Rmu_sc0003941.1_g000020

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003941.1
OG0000194
Physical Location & Seq
Forward (+)
89548 .. 90707
1160 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003941.1_g000020.1.cds

Sequence Viewer

Length: 882 bp
atggcaaccccttttggttccattaatgatattgacaaactgatttggtcggctacttcttcaagagcttactcggttaaatccggctacaggttcaaaatttccactcaaatcccatttcgctccttacacccctttcattcccattccattaatgtcaaggtttggaaatggctatgggcggttagggcctctcccagaattagacatttcctttggcgggctatttcaaatgtgttggcaacgactaataaccgtcatcggaggcacctgtcttcttcctctatgtgccctatctgtgacacacatccggaaaccattgagcatgtgttatttctttgtccatgggcgactacggcttggttctgtcaccctctttcatacaagattgatcttcaagctattacaactttggatagatggattcttgcactttttggtgatcatcttgatattcaggatgctcagtttccaactcatgtggtatatttgttatggtatatttggaagcaacgatgcaacactattttcaatcatactcccccggatccaattgcaattgccaaaagggctttttctatatcccagaagtttctcgagatcccagtcggctttcatctcaaactccatccagaccccccactcagacatctcaaattcctatttggattgctcctactcaggattgtttctggcattcgtgtctttgccaatcagtttatccttgttaactggctctggaccagtaggtgtgcaaatgctgctgcagactgtgtggccgctttagcatctcacagggtgtgtccggcagattgggtctccaatccccccacctccctaatgcgtattctgctcttcgatgtggctggccctcctccatag
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
DUF4283 RVT_1 RVT_3 zf-CCHC_4 zf-RVT

Protein Analysis

293

Amino Acids

33.67

Weight (kDa)

9.78

Isoelectric Point (pI)

