Rmu_sc0003742.1_g000012

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003742.1
OG0000336
Physical Location & Seq
Reverse (-)
29501 .. 36483
6983 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003742.1_g000012.1.cds

Sequence Viewer

Length: 1122 bp
atggtgtacagatctcaaaacgacttcaataaggatgaaatttggaattcagatagaagagctgatctgcacaagaatgagcgtgctgctgtgctgcaggggcagcaggcgtgcgacgatgctgcaggggcagtaggaggcacacaggtgctcaagggctacatgagcagtttaaatggccgctacaccattcaagaacatgaggatcggtttttgtttaccttgtcaaacccaattgatagtaatcagattctccagggtggtctgtggggtacttttgatagggtttcgattgtcctggcaccatatgatggggttggagcgatcaaggatatcccacttaccaccctagctttatggatcaaggtacgtggattgccgccagatttccacactgattgtggtcttcgaaggattggcagcgcaatgggtcattatgttcaaaatgacacaacggagttcaatgtagggagaatccgaatccgagttgaaatggatctgctgcaacctatcatctttcggcgtagttttacgatggaagacgatattgatgtggatttggaattttttttttttgagaatctgtatgcacgactaaatctggagcttgctctaaaccaggtggacgtgacaccagatgctagaccgatgttggtatttggggcacaaactactttccttgtcggtttggagaaatttttgttggctgctaagcttaacgtgagtaaggagatacgccggcggttttttgctggtggtggaaagagtagctttggtgtgcagacagaattgaatactgatgggttggagagtgtgacttctcctagttgtggaatgcgccggaagtgcatagagaaggatgagatttctctaaataatatgagattgagcttggcaattagaagaactaatctggatgccatgacaatgggttcttattgtggtggctcaacaatttcagacataagcaagtcctctagatctgaacgctatgctcgaggcattgtggtggtacgtgttgggcaattctactgtaggtacctgaaccagttgagttcacaagcagttgcagccatagaactatactctgcttctgctgatgatcttgatactgtggcttga
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

373

Amino Acids

41.7

Weight (kDa)

5.73

Isoelectric Point (pI)

