831 RchiOBHm_Chr5g0040851 RchiOBHm_Chr6g0249781 RchiOBHm_Chr7g0208461 RchiOBHm_Chr7g0210911 RchiOBHm_Chr7g0219141
rosa_laevigata RLG00000034326
rosa_multiflora Rmu_co8140276.1_g000001 Rmu_co8282095.1_g000001 Rmu_co8303311.1_g000001 Rmu_co8314215.1_g000001 Rmu_co8345435.1_g000001 Rmu_co8461745.1_g000001 Rmu_sc0000315.1_g000040 Rmu_sc0000487.1_g000014 Rmu_sc0000690.1_g000002 Rmu_sc0000808.1_g000001 Rmu_sc0000938.1_g000009 Rmu_sc0001260.1_g000002 Rmu_sc0001534.1_g000008 Rmu_sc0001669.1_g000003 Rmu_sc0001685.1_g000050 Rmu_sc0001838.1_g000007 Rmu_sc0002193.1_g000025 Rmu_sc0002308.1_g000058 Rmu_sc0002322.1_g000018 Rmu_sc0002529.1_g000008 Rmu_sc0002531.1_g000043 Rmu_sc0002754.1_g000022 Rmu_sc0002902.1_g000055 Rmu_sc0003627.1_g000005 Rmu_sc0003743.1_g000003 Rmu_sc0003765.1_g000016 Rmu_sc0003941.1_g000020 Rmu_sc0004038.1_g000011 Rmu_sc0004329.1_g000010 Rmu_sc0004476.1_g000002 Rmu_sc0004904.1_g000022 Rmu_sc0004988.1_g000017 Rmu_sc0005217.1_g000006 Rmu_sc0005257.1_g000010 Rmu_sc0005285.1_g000008 Rmu_sc0005687.1_g000001 Rmu_sc0006380.1_g000020 Rmu_sc0006922.1_g000004 Rmu_sc0007398.1_g000007 Rmu_sc0008279.1_g000019 Rmu_sc0009139.1_g000004 Rmu_sc0009158.1_g000001 Rmu_sc0010099.1_g000002 Rmu_sc0019043.1_g000001 Rmu_sc0022037.1_g000001 Rmu_sc0023291.1_g000001 Rmu_sc0031928.1_g000001 Rmu_sc0034436.1_g000002 Rmu_ssc0000126.1_g000001 Rmu_ssc0000151.1_g000016 Rmu_ssc0000152.1_g000009 Rmu_ssc0000395.1_g000031
rosa_roxburghii Rroxscaffold_1G00056570 Rroxscaffold_1G00058460 Rroxscaffold_2G00106120 Rroxscaffold_2G00106260 Rroxscaffold_6G00399080
rosa_rugosa Rorug02G0173300 Rorug02G0225600 Rorug03G0083300 Rorug03G0104900 Rorug04G0256500 Rorug05G0342600 Rorug06G0006200 Rorug06G0095200 Rorug06G0095600 Rorug06G0111500 Rorug07G0001200 Rorug07G0183100 Rorug07G0183100 Rorug07G0209000
rosa_samantha Rh2DG065400 Rh3DG315900 Rh4AG106100 Rh4BG362100 Rh4CG030200 Rh4DG239000 Rh4DG294000 Rh6DG304800 Rh7DG149500
rosa_wichuraiana Rw1G018070 Rw1G021220 Rw1G021820 Rw1G026430 Rw2G050800 Rw3G023330 Rw6G010050 Rw6G010440 Rw7G031930 Rw7G033860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 465
Acc36I ACCTGC 1 cut(s) 148
AccB1I GGYRCC 1 cut(s) 591
AccIII TCCGGA 1 cut(s) 880
AciI CCGC 2 cut(s) 105, 127