36.39

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)
AccB1I GGYRCC 1 cut(s) 267
AccIII TCCGGA 1 cut(s) 310
AciI CCGC 3 cut(s) 182, 220, 780
AclWI GGATC 3 cut(s) 542, 555, 595
AcoI YGGCCR 1 cut(s) 777
AcsI RAATTY 2 cut(s) 99, 656
AdeI CACNNNGTG 1 cut(s) 799
AfiI CCNNNNNNNGG 2 cut(s) 90, 220
AgsI TTSAA 5 cut(s) 63, 97, 231, 398, 532
AluBI AGCT 2 cut(s) 68, 401
AluI AGCT 2 cut(s) 68, 401
Alw26I GTCTC 1 cut(s) 823
AlwI GGATC 3 cut(s) 542, 555, 595
Ama87I CYCGRG 1 cut(s) 596
Aor13HI TCCGGA 1 cut(s) 310
AoxI GGCC 3 cut(s) 189, 777, 868
ApeKI GCWGC 2 cut(s) 761, 764
ApoI RAATTY 2 cut(s) 99, 656
ArsI GACNNNNNNTTYG 2 cut(s) 198, 230
AseI ATTAAT 2 cut(s) 24, 153
AspS9I GGNCC 3 cut(s) 189, 741, 869
AsuC2I CCSGG 1 cut(s) 545
AsuHPI GGTGA 2 cut(s) 362, 452
AvaI CYCGRG 1 cut(s) 596
AvaII GGWCC 1 cut(s) 741
BaeGI GKGCMC 1 cut(s) 293
BamHI GGATCC 1 cut(s) 547
BanI GGYRCC 1 cut(s) 267
BbsI GAAGAC 1 cut(s) 267
BbvI GCAGC 2 cut(s) 748, 751
BccI CCATC 2 cut(s) 414, 636
BceAI ACGGC 1 cut(s) 372
BclI TGATCA 1 cut(s) 442
BcnI CCSGG 1 cut(s) 545
BcoDI GTCTC 1 cut(s) 823
BfmI CTRYAG 2 cut(s) 88, 765
BglI GCCNNNNNGGC 1 cut(s) 569
BisI GCNGC 3 cut(s) 762, 765, 780
BlsI GCNGC 3 cut(s) 763, 766, 781
Bme1390I CCNGG 1 cut(s) 545
Bme18I GGWCC 1 cut(s) 741
BmeT110I CYCGRG 1 cut(s) 596
BmgT120I GGNCC 3 cut(s) 189, 741, 869
BmiI GGNNCC 3 cut(s) 19, 269, 549
BmrFI CCNGG 1 cut(s) 545
BmrI ACTGGG 1 cut(s) 599
BmsI GCATC 3 cut(s) 451, 506, 797
BmuI ACTGGG 1 cut(s) 599
BpiI GAAGAC 1 cut(s) 267
BpuMI CCSGG 1 cut(s) 545
BsaI GGTCTC 1 cut(s) 823
BsaJI CCNNGG 2 cut(s) 344, 543
BsaWI WCCGGW 1 cut(s) 310
Bsc4I CCNNNNNNNGG 2 cut(s) 90, 220
Bse1I ACTGG 3 cut(s) 605, 737, 744
BseAI TCCGGA 1 cut(s) 310
BseDI CCNNGG 2 cut(s) 344, 543
BseGI GGATG 3 cut(s) 307, 466, 628
BseLI CCNNNNNNNGG 2 cut(s) 90, 220
BseMII CTCAG 3 cut(s) 479, 658, 694
BseNI ACTGG 3 cut(s) 605, 737, 744
BseRI GAGGAG 1 cut(s) 864
BseSI GKGCMC 1 cut(s) 293
BseXI GCAGC 2 cut(s) 748, 751
BshFI GGCC 3 cut(s) 191, 779, 870
BshNI GGYRCC 1 cut(s) 267
BsiHKCI CYCGRG 1 cut(s) 596
BsiSI CCGG 4 cut(s) 84, 311, 545, 806
BslI CCNNNNNNNGG 2 cut(s) 90, 220
BsmAI GTCTC 1 cut(s) 823
BsmI GAATGC 1 cut(s) 696
BsnI GGCC 3 cut(s) 191, 779, 870
Bso31I GGTCTC 1 cut(s) 823
BsoBI CYCGRG 1 cut(s) 596
Bsp1286I GDGCHC 1 cut(s) 293
Bsp13I TCCGGA 1 cut(s) 310
Bsp143I GATC 4 cut(s) 391, 442, 547, 600
Bsp19I CCATGG 1 cut(s) 344
BspACI CCGC 3 cut(s) 182, 220, 780
BspANI GGCC 3 cut(s) 191, 779, 870
BspCNI CTCAG 3 cut(s) 478, 657, 693