44.12

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)
Acc65I GGTACC 1 cut(s) 1038
AccB1I GGYRCC 2 cut(s) 301, 1038
AccB7I CCANNNNNTGG 1 cut(s) 311
AciI CCGC 3 cut(s) 181, 380, 742
AclWI GGATC 3 cut(s) 213, 368, 504
AcoI YGGCCR 1 cut(s) 178
AcsI RAATTY 4 cut(s) 39, 46, 563, 695
AfaI GTAC 5 cut(s) 8, 274, 369, 1014, 1040
AfiI CCNNNNNNNGG 2 cut(s) 311, 830
AflIII ACRYGT 1 cut(s) 1015
AgsI TTSAA 6 cut(s) 28, 194, 443, 463, 491, 793
AjiI CACGTC 1 cut(s) 628
AjnI CCWGG 3 cut(s) 255, 297, 618
AjuI GAANNNNNNNTTGG 2 cut(s) 686, 718
AleI CACNNNNGTG 1 cut(s) 146
AluBI AGCT 6 cut(s) 62, 353, 607, 715, 771, 891
AluI AGCT 6 cut(s) 62, 353, 607, 715, 771, 891
Alw21I GWGCWC 1 cut(s) 153
AlwI GGATC 3 cut(s) 213, 368, 504
Ama87I CYCGRG 1 cut(s) 996
AoxI GGCC 1 cut(s) 178
ApeKI GCWGC 8 cut(s) 86, 94, 103, 122, 420, 502, 707, 1070
ApoI RAATTY 4 cut(s) 39, 46, 563, 695
Asp718I GGTACC 1 cut(s) 1038
AspLEI GCGC 2 cut(s) 425, 840
AsuII TTCGAA 1 cut(s) 409
AvaI CYCGRG 1 cut(s) 996
BaeGI GKGCMC 1 cut(s) 667
BanI GGYRCC 2 cut(s) 301, 1038
BbsI GAAGAC 2 cut(s) 398, 546
Bbv12I GWGCWC 1 cut(s) 153
BbvI GCAGC 8 cut(s) 73, 81, 109, 115, 432, 489, 694, 1082
BccI CCATC 3 cut(s) 305, 529, 794
BcgI CGANNNNNNTGC 2 cut(s) 104, 138
BciT130I CCWGG 3 cut(s) 257, 299, 620
BfaI CTAG 4 cut(s) 350, 642, 825, 978
BfmI CTRYAG 3 cut(s) 95, 123, 1033
BglII AGATCT 2 cut(s) 11, 980
BlpI GCTNAGC 1 cut(s) 711
Bme1390I CCNGG 3 cut(s) 257, 299, 620
BmeT110I CYCGRG 1 cut(s) 996
BmgBI CACGTC 1 cut(s) 628
BmiI GGNNCC 2 cut(s) 303, 1040
BmrFI CCNGG 3 cut(s) 257, 299, 620
BmsI GCATC 3 cut(s) 109, 628, 907
BpiI GAAGAC 2 cut(s) 398, 546
BpmI CTGGAG 2 cut(s) 239, 623
Bpu1102I GCTNAGC 1 cut(s) 711
Bpu14I TTCGAA 1 cut(s) 409
BpuEI CTTGAG 1 cut(s) 137
BsaAI YACGTR 2 cut(s) 371, 1016
BsaBI GATNNNNATC 1 cut(s) 243
BsaJI CCNNGG 1 cut(s) 256
Bsc4I CCNNNNNNNGG 2 cut(s) 311, 830
Bse118I RCCGGY 1 cut(s) 738
Bse1I ACTGG 1 cut(s) 1048
Bse3DI GCAATG 1 cut(s) 432
Bse8I GATNNNNATC 1 cut(s) 243
BseBI CCWGG 3 cut(s) 257, 299, 620
BseDI CCNNGG 1 cut(s) 256
BseGI GGATG 3 cut(s) 40, 865, 922
BseJI GATNNNNATC 1 cut(s) 243
BseLI CCNNNNNNNGG 2 cut(s) 311, 830
BseMI GCAATG 1 cut(s) 432
BseNI ACTGG 1 cut(s) 1048
BseSI GKGCMC 1 cut(s) 667
BseXI GCAGC 8 cut(s) 73, 81, 109, 115, 432, 489, 694, 1082
BsgI GTGCAG 2 cut(s) 53, 800
BshFI GGCC 1 cut(s) 180
BshNI GGYRCC 2 cut(s) 301, 1038