AclWI GGATC 2 cut(s) 400, 872
AcoI YGGCCR 1 cut(s) 310
AcsI RAATTY 2 cut(s) 59, 909
AcyI GRCGYC 1 cut(s) 592
AfaI GTAC 3 cut(s) 225, 644, 822
AfiI CCNNNNNNNGG 2 cut(s) 812, 894
AflIII ACRYGT 1 cut(s) 205
AgsI TTSAA 4 cut(s) 101, 403, 562, 869
AjiI CACGTC 2 cut(s) 396, 894
AjnI CCWGG 2 cut(s) 219, 587
AluBI AGCT 3 cut(s) 338, 368, 638
AluI AGCT 3 cut(s) 338, 368, 638
Alw26I GTCTC 1 cut(s) 336
AlwI GGATC 2 cut(s) 400, 872
AlwNI CAGNNNCTG 1 cut(s) 226
Ama87I CYCGRG 1 cut(s) 858
Aor13HI TCCGGA 1 cut(s) 880
AoxI GGCC 3 cut(s) 267, 310, 585
ApoI RAATTY 2 cut(s) 59, 909
AspLEI GCGC 1 cut(s) 594
AspS9I GGNCC 2 cut(s) 268, 547
AsuC2I CCSGG 2 cut(s) 686, 889
AsuHPI GGTGA 1 cut(s) 146
AvaI CYCGRG 1 cut(s) 858
AvaII GGWCC 1 cut(s) 547
BaeGI GKGCMC 1 cut(s) 205
BanI GGYRCC 1 cut(s) 591
BauI CACGAG 1 cut(s) 624
BccI CCATC 3 cut(s) 302, 779, 969
BceAI ACGGC 1 cut(s) 25
BciT130I CCWGG 2 cut(s) 221, 589
BciVI GTATCC 1 cut(s) 674
BclI TGATCA 1 cut(s) 354
BcnI CCSGG 2 cut(s) 686, 889
BcoDI GTCTC 1 cut(s) 336
BfaI CTAG 5 cut(s) 339, 566, 639, 843, 902
BfmI CTRYAG 1 cut(s) 960
BfoI RGCGCY 1 cut(s) 595
BfuAI ACCTGC 1 cut(s) 148
BfuI GTATCC 1 cut(s) 674
BglII AGATCT 1 cut(s) 730
Bme1390I CCNGG 4 cut(s) 221, 589, 686, 889
Bme18I GGWCC 1 cut(s) 547
BmeT110I CYCGRG 1 cut(s) 858
BmgBI CACGTC 2 cut(s) 396, 894
BmgT120I GGNCC 2 cut(s) 268, 547
BmiI GGNNCC 2 cut(s) 548, 593
BmrFI CCNGG 4 cut(s) 221, 589, 686, 889
BmsI GCATC 2 cut(s) 426, 823
BpmI CTGGAG 1 cut(s) 203
Bpu10I CCTNAGC 1 cut(s) 535
BpuEI CTTGAG 1 cut(s) 318
BpuMI CCSGG 2 cut(s) 686, 889
Bsa29I ATCGAT 2 cut(s) 306, 362
BsaHI GRCGYC 1 cut(s) 592
BsaJI CCNNGG 1 cut(s) 442
BsaWI WCCGGW 1 cut(s) 880
Bsc4I CCNNNNNNNGG 2 cut(s) 812, 894
Bse1I ACTGG 2 cut(s) 494, 797
Bse3DI GCAATG 2 cut(s) 243, 430
BseAI TCCGGA 1 cut(s) 880
BseBI CCWGG 2 cut(s) 221, 589
BseCI ATCGAT 2 cut(s) 306, 362
BseDI CCNNGG 1 cut(s) 442
BseGI GGATG 2 cut(s) 767, 980
BseLI CCNNNNNNNGG 2 cut(s) 812, 894
BseMI GCAATG 2 cut(s) 243, 430
BseMII CTCAG 1 cut(s) 924
BseNI ACTGG 2 cut(s) 494, 797
BseRI GAGGAG 2 cut(s) 95, 792
BseSI GKGCMC 1 cut(s) 205
BshFI GGCC 3 cut(s) 269, 312, 587
BshNI GGYRCC 1 cut(s) 591
BshVI ATCGAT 2 cut(s) 306, 362
BsiHKCI CYCGRG 1 cut(s) 858