BspEI TCCGGA 1 cut(s) 310
BspLI GGNNCC 3 cut(s) 19, 269, 549
BspMAI CTGCAG 1 cut(s) 769
BspPI GGATC 3 cut(s) 542, 555, 595
BspQI GCTCTTC 1 cut(s) 860
BspT107I GGYRCC 1 cut(s) 267
BspTNI GGTCTC 1 cut(s) 823
BsrI ACTGG 3 cut(s) 605, 737, 744
BssECI CCNNGG 2 cut(s) 344, 543
BssMI GATC 4 cut(s) 391, 442, 547, 600
BssT1I CCWWGG 1 cut(s) 344
Bst4CI ACNGT 2 cut(s) 257, 773
Bst6I CTCTTC 1 cut(s) 860
BstAPI GCANNNNNTGC 1 cut(s) 761
BstC8I GCNNGC 2 cut(s) 222, 868
BstDEI CTNAG 3 cut(s) 465, 644, 680
BstDSI CCRYGG 1 cut(s) 344
BstF5I GGATG 3 cut(s) 307, 466, 628
BstKTI GATC 4 cut(s) 394, 445, 550, 603
BstMAI GTCTC 1 cut(s) 823
BstMBI GATC 4 cut(s) 391, 442, 547, 600
BstMWI GCNNNNNNNGC 6 cut(s) 188, 356, 569, 761, 785, 850
BstNSI RCATGY 1 cut(s) 329
BstSCI CCNGG 1 cut(s) 543
BstSFI CTRYAG 2 cut(s) 88, 765
BstSLI GKGCMC 1 cut(s) 293
BstV1I GCAGC 2 cut(s) 748, 751
BstV2I GAAGAC 1 cut(s) 267
BstX2I RGATCY 2 cut(s) 547, 600
BstYI RGATCY 2 cut(s) 547, 600
BsuRI GGCC 3 cut(s) 191, 779, 870
BtgI CCRYGG 1 cut(s) 344
BtsCI GGATG 3 cut(s) 307, 466, 628
Cac8I GCNNGC 2 cut(s) 222, 868
Cfr13I GGNCC 3 cut(s) 189, 741, 869
CspCI CAANNNNNGTGG 2 cut(s) 462, 497
CviAII CATG 3 cut(s) 326, 345, 479
DdeI CTNAG 3 cut(s) 465, 644, 680
DpnI GATC 4 cut(s) 393, 444, 549, 602
DpnII GATC 4 cut(s) 391, 442, 547, 600
DraIII CACNNNGTG 1 cut(s) 799
EaeI YGGCCR 1 cut(s) 777
Eam1104I CTCTTC 1 cut(s) 860
EarI CTCTTC 1 cut(s) 860
Eco130I CCWWGG 1 cut(s) 344
Eco31I GGTCTC 1 cut(s) 823
Eco47I GGWCC 1 cut(s) 741
Eco88I CYCGRG 1 cut(s) 596
EcoO109I RGGNCCY 1 cut(s) 189
EcoT14I CCWWGG 1 cut(s) 344
ErhI CCWWGG 1 cut(s) 344
FaeI CATG 3 cut(s) 329, 348, 482
FatI CATG 3 cut(s) 325, 344, 478
FauI CCCGC 1 cut(s) 213
FbaI TGATCA 1 cut(s) 442
Fnu4HI GCNGC 3 cut(s) 762, 765, 780
FokI GGATG 3 cut(s) 294, 473, 615
Fsp4HI GCNGC 3 cut(s) 762, 765, 780
GluI GCNGC 3 cut(s) 762, 765, 780
HaeIII GGCC 3 cut(s) 191, 779, 870
HapII CCGG 4 cut(s) 84, 311, 545, 806
Hin1II CATG 3 cut(s) 329, 348, 482
HincII GTYRAC 1 cut(s) 730
HindII GTYRAC 1 cut(s) 730
HinfI GANTC 1 cut(s) 424
HpaI GTTAAC 1 cut(s) 730
HpaII CCGG 4 cut(s) 84, 311, 545, 806
HphI GGTGA 2 cut(s) 362, 452
Hpy166II GTNNAC 1 cut(s) 730
Hpy188I TCNGA 2 cut(s) 264, 647
Hpy188III TCNNGA 9 cut(s) 63, 311, 449, 458, 596, 598, 632, 682, 739
Hpy8I GTNNAC 1 cut(s) 730
HpyCH4III ACNGT 2 cut(s) 257, 773
HpyCH4V TGCA 5 cut(s) 431, 519, 557, 755, 767
HpyF10VI GCNNNNNNNGC 6 cut(s) 188, 356, 569, 761, 785, 850
HpyF3I CTNAG 3 cut(s) 465, 644, 680
Hsp92II CATG 3 cut(s) 329, 348, 482