BsiHKAI GWGCWC 1 cut(s) 153
BsiHKCI CYCGRG 1 cut(s) 996
BsiSI CCGG 2 cut(s) 739, 841
BslI CCNNNNNNNGG 2 cut(s) 311, 830
BsmI GAATGC 1 cut(s) 840
BsnI GGCC 1 cut(s) 180
BsoBI CYCGRG 1 cut(s) 996
Bsp119I TTCGAA 1 cut(s) 409
Bsp1286I GDGCHC 2 cut(s) 153, 667
Bsp1407I TGTACA 1 cut(s) 6
Bsp143I GATC 8 cut(s) 11, 64, 205, 324, 360, 496, 980, 1102
Bsp1720I GCTNAGC 1 cut(s) 711
BspACI CCGC 3 cut(s) 181, 380, 742
BspANI GGCC 1 cut(s) 180
BspLI GGNNCC 2 cut(s) 303, 1040
BspMAI CTGCAG 2 cut(s) 99, 127
BspPI GGATC 3 cut(s) 213, 368, 504
BspQI GCTCTTC 1 cut(s) 52
BspT104I TTCGAA 1 cut(s) 409
BspT107I GGYRCC 2 cut(s) 301, 1038
BsrDI GCAATG 1 cut(s) 432
BsrFI RCCGGY 1 cut(s) 738
BsrGI TGTACA 1 cut(s) 6
BsrI ACTGG 1 cut(s) 1048
BssAI RCCGGY 1 cut(s) 738
BssECI CCNNGG 1 cut(s) 256
BssMI GATC 8 cut(s) 11, 64, 205, 324, 360, 496, 980, 1102
Bst2UI CCWGG 3 cut(s) 257, 299, 620
Bst4CI ACNGT 2 cut(s) 1034, 1114
Bst6I CTCTTC 1 cut(s) 52
BstAUI TGTACA 1 cut(s) 6
BstBAI YACGTR 2 cut(s) 371, 1016
BstBI TTCGAA 1 cut(s) 409
BstC8I GCNNGC 5 cut(s) 84, 108, 112, 609, 740
BstDEI CTNAG 1 cut(s) 711
BstF5I GGATG 3 cut(s) 40, 865, 922
BstHHI GCGC 2 cut(s) 425, 840
BstKTI GATC 8 cut(s) 14, 67, 208, 327, 363, 499, 983, 1105
BstMBI GATC 8 cut(s) 11, 64, 205, 324, 360, 496, 980, 1102
BstMWI GCNNNNNNNGC 6 cut(s) 100, 103, 128, 165, 846, 1070
BstNI CCWGG 3 cut(s) 257, 299, 620
BstSCI CCNGG 3 cut(s) 255, 297, 618
BstSFI CTRYAG 3 cut(s) 95, 123, 1033
BstSLI GKGCMC 1 cut(s) 667
BstV1I GCAGC 8 cut(s) 73, 81, 109, 115, 432, 489, 694, 1082
BstV2I GAAGAC 2 cut(s) 398, 546
BstX2I RGATCY 3 cut(s) 11, 496, 980
BstXI CCANNNNNNTGG 1 cut(s) 928
BstYI RGATCY 3 cut(s) 11, 496, 980
BsuRI GGCC 1 cut(s) 180
BtrI CACGTC 1 cut(s) 628
BtsCI GGATG 3 cut(s) 40, 865, 922
BtsIMutI CAGTG 1 cut(s) 393
Cac8I GCNNGC 5 cut(s) 84, 108, 112, 609, 740
CfoI GCGC 2 cut(s) 425, 840
Cfr10I RCCGGY 1 cut(s) 738
CsiI ACCWGGT 1 cut(s) 618
Csp6I GTAC 5 cut(s) 7, 273, 368, 1013, 1039
CspCI CAANNNNNGTGG 4 cut(s) 352, 380, 387, 415
CviAII CATG 3 cut(s) 163, 200, 922
CviQI GTAC 5 cut(s) 7, 273, 368, 1013, 1039
DdeI CTNAG 1 cut(s) 711
DpnI GATC 8 cut(s) 13, 66, 207, 326, 362, 498, 982, 1104
DpnII GATC 8 cut(s) 11, 64, 205, 324, 360, 496, 980, 1102
DraI TTTAAA 1 cut(s) 174
EaeI YGGCCR 1 cut(s) 178
Eam1104I CTCTTC 1 cut(s) 52
EarI CTCTTC 1 cut(s) 52
Eco32I GATATC 1 cut(s) 334