BsiSI CCGG 4 cut(s) 313, 685, 881, 889
BslFI GGGAC 3 cut(s) 362, 560, 737
BslI CCNNNNNNNGG 2 cut(s) 812, 894
BsmAI GTCTC 1 cut(s) 336
BsmFI GGGAC 3 cut(s) 362, 560, 737
BsnI GGCC 3 cut(s) 269, 312, 587
BsoBI CYCGRG 1 cut(s) 858
Bsp1286I GDGCHC 1 cut(s) 205
Bsp13I TCCGGA 1 cut(s) 880
Bsp143I GATC 6 cut(s) 89, 291, 354, 405, 730, 877
BspACI CCGC 2 cut(s) 105, 127
BspANI GGCC 3 cut(s) 269, 312, 587
BspCNI CTCAG 1 cut(s) 925
BspDI ATCGAT 2 cut(s) 306, 362
BspEI TCCGGA 1 cut(s) 880
BspLI GGNNCC 2 cut(s) 548, 593
BspMI ACCTGC 1 cut(s) 148
BspPI GGATC 2 cut(s) 400, 872
BspT107I GGYRCC 1 cut(s) 591
BsrDI GCAATG 2 cut(s) 243, 430
BsrI ACTGG 2 cut(s) 494, 797
BssECI CCNNGG 1 cut(s) 442
BssMI GATC 6 cut(s) 89, 291, 354, 405, 730, 877
BssNI GRCGYC 1 cut(s) 592
BssSI CACGAG 1 cut(s) 624
BssT1I CCWWGG 1 cut(s) 442
Bst2BI CACGAG 1 cut(s) 624
Bst2UI CCWGG 2 cut(s) 221, 589
Bst4CI ACNGT 1 cut(s) 349
BstACI GRCGYC 1 cut(s) 592
BstC8I GCNNGC 2 cut(s) 585, 749
BstDEI CTNAG 2 cut(s) 535, 933
BstF5I GGATG 2 cut(s) 767, 980
BstH2I RGCGCY 1 cut(s) 595
BstHHI GCGC 1 cut(s) 594
BstKTI GATC 6 cut(s) 92, 294, 357, 408, 733, 880
BstMAI GTCTC 1 cut(s) 336
BstMBI GATC 6 cut(s) 89, 291, 354, 405, 730, 877
BstMWI GCNNNNNNNGC 2 cut(s) 200, 589
BstNI CCWGG 2 cut(s) 221, 589
BstNSI RCATGY 1 cut(s) 209
BstSCI CCNGG 4 cut(s) 219, 587, 684, 887
BstSFI CTRYAG 1 cut(s) 960
BstSLI GKGCMC 1 cut(s) 205
BstX2I RGATCY 2 cut(s) 405, 730
BstYI RGATCY 2 cut(s) 405, 730
Bsu15I ATCGAT 2 cut(s) 306, 362
BsuI GTATCC 1 cut(s) 674
BsuRI GGCC 3 cut(s) 269, 312, 587
BsuTUI ATCGAT 2 cut(s) 306, 362
BtrI CACGTC 2 cut(s) 396, 894
BtsCI GGATG 2 cut(s) 767, 980
BtsIMutI CAGTG 2 cut(s) 487, 766
BveI ACCTGC 1 cut(s) 148
Cac8I GCNNGC 2 cut(s) 585, 749
CaiI CAGNNNCTG 1 cut(s) 226
CfoI GCGC 1 cut(s) 594
Cfr13I GGNCC 2 cut(s) 268, 547
ClaI ATCGAT 2 cut(s) 306, 362
Csp6I GTAC 3 cut(s) 224, 643, 821
CspCI CAANNNNNGTGG 2 cut(s) 55, 90
CviAII CATG 5 cut(s) 34, 206, 244, 526, 693
CviQI GTAC 3 cut(s) 224, 643, 821
DdeI CTNAG 2 cut(s) 535, 933
DinI GGCGCC 1 cut(s) 593
DpnI GATC 6 cut(s) 91, 293, 356, 407, 732, 879
DpnII GATC 6 cut(s) 89, 291, 354, 405, 730, 877
EaeI YGGCCR 1 cut(s) 310
Eco130I CCWWGG 1 cut(s) 442
Eco147I AGGCCT 1 cut(s) 587
