Rmu_sc0005415.1_g000003

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0005415.1
OG0000336
Physical Location & Seq
Forward (+)
10201 .. 11276
1076 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0005415.1_g000003.1.cds

Sequence Viewer

Length: 786 bp
atgggcatgttctggagtgcatggaggctgaatggacgatacactgctcaggaacatggagaccactttctgttcaccttgacggatccaacagaccgaaaccagatccttcgatgtggtccttggggctttgatagagctccggtcgttctagcaccgtatgatggggtgggggcgatcaaggatgttccgctctctactttagcattatggatcaaggtacgtgacctgccaccagactttcatactgatcgttgcttgagaaggattggtagcgctttggggtggtatgtgcagaaggacacaacagaatttgaagaaggaaggattcagatccgagttgaggttgaccttctgcagcctgtgcttttccgacggagtttcacgaggttgatggggttgacctctatggcagatgtcaagagtgtggtggagactggtattaagccatcttcaggtggtttagggcaggagttgcttgggagtggtaattcaagtgaggcattgatagaggcagttcctagttgtggtatgcgtcgaaaacgtgtggaggaagatggtatctctccaaagaagctgcgtttgagcttagtagtgggcaggacacatttggatgctatgacaatgggattgagttatgtgaaagatgtgaaggaagtttacaagaagaggctgggacagccaaaggagcttaaggttgtgcatgcttcacctatgaagaagtcaccggcaaagaagctcaagactcctaggaaggaggagaaattggtgaatggactaccgtaa
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00230 ko00670 ko01100 ko01110 ko01130 ko01523 map00230 map00670 map01100 map01110 map01130 map01523
Pfam Domains
Protein Families
DDE_Tnp_1_7 DUF4283 RVT_1 RVT_3 zf-CCHC_4 zf-RVT

Protein Analysis

261

Amino Acids

29.25

Weight (kDa)

9.68

Isoelectric Point (pI)

42.8

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: OG0000336)

Species Orthologous Gene IDs
malus_domestica MD05G1024100.v1.1
rosa_chinensis RchiOBHm_Chr2g0152291 RchiOBHm_Chr4g0387411
rosa_laevigata RLG00000009698 RLG00000009699 RLG00000009700 RLG00000023615 RLG00000024265 RLG00000034445 RLG00000036567
rosa_multiflora Rmu_co8268067.1_g000001 Rmu_co8313555.1_g000001 Rmu_co8324697.1_g000001 Rmu_sc0000318.1_g000023 Rmu_sc0000342.1_g000016 Rmu_sc0000447.1_g000010 Rmu_sc0000528.1_g000009 Rmu_sc0000539.1_g000060 Rmu_sc0000929.1_g000023 Rmu_sc0001493.1_g000081 Rmu_sc0001674.1_g000003 Rmu_sc0001791.1_g000023 Rmu_sc0001822.1_g000005 Rmu_sc0001822.1_g000033 Rmu_sc0002061.1_g000010 Rmu_sc0002286.1_g000012 Rmu_sc0002979.1_g000009 Rmu_sc0003158.1_g000016 Rmu_sc0003221.1_g000001 Rmu_sc0003641.1_g000029 Rmu_sc0003742.1_g000012 Rmu_sc0003814.1_g000004 Rmu_sc0003823.1_g000005 Rmu_sc0004002.1_g000005 Rmu_sc0004564.1_g000005 Rmu_sc0005415.1_g000003 Rmu_sc0006050.1_g000025 Rmu_sc0006555.1_g000002 Rmu_sc0009954.1_g000020 Rmu_sc0010421.1_g000007 Rmu_sc0010607.1_g000002 Rmu_sc0011044.1_g000005 Rmu_sc0011497.1_g000015 Rmu_sc0014532.1_g000004 Rmu_sc0014745.1_g000005 Rmu_sc0014821.1_g000001 Rmu_sc0015038.1_g000002 Rmu_sc0015454.1_g000004 Rmu_sc0019663.1_g000002 Rmu_sc0027475.1_g000003 Rmu_sc0028826.1_g000002 Rmu_ssc0000117.1_g000019 Rmu_ssc0000175.1_g000034
rosa_roxburghii Rroxscaffold_3G00237080 Rroxscaffold_4G00288290 Rroxscaffold_6G00397510
rosa_rugosa Rorug01G0035000 Rorug01G0190900 Rorug01G0208500 Rorug01G0208600 Rorug01G0208600 Rorug01G0344900 Rorug01G0479500 Rorug01G0479600 Rorug02G0230400 Rorug02G0320900 Rorug02G0433300 Rorug03G0147400 Rorug03G0169700.1 Rorug03G0169800 Rorug03G0198300 Rorug04G0022900 Rorug04G0064600 Rorug04G0322100 Rorug04G0388900 Rorug05G0153200 Rorug05G0231600 Rorug05G0231700 Rorug05G0231800 Rorug05G0276200 Rorug05G0292400 Rorug05G0314700 Rorug06G0092000 Rorug06G0260900 Rorug06G0273600 RorugPtG0003200
rosa_samantha Rh1AG264100 Rh1AG292500 Rh1AG423800 Rh2AG098000 Rh2AG232700 Rh2AG361100 Rh2AG372900 Rh2BG099200 Rh2BG246000 Rh2BG260600 Rh2BG378400 Rh3BG142300 Rh3BG252900 Rh3BG267700 Rh3DG302400 Rh5BG059800 Rh5BG320000 Rh5BG530500 Rh6AG089300 Rh6AG089400 Rh6AG127400 Rh6AG376700 Rh7CG488700 Rh7DG265900
rosa_wichuraiana Rw2G040640