Eco88I CYCGRG 1 cut(s) 996
EcoRI GAATTC 1 cut(s) 46
EcoRII CCWGG 3 cut(s) 255, 297, 618
EcoRV GATATC 1 cut(s) 334
FaeI CATG 3 cut(s) 166, 203, 925
FalI AAGNNNNNCTT 2 cut(s) 755, 787
FatI CATG 3 cut(s) 162, 199, 921
FauNDI CATATG 1 cut(s) 307
FokI GGATG 3 cut(s) 47, 872, 929
FspBI CTAG 4 cut(s) 350, 642, 825, 978
GlaI GCGC 2 cut(s) 424, 839
GsuI CTGGAG 2 cut(s) 239, 623
HaeIII GGCC 1 cut(s) 180
HapII CCGG 2 cut(s) 739, 841
HhaI GCGC 2 cut(s) 425, 840
Hin1II CATG 3 cut(s) 166, 203, 925
Hin6I GCGC 2 cut(s) 423, 838
HinP1I GCGC 2 cut(s) 423, 838
HindIII AAGCTT 1 cut(s) 713
HinfI GANTC 4 cut(s) 250, 474, 480, 580
HpaII CCGG 2 cut(s) 739, 841
Hpy166II GTNNAC 4 cut(s) 7, 219, 625, 1058
Hpy188I TCNGA 6 cut(s) 52, 249, 479, 485, 961, 985
Hpy188III TCNNGA 5 cut(s) 194, 602, 914, 978, 1106
Hpy8I GTNNAC 4 cut(s) 7, 219, 625, 1058
Hpy99I CGWCG 1 cut(s) 119
HpyAV CCTTC 2 cut(s) 405, 850
HpyCH4III ACNGT 2 cut(s) 1034, 1114
HpyCH4IV ACGT 4 cut(s) 370, 627, 720, 1015
HpyCH4V TGCA 8 cut(s) 70, 97, 125, 505, 590, 781, 849, 1070
HpyF10VI GCNNNNNNNGC 6 cut(s) 100, 103, 128, 165, 846, 1070
HpyF3I CTNAG 1 cut(s) 711
HpySE526I ACGT 4 cut(s) 370, 627, 720, 1015
Hsp92II CATG 3 cut(s) 166, 203, 925
HspAI GCGC 2 cut(s) 423, 838
KpnI GGTACC 1 cut(s) 1042
KroI GCCGGC 1 cut(s) 738
KroNI GCCGGC 1 cut(s) 740
Kzo9I GATC 8 cut(s) 11, 64, 205, 324, 360, 496, 980, 1102
LguI GCTCTTC 1 cut(s) 52
LmnI GCTCC 2 cut(s) 320, 604
Lsp1109I GCAGC 8 cut(s) 73, 81, 109, 115, 432, 489, 694, 1082
LweI GCATC 3 cut(s) 109, 628, 907
MabI ACCWGGT 1 cut(s) 618
MaeI CTAG 4 cut(s) 350, 642, 825, 978
MaeII ACGT 4 cut(s) 370, 627, 720, 1015
MaeIII GTNAC 2 cut(s) 628, 814
MalI GATC 8 cut(s) 13, 66, 207, 326, 362, 498, 982, 1104
MboI GATC 8 cut(s) 11, 64, 205, 324, 360, 496, 980, 1102
MboII GAAGA 4 cut(s) 69, 398, 551, 915
MfeI CAATTG 1 cut(s) 234
MflI RGATCY 3 cut(s) 11, 496, 980
MhlI GDGCHC 2 cut(s) 153, 667
MluCI AATT 9 cut(s) 39, 46, 234, 563, 695, 788, 897, 954, 1025
MmeI TCCRAC 2 cut(s) 298, 786
MnlI CCTC 4 cut(s) 131, 196, 985, 992
MreI CGCCGGCG 1 cut(s) 738
MroNI GCCGGC 1 cut(s) 738
MseI TTAA 2 cut(s) 173, 717
MslI CAYNNNNRTG 4 cut(s) 75, 146, 926, 1007
MspI CCGG 2 cut(s) 739, 841
MspR9I CCNGG 3 cut(s) 257, 299, 620
MunI CAATTG 1 cut(s) 234
Mva1269I GAATGC 1 cut(s) 840
MvaI CCWGG 3 cut(s) 257, 299, 620
MwoI GCNNNNNNNGC 6 cut(s) 100, 103, 128, 165, 846, 1070