Eco47I GGWCC 1 cut(s) 547
Eco88I CYCGRG 1 cut(s) 858
EcoO109I RGGNCCY 2 cut(s) 268, 547
EcoRI GAATTC 1 cut(s) 59
EcoRII CCWGG 2 cut(s) 219, 587
EcoT14I CCWWGG 1 cut(s) 442
EgeI GGCGCC 1 cut(s) 593
EheI GGCGCC 1 cut(s) 593
ErhI CCWWGG 1 cut(s) 442
FaeI CATG 5 cut(s) 37, 209, 247, 529, 696
FaqI GGGAC 3 cut(s) 362, 560, 737
FatI CATG 5 cut(s) 33, 205, 243, 525, 692
FbaI TGATCA 1 cut(s) 354
FokI GGATG 1 cut(s) 754
FspBI CTAG 5 cut(s) 339, 566, 639, 843, 902
GlaI GCGC 1 cut(s) 593
GsuI CTGGAG 1 cut(s) 203
HaeII RGCGCY 1 cut(s) 595
HaeIII GGCC 3 cut(s) 269, 312, 587
HapII CCGG 4 cut(s) 313, 685, 881, 889
HhaI GCGC 1 cut(s) 594
Hin1I GRCGYC 1 cut(s) 592
Hin1II CATG 5 cut(s) 37, 209, 247, 529, 696
Hin6I GCGC 1 cut(s) 592
HinP1I GCGC 1 cut(s) 592
HinfI GANTC 6 cut(s) 43, 484, 622, 706, 796, 898
HpaII CCGG 4 cut(s) 313, 685, 881, 889
HphI GGTGA 1 cut(s) 146
Hpy166II GTNNAC 1 cut(s) 897
Hpy188I TCNGA 1 cut(s) 934
Hpy188III TCNNGA 3 cut(s) 403, 881, 902
Hpy8I GTNNAC 1 cut(s) 897
HpyAV CCTTC 1 cut(s) 316
HpyCH4III ACNGT 1 cut(s) 349
HpyCH4IV ACGT 2 cut(s) 395, 893
HpyCH4V TGCA 3 cut(s) 24, 236, 423
HpyF10VI GCNNNNNNNGC 2 cut(s) 200, 589
HpyF3I CTNAG 2 cut(s) 535, 933
HpySE526I ACGT 2 cut(s) 395, 893
Hsp92I GRCGYC 1 cut(s) 592
Hsp92II CATG 5 cut(s) 37, 209, 247, 529, 696
HspAI GCGC 1 cut(s) 592
KasI GGCGCC 1 cut(s) 591
Kpn2I TCCGGA 1 cut(s) 880
Ksp22I TGATCA 1 cut(s) 354
Kzo9I GATC 6 cut(s) 89, 291, 354, 405, 730, 877
LmnI GCTCC 1 cut(s) 856
LweI GCATC 2 cut(s) 426, 823
MaeI CTAG 5 cut(s) 339, 566, 639, 843, 902
MaeII ACGT 2 cut(s) 395, 893
MaeIII GTNAC 4 cut(s) 134, 446, 628, 656
MalI GATC 6 cut(s) 91, 293, 356, 407, 732, 879
MboI GATC 6 cut(s) 89, 291, 354, 405, 730, 877
MboII GAAGA 4 cut(s) 160, 163, 301, 354
MflI RGATCY 2 cut(s) 405, 730
MhlI GDGCHC 1 cut(s) 205
MluCI AATT 7 cut(s) 59, 69, 610, 652, 808, 870, 909
Mly113I GGCGCC 1 cut(s) 592
MlyI GAGTC 3 cut(s) 52, 616, 892
MmeI TCCRAC 1 cut(s) 878
MroI TCCGGA 1 cut(s) 880
MseI TTAA 2 cut(s) 164, 432
MslI CAYNNNNRTG 2 cut(s) 38, 248
MspI CCGG 4 cut(s) 313, 685, 881, 889
MspR9I CCNGG 4 cut(s) 221, 589, 686, 889
MvaI CCWGG 2 cut(s) 221, 589
MwoI GCNNNNNNNGC 2 cut(s) 200, 589
NarI GGCGCC 1 cut(s) 592
NciI CCSGG 2 cut(s) 686, 889