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 237
AccBSI CCGCTC 1 cut(s) 193
AciI CCGC 1 cut(s) 191
AclWI GGATC 5 cut(s) 80, 93, 100, 221, 328
AcsI RAATTY 1 cut(s) 311
AcuI CTGAAG 1 cut(s) 438
AfaI GTAC 1 cut(s) 222
AfeI AGCGCT 1 cut(s) 277
AfiI CCNNNNNNNGG 4 cut(s) 164, 343, 455, 527
AflII CTTAAG 1 cut(s) 692
AflIII ACRYGT 1 cut(s) 544
AgsI TTSAA 2 cut(s) 317, 495
AluBI AGCT 5 cut(s) 140, 577, 588, 691, 739
AluI AGCT 5 cut(s) 140, 577, 588, 691, 739
Alw21I GWGCWC 1 cut(s) 142
Alw26I GTCTC 2 cut(s) 54, 428
AlwI GGATC 5 cut(s) 80, 93, 100, 221, 328
Aor51HI AGCGCT 1 cut(s) 277
ApeKI GCWGC 2 cut(s) 358, 577
ApoI RAATTY 1 cut(s) 311
AspA2I CCTAGG 1 cut(s) 749
AspLEI GCGC 1 cut(s) 278
AspS9I GGNCC 1 cut(s) 119
AsuHPI GGTGA 4 cut(s) 67, 702, 717, 781
AvaII GGWCC 1 cut(s) 119
AvrII CCTAGG 1 cut(s) 749
BamHI GGATCC 1 cut(s) 85
BanII GRGCYC 1 cut(s) 142
BarI GAAGNNNNNNTAC 2 cut(s) 644, 676
BauI CACGAG 1 cut(s) 385
Bbv12I GWGCWC 1 cut(s) 142
BbvI GCAGC 2 cut(s) 370, 564
BccI CCATC 4 cut(s) 158, 388, 457, 551
BcoDI GTCTC 2 cut(s) 54, 428
BfaI CTAG 3 cut(s) 152, 522, 750
BfmI CTRYAG 1 cut(s) 356
BfoI RGCGCY 1 cut(s) 279
BfrI CTTAAG 1 cut(s) 692
BfuAI ACCTGC 1 cut(s) 237
BisI GCNGC 2 cut(s) 359, 578
BlnI CCTAGG 1 cut(s) 749
BlsI GCNGC 2 cut(s) 360, 579
Bme18I GGWCC 1 cut(s) 119
BmgT120I GGNCC 1 cut(s) 119
BmiI GGNNCC 1 cut(s) 87
BmsI GCATC 1 cut(s) 604
BpmI CTGGAG 1 cut(s) 34
Bpu10I CCTNAGC 1 cut(s) 48
BpuEI CTTGAG 2 cut(s) 280, 725
BsaAI YACGTR 1 cut(s) 224
BsaBI GATNNNNATC 1 cut(s) 332
BsaI GGTCTC 1 cut(s) 54
BsaJI CCNNGG 2 cut(s) 122, 749
BsaWI WCCGGW 1 cut(s) 142
Bsc4I CCNNNNNNNGG 4 cut(s) 164, 343, 455, 527
Bse118I RCCGGY 1 cut(s) 727
Bse1I ACTGG 1 cut(s) 442
Bse8I GATNNNNATC 1 cut(s) 332
BseDI CCNNGG 2 cut(s) 122, 749
BseGI GGATG 2 cut(s) 190, 619
BseJI GATNNNNATC 1 cut(s) 332
BseLI CCNNNNNNNGG 4 cut(s) 164, 343, 455, 527
BseMII CTCAG 1 cut(s) 62
BseNI ACTGG 1 cut(s) 442
BseRI GAGGAG 1 cut(s) 773
BseXI GCAGC 2 cut(s) 370, 564
BseYI CCCAGC 1 cut(s) 673
BsgI GTGCAG 1 cut(s) 314