NaeI GCCGGC 1 cut(s) 740
NdeI CATATG 1 cut(s) 307
NdeII GATC 8 cut(s) 11, 64, 205, 324, 360, 496, 980, 1102
NgoMIV GCCGGC 1 cut(s) 738
NlaIII CATG 3 cut(s) 166, 203, 925
NlaIV GGNNCC 2 cut(s) 303, 1040
NmuCI GTSAC 2 cut(s) 628, 814
NspV TTCGAA 1 cut(s) 409
OliI CACNNNNGTG 1 cut(s) 146
PaeR7I CTCGAG 1 cut(s) 996
PciSI GCTCTTC 1 cut(s) 52
PcsI WCGNNNNNNNCGW 1 cut(s) 994
PctI GAATGC 1 cut(s) 840
PdiI GCCGGC 1 cut(s) 740
PfeI GAWTC 4 cut(s) 250, 474, 480, 580
PflMI CCANNNNNTGG 1 cut(s) 311
Ppu21I YACGTR 2 cut(s) 371, 1016
Psp6I CCWGG 3 cut(s) 255, 297, 618
PspGI CCWGG 3 cut(s) 255, 297, 618
PspN4I GGNNCC 2 cut(s) 303, 1040
PspXI VCTCGAGB 1 cut(s) 996
PstI CTGCAG 2 cut(s) 99, 127
PsuI RGATCY 3 cut(s) 11, 496, 980
RsaI GTAC 5 cut(s) 8, 274, 369, 1014, 1040
RsaNI GTAC 5 cut(s) 7, 273, 368, 1013, 1039
RseI CAYNNNNRTG 4 cut(s) 75, 146, 926, 1007
SapI GCTCTTC 1 cut(s) 52
SaqAI TTAA 2 cut(s) 173, 717
Sau3AI GATC 8 cut(s) 11, 64, 205, 324, 360, 496, 980, 1102
ScrFI CCNGG 3 cut(s) 257, 299, 620
SduI GDGCHC 2 cut(s) 153, 667
SexAI ACCWGGT 1 cut(s) 618
SfaNI GCATC 3 cut(s) 109, 628, 907
SfcI CTRYAG 3 cut(s) 95, 123, 1033
Sfr274I CTCGAG 1 cut(s) 996
SfuI TTCGAA 1 cut(s) 409
SgrAI CRCCGGYG 1 cut(s) 738
SlaI CTCGAG 1 cut(s) 996
SmiMI CAYNNNNRTG 4 cut(s) 75, 146, 926, 1007
SmlI CTYRAG 2 cut(s) 152, 996
SmoI CTYRAG 2 cut(s) 152, 996
Sse9I AATT 9 cut(s) 39, 46, 234, 563, 695, 788, 897, 954, 1025
SsiI CCGC 3 cut(s) 181, 380, 742
SspMI CTAG 4 cut(s) 350, 642, 825, 978
StyD4I CCNGG 3 cut(s) 255, 297, 618
TaaI ACNGT 2 cut(s) 1034, 1114
TaiI ACGT 4 cut(s) 373, 630, 723, 1018
TaqI TCGA 3 cut(s) 290, 409, 997
TaqII GACCGA 1 cut(s) 661
TasI AATT 9 cut(s) 39, 46, 234, 563, 695, 788, 897, 954, 1025
TatI WGTACW 1 cut(s) 6
TauI GCSGC 2 cut(s) 183, 382
TfiI GAWTC 4 cut(s) 250, 474, 480, 580
Tru1I TTAA 2 cut(s) 173, 717
Tru9I TTAA 2 cut(s) 173, 717
TscAI CASTG 1 cut(s) 400
TseFI GTSAC 2 cut(s) 628, 814
TseI GCWGC 8 cut(s) 86, 94, 103, 122, 420, 502, 707, 1070
Tsp45I GTSAC 2 cut(s) 628, 814
TspDTI ATGAA 1 cut(s) 51
TspGWI ACGGA 1 cut(s) 470
TspRI CASTG 1 cut(s) 400
Van91I CCANNNNNTGG 1 cut(s) 311
XapI RAATTY 4 cut(s) 39, 46, 563, 695
XbaI TCTAGA 1 cut(s) 977
XcmI CCANNNNNNNNNTGG 1 cut(s) 398
XhoI CTCGAG 1 cut(s) 996
XspI CTAG 4 cut(s) 350, 642, 825, 978
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.