Kpn2I TCCGGA 1 cut(s) 310
Ksp22I TGATCA 1 cut(s) 442
KspAI GTTAAC 1 cut(s) 730
Kzo9I GATC 4 cut(s) 391, 442, 547, 600
LguI GCTCTTC 1 cut(s) 860
LmnI GCTCC 2 cut(s) 128, 678
Lsp1109I GCAGC 2 cut(s) 748, 751
LweI GCATC 3 cut(s) 451, 506, 797
MaeIII GTNAC 2 cut(s) 299, 368
MalI GATC 4 cut(s) 393, 444, 549, 602
MboI GATC 4 cut(s) 391, 442, 547, 600
MboII GAAGA 5 cut(s) 51, 267, 270, 386, 847
MfeI CAATTG 2 cut(s) 552, 558
MflI RGATCY 2 cut(s) 547, 600
MhlI GDGCHC 1 cut(s) 293
MluCI AATT 5 cut(s) 99, 201, 552, 558, 656
MmeI TCCRAC 1 cut(s) 497
MnlI CCTC 6 cut(s) 202, 258, 292, 384, 844, 882
MroI TCCGGA 1 cut(s) 310
MseI TTAA 4 cut(s) 24, 78, 153, 729
MspI CCGG 4 cut(s) 84, 311, 545, 806
MspR9I CCNGG 1 cut(s) 545
MunI CAATTG 2 cut(s) 552, 558
Mva1269I GAATGC 1 cut(s) 696
MwoI GCNNNNNNNGC 6 cut(s) 188, 356, 569, 761, 785, 850
NciI CCSGG 1 cut(s) 545
NcoI CCATGG 1 cut(s) 344
NdeII GATC 4 cut(s) 391, 442, 547, 600
NlaIII CATG 3 cut(s) 329, 348, 482
NlaIV GGNNCC 3 cut(s) 19, 269, 549
NmuCI GTSAC 2 cut(s) 299, 368
NspI RCATGY 1 cut(s) 329
PaeR7I CTCGAG 1 cut(s) 596
PciSI GCTCTTC 1 cut(s) 860
PctI GAATGC 1 cut(s) 696
PfeI GAWTC 1 cut(s) 424
PkrI GCNGC 3 cut(s) 763, 766, 781
PshBI ATTAAT 2 cut(s) 24, 153
PspN4I GGNNCC 3 cut(s) 19, 269, 549
PspPI GGNCC 3 cut(s) 189, 741, 869
PstI CTGCAG 1 cut(s) 769
PsuI RGATCY 2 cut(s) 547, 600
SapI GCTCTTC 1 cut(s) 860
SaqAI TTAA 4 cut(s) 24, 78, 153, 729
SatI GCNGC 3 cut(s) 762, 765, 780
Sau3AI GATC 4 cut(s) 391, 442, 547, 600
Sau96I GGNCC 3 cut(s) 189, 741, 869
ScrFI CCNGG 1 cut(s) 545
SduI GDGCHC 1 cut(s) 293
SetI ASST 7 cut(s) 70, 95, 165, 273, 403, 752, 836
SfaNI GCATC 3 cut(s) 451, 506, 797
SfcI CTRYAG 2 cut(s) 88, 765
Sfr274I CTCGAG 1 cut(s) 596
SinI GGWCC 1 cut(s) 741
SlaI CTCGAG 1 cut(s) 596
SmlI CTYRAG 1 cut(s) 596
SmoI CTYRAG 1 cut(s) 596
Sse9I AATT 5 cut(s) 99, 201, 552, 558, 656
SsiI CCGC 3 cut(s) 182, 220, 780
StyD4I CCNGG 1 cut(s) 543
StyI CCWWGG 1 cut(s) 344
TaaI ACNGT 2 cut(s) 257, 773
TaqI TCGA 2 cut(s) 597, 858
TasI AATT 5 cut(s) 99, 201, 552, 558, 656
TauI GCSGC 1 cut(s) 782
TfiI GAWTC 1 cut(s) 424
Tru1I TTAA 4 cut(s) 24, 78, 153, 729
Tru9I TTAA 4 cut(s) 24, 78, 153, 729
TseFI GTSAC 2 cut(s) 299, 368
TseI GCWGC 2 cut(s) 761, 764
Tsp45I GTSAC 2 cut(s) 299, 368
TspDTI ATGAA 3 cut(s) 128, 369, 605
VpaK11BI GGWCC 1 cut(s) 741
VspI ATTAAT 2 cut(s) 24, 153
XapI RAATTY 2 cut(s) 99, 656
XceI RCATGY 1 cut(s) 329
XhoI CTCGAG 1 cut(s) 596
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.