Bsh1285I CGRYCG 1 cut(s) 147
BsiEI CGRYCG 1 cut(s) 147
BsiHKAI GWGCWC 1 cut(s) 142
BsiSI CCGG 2 cut(s) 143, 728
BslFI GGGAC 1 cut(s) 690
BslI CCNNNNNNNGG 4 cut(s) 164, 343, 455, 527
BsmAI GTCTC 2 cut(s) 54, 428
BsmFI GGGAC 1 cut(s) 690
Bso31I GGTCTC 1 cut(s) 54
Bsp1286I GDGCHC 1 cut(s) 142
Bsp143I GATC 6 cut(s) 85, 105, 177, 213, 250, 333
BspACI CCGC 1 cut(s) 191
BspCNI CTCAG 1 cut(s) 61
BspLI GGNNCC 1 cut(s) 87
BspMAI CTGCAG 1 cut(s) 360
BspMI ACCTGC 1 cut(s) 237
BspPI GGATC 5 cut(s) 80, 93, 100, 221, 328
BspTI CTTAAG 1 cut(s) 692
BspTNI GGTCTC 1 cut(s) 54
BsrBI CCGCTC 1 cut(s) 193
BsrFI RCCGGY 1 cut(s) 727
BsrI ACTGG 1 cut(s) 442
BssAI RCCGGY 1 cut(s) 727
BssECI CCNNGG 2 cut(s) 122, 749
BssMI GATC 6 cut(s) 85, 105, 177, 213, 250, 333
BssSI CACGAG 1 cut(s) 385
BssT1I CCWWGG 2 cut(s) 122, 749
Bst2BI CACGAG 1 cut(s) 385
Bst4CI ACNGT 2 cut(s) 159, 783
Bst6I CTCTTC 1 cut(s) 662
BstAFI CTTAAG 1 cut(s) 692
BstAPI GCANNNNNTGC 2 cut(s) 364, 475
BstBAI YACGTR 1 cut(s) 224
BstC8I GCNNGC 1 cut(s) 705
BstDEI CTNAG 2 cut(s) 48, 589
BstF5I GGATG 2 cut(s) 190, 619
BstH2I RGCGCY 1 cut(s) 279
BstHHI GCGC 1 cut(s) 278
BstKTI GATC 6 cut(s) 88, 108, 180, 216, 253, 336
BstMAI GTCTC 2 cut(s) 54, 428
BstMBI GATC 6 cut(s) 85, 105, 177, 213, 250, 333
BstMCI CGRYCG 1 cut(s) 147
BstMWI GCNNNNNNNGC 4 cut(s) 364, 475, 679, 688
BstNSI RCATGY 2 cut(s) 10, 707
BstSFI CTRYAG 1 cut(s) 356
BstV1I GCAGC 2 cut(s) 370, 564
BstX2I RGATCY 3 cut(s) 85, 105, 333
BstYI RGATCY 3 cut(s) 85, 105, 333
BtsCI GGATG 2 cut(s) 190, 619
BtsI GCAGTG 1 cut(s) 42
BtsIMutI CAGTG 1 cut(s) 42
BveI ACCTGC 1 cut(s) 237
Cac8I GCNNGC 1 cut(s) 705
CfoI GCGC 1 cut(s) 278
Cfr10I RCCGGY 1 cut(s) 727
Cfr13I GGNCC 1 cut(s) 119
CseI GACGC 1 cut(s) 524
Csp6I GTAC 1 cut(s) 221
CviAII CATG 4 cut(s) 7, 21, 56, 704
CviQI GTAC 1 cut(s) 221
DdeI CTNAG 2 cut(s) 48, 589
DpnI GATC 6 cut(s) 87, 107, 179, 215, 252, 335
DpnII GATC 6 cut(s) 85, 105, 177, 213, 250, 333
Eam1104I CTCTTC 1 cut(s) 662
EarI CTCTTC 1 cut(s) 662
Ecl136II GAGCTC 1 cut(s) 140
Eco130I CCWWGG 2 cut(s) 122, 749