NdeII GATC 6 cut(s) 89, 291, 354, 405, 730, 877
NlaIII CATG 5 cut(s) 37, 209, 247, 529, 696
NlaIV GGNNCC 2 cut(s) 548, 593
NmuCI GTSAC 3 cut(s) 134, 628, 656
NspI RCATGY 1 cut(s) 209
PaeR7I CTCGAG 1 cut(s) 858
PceI AGGCCT 1 cut(s) 587
PciI ACATGT 1 cut(s) 205
PfeI GAWTC 3 cut(s) 484, 706, 796
PleI GAGTC 3 cut(s) 51, 616, 892
PluTI GGCGCC 1 cut(s) 595
PpsI GAGTC 3 cut(s) 51, 616, 892
PpuMI RGGWCCY 1 cut(s) 547
PscI ACATGT 1 cut(s) 205
PsiI TTATAA 1 cut(s) 465
Psp5II RGGWCCY 1 cut(s) 547
Psp6I CCWGG 2 cut(s) 219, 587
PspGI CCWGG 2 cut(s) 219, 587
PspN4I GGNNCC 2 cut(s) 548, 593
PspPI GGNCC 2 cut(s) 268, 547
PspPPI RGGWCCY 1 cut(s) 547
PspXI VCTCGAGB 1 cut(s) 858
PstNI CAGNNNCTG 1 cut(s) 226
PsuI RGATCY 2 cut(s) 405, 730
RsaI GTAC 3 cut(s) 225, 644, 822
RsaNI GTAC 3 cut(s) 224, 643, 821
RseI CAYNNNNRTG 2 cut(s) 38, 248
SaqAI TTAA 2 cut(s) 164, 432
Sau3AI GATC 6 cut(s) 89, 291, 354, 405, 730, 877
Sau96I GGNCC 2 cut(s) 268, 547
SchI GAGTC 3 cut(s) 52, 616, 892
ScrFI CCNGG 4 cut(s) 221, 589, 686, 889
SduI GDGCHC 1 cut(s) 205
SfaNI GCATC 2 cut(s) 426, 823
SfcI CTRYAG 1 cut(s) 960
SfoI GGCGCC 1 cut(s) 593
Sfr274I CTCGAG 1 cut(s) 858
SinI GGWCC 1 cut(s) 547
SlaI CTCGAG 1 cut(s) 858
SmiMI CAYNNNNRTG 2 cut(s) 38, 248
SmlI CTYRAG 2 cut(s) 333, 858
SmoI CTYRAG 2 cut(s) 333, 858
Sse9I AATT 7 cut(s) 59, 69, 610, 652, 808, 870, 909
SseBI AGGCCT 1 cut(s) 587
SsiI CCGC 2 cut(s) 105, 127
SspDI GGCGCC 1 cut(s) 591
SspMI CTAG 5 cut(s) 339, 566, 639, 843, 902
StuI AGGCCT 1 cut(s) 587
StyD4I CCNGG 4 cut(s) 219, 587, 684, 887
StyI CCWWGG 1 cut(s) 442
TaaI ACNGT 1 cut(s) 349
TaiI ACGT 2 cut(s) 398, 896
TaqI TCGA 4 cut(s) 306, 362, 704, 859
TasI AATT 7 cut(s) 59, 69, 610, 652, 808, 870, 909
TfiI GAWTC 3 cut(s) 484, 706, 796
Tru1I TTAA 2 cut(s) 164, 432
Tru9I TTAA 2 cut(s) 164, 432
TscAI CASTG 2 cut(s) 494, 766
TseFI GTSAC 3 cut(s) 134, 628, 656
Tsp45I GTSAC 3 cut(s) 134, 628, 656
TspDTI ATGAA 5 cut(s) 203, 260, 483, 652, 681
TspRI CASTG 2 cut(s) 494, 766
VpaK11BI GGWCC 1 cut(s) 547
XapI RAATTY 2 cut(s) 59, 909
XbaI TCTAGA 1 cut(s) 901
XceI RCATGY 1 cut(s) 209
XhoI CTCGAG 1 cut(s) 858
XspI CTAG 5 cut(s) 339, 566, 639, 843, 902
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.