Eco24I GRGCYC 1 cut(s) 142
Eco31I GGTCTC 1 cut(s) 54
Eco47I GGWCC 1 cut(s) 119
Eco47III AGCGCT 1 cut(s) 277
Eco53kI GAGCTC 1 cut(s) 140
Eco57I CTGAAG 1 cut(s) 438
EcoICRI GAGCTC 1 cut(s) 140
EcoT14I CCWWGG 2 cut(s) 122, 749
EcoT38I GRGCYC 1 cut(s) 142
ErhI CCWWGG 2 cut(s) 122, 749
FaeI CATG 4 cut(s) 10, 24, 59, 707
FaqI GGGAC 1 cut(s) 690
FatI CATG 4 cut(s) 6, 20, 55, 703
Fnu4HI GCNGC 2 cut(s) 359, 578
FokI GGATG 2 cut(s) 197, 626
FriOI GRGCYC 1 cut(s) 142
Fsp4HI GCNGC 2 cut(s) 359, 578
FspBI CTAG 3 cut(s) 152, 522, 750
GlaI GCGC 1 cut(s) 277
GluI GCNGC 2 cut(s) 359, 578
GsaI CCCAGC 1 cut(s) 677
GsuI CTGGAG 1 cut(s) 34
HaeII RGCGCY 1 cut(s) 279
HapII CCGG 2 cut(s) 143, 728
HgaI GACGC 1 cut(s) 524
HhaI GCGC 1 cut(s) 278
Hin1II CATG 4 cut(s) 10, 24, 59, 707
Hin6I GCGC 1 cut(s) 276
HinP1I GCGC 1 cut(s) 276
HincII GTYRAC 2 cut(s) 349, 402
HindII GTYRAC 2 cut(s) 349, 402
HinfI GANTC 2 cut(s) 328, 745
HpaII CCGG 2 cut(s) 143, 728
HphI GGTGA 4 cut(s) 67, 702, 717, 781
Hpy166II GTNNAC 4 cut(s) 75, 349, 402, 661
Hpy188I TCNGA 3 cut(s) 333, 338, 374
Hpy188III TCNNGA 5 cut(s) 13, 50, 385, 421, 742
Hpy8I GTNNAC 4 cut(s) 75, 349, 402, 661
Hpy99I CGWCG 2 cut(s) 378, 540
HpyAV CCTTC 8 cut(s) 119, 258, 292, 314, 318, 362, 646, 748
HpyCH4III ACNGT 2 cut(s) 159, 783
HpyCH4IV ACGT 2 cut(s) 223, 544
HpyCH4V TGCA 4 cut(s) 20, 295, 358, 703
HpyF10VI GCNNNNNNNGC 4 cut(s) 364, 475, 679, 688
HpyF3I CTNAG 2 cut(s) 48, 589
HpySE526I ACGT 2 cut(s) 223, 544
Hsp92II CATG 4 cut(s) 10, 24, 59, 707
HspAI GCGC 1 cut(s) 276
Kzo9I GATC 6 cut(s) 85, 105, 177, 213, 250, 333
LmnI GCTCC 2 cut(s) 145, 688
Lsp1109I GCAGC 2 cut(s) 370, 564
LweI GCATC 1 cut(s) 604
MaeI CTAG 3 cut(s) 152, 522, 750
MaeII ACGT 2 cut(s) 223, 544
MaeIII GTNAC 2 cut(s) 224, 723
MalI GATC 6 cut(s) 87, 107, 179, 215, 252, 335
MbiI CCGCTC 1 cut(s) 193
MboI GATC 6 cut(s) 85, 105, 177, 213, 250, 333
MboII GAAGA 5 cut(s) 329, 444, 566, 679, 730
MflI RGATCY 3 cut(s) 85, 105, 333
MhlI GDGCHC 1 cut(s) 142
MluCI AATT 3 cut(s) 311, 490, 764
MlyI GAGTC 1 cut(s) 739
MmeI TCCRAC 2 cut(s) 113, 397
MnlI CCTC 9 cut(s) 18, 337, 381, 415, 493, 505, 544, 663, 751
MseI TTAA 2 cut(s) 444, 693
MslI CAYNNNNRTG 1 cut(s) 612
MspCI CTTAAG 1 cut(s) 692
MspI CCGG 2 cut(s) 143, 728
MwoI GCNNNNNNNGC 4 cut(s) 364, 475, 679, 688
NdeII GATC 6 cut(s) 85, 105, 177, 213, 250, 333
NlaIII CATG 4 cut(s) 10, 24, 59, 707
NlaIV GGNNCC 1 cut(s) 87
NmuCI GTSAC 2 cut(s) 224, 723
NspI RCATGY 2 cut(s) 10, 707
PaeI GCATGC 1 cut(s) 707
PfeI GAWTC 1 cut(s) 328
PkrI GCNGC 2 cut(s) 360, 579
PleI GAGTC 1 cut(s) 739
PpsI GAGTC 1 cut(s) 739
Ppu21I YACGTR 1 cut(s) 224
Psp124BI GAGCTC 1 cut(s) 142
PspFI CCCAGC 1 cut(s) 673
PspN4I GGNNCC 1 cut(s) 87
PspPI GGNCC 1 cut(s) 119
PstI CTGCAG 1 cut(s) 360
PsuI RGATCY 3 cut(s) 85, 105, 333
RsaI GTAC 1 cut(s) 222
RsaNI GTAC 1 cut(s) 221
RseI CAYNNNNRTG 1 cut(s) 612
SacI GAGCTC 1 cut(s) 142
SaqAI TTAA 2 cut(s) 444, 693
SatI GCNGC 2 cut(s) 359, 578
Sau3AI GATC 6 cut(s) 85, 105, 177, 213, 250, 333
Sau96I GGNCC 1 cut(s) 119
SchI GAGTC 1 cut(s) 739
SduI GDGCHC 1 cut(s) 142
SfaNI GCATC 1 cut(s) 604
SfcI CTRYAG 1 cut(s) 356
SinI GGWCC 1 cut(s) 119
SmiMI CAYNNNNRTG 1 cut(s) 612
SmlI CTYRAG 3 cut(s) 259, 692, 740
SmoI CTYRAG 3 cut(s) 259, 692, 740
SphI GCATGC 1 cut(s) 707
Sse9I AATT 3 cut(s) 311, 490, 764
SsiI CCGC 1 cut(s) 191
SspMI CTAG 3 cut(s) 152, 522, 750
SstI GAGCTC 1 cut(s) 142
StyI CCWWGG 2 cut(s) 122, 749
TaaI ACNGT 2 cut(s) 159, 783
TaiI ACGT 2 cut(s) 226, 547
TaqI TCGA 2 cut(s) 112, 538
TaqII GACCGA 1 cut(s) 111
TasI AATT 3 cut(s) 311, 490, 764
TfiI GAWTC 1 cut(s) 328
Tru1I TTAA 2 cut(s) 444, 693
Tru9I TTAA 2 cut(s) 444, 693
TscAI CASTG 1 cut(s) 49
TseFI GTSAC 2 cut(s) 224, 723
TseI GCWGC 2 cut(s) 358, 577
Tsp45I GTSAC 2 cut(s) 224, 723
TspDTI ATGAA 2 cut(s) 233, 731
TspGWI ACGGA 2 cut(s) 98, 391
TspRI CASTG 1 cut(s) 49
Vha464I CTTAAG 1 cut(s) 692
VpaK11BI GGWCC 1 cut(s) 119
XapI RAATTY 1 cut(s) 311
XceI RCATGY 2 cut(s) 10, 707
XmaJI CCTAGG 1 cut(s) 749
XspI CTAG 3 cut(s) 152, 522, 750
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.