Rmu_sc0000580.1_g000123

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0000580.1
OG0000619
Physical Location & Seq
Reverse (-)
507093 .. 511034
3942 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0000580.1_g000123.1.cds

Sequence Viewer

Length: 1200 bp
atggatgaacacgagatcggggtcggcgatgttatggaggttgatacggcggtttttcatgggatagtggaggatcaacgattagctaaacagaggagaatggaggtgcagggtggccggaagttgtctccggtggtggcggagaatacggggagtgagttgcaggatttgccttccaaggaggtgaacgtgagtatttctaatttgaatttaaaacagcgggagtctgatgcactttttttggaagcaggcttgggggagactaggttggatgtagaatccttggttgttgggcccatgcaggataaacgggctgatgttgatctctctcctactgtggtccatgcacacgggattgatatggataaggggcaaaagaagaatggtaagggggtaagccgggctgggggtttgtgtctactttggaatgatgacactccaatctcgttacaaagctattctgataaccatgtgggtgttaccatggggaagccttcggatccgaaaaagtggagatttacaggtatttatgggcatccaaaagtggaggaccgccacaaaacttggttactaatcaaaaccctcgggtttcagtgttctttaccgtgggttttaggtggagactttaatgaaatattacggaatgatgagaaggagggaggtaatctaaggtgtgatcggcaaatgtatggttttcaagacattgttgagttgttttctttaaaggatattgtttttcatgggagttgttttacctggagagggaaacgtggaggggaggagataaggataaggttggatcgttttttagcctccaaaagttggactgatcttttccctatttctagggttgttcaccaacttcctaataaatcggatcatctacctattgttttggaggcacgtgtttgtagacctaggaagaaacagaagaagaagaagaagaaaaagttgtttcgttttgaggagttatggctcggagatgaggagtgcagtcaattggtagagttggggtggcgacatgatagtggaactgattccttcaaaattgtttgtaacaagattaagcaaacctggctgttgctcattgagtggagtgaaaccaaatttggggctttgcgcagggatattgttgctattagggagaaattgtcactattttatgattcttccctttcttctccccctgatgagatatga
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-RVT

Protein Analysis

399

Amino Acids

45.45

Weight (kDa)

7.63

Isoelectric Point (pI)

39.37

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
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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

Orthologous Genes (Group: OG0000619)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g29861 FvH4_3g26084 FvH4_3g32551 FvH4_4g08193 FvH4_4g12950 FvH4_6g29733
rosa_chinensis RchiOBHm_Chr3g0488921
rosa_multiflora Rmu_co8238041.1_g000001 Rmu_co8265215.1_g000001 Rmu_co8486357.1_g000002 Rmu_sc0000389.1_g000016 Rmu_sc0000580.1_g000123 Rmu_sc0000789.1_g000005 Rmu_sc0001043.1_g000006 Rmu_sc0001208.1_g000001 Rmu_sc0001323.1_g000011 Rmu_sc0001636.1_g000001 Rmu_sc0001911.1_g000023 Rmu_sc0001940.1_g000010 Rmu_sc0002531.1_g000047 Rmu_sc0002715.1_g000007 Rmu_sc0002833.1_g000024 Rmu_sc0003859.1_g000046 Rmu_sc0003894.1_g000008 Rmu_sc0004744.1_g000008 Rmu_sc0004924.1_g000016 Rmu_sc0004991.1_g000004 Rmu_sc0005149.1_g000010 Rmu_sc0005149.1_g000011 Rmu_sc0005489.1_g000007 Rmu_sc0005592.1_g000030 Rmu_sc0005813.1_g000010 Rmu_sc0005813.1_g000011 Rmu_sc0005861.1_g000009 Rmu_sc0005949.1_g000016 Rmu_sc0006824.1_g000021 Rmu_sc0007069.1_g000025 Rmu_sc0008002.1_g000008 Rmu_sc0008148.1_g000008 Rmu_sc0008280.1_g000001 Rmu_sc0008317.1_g000010 Rmu_sc0011615.1_g000002 Rmu_sc0013925.1_g000004 Rmu_sc0014130.1_g000003 Rmu_sc0014510.1_g000008 Rmu_sc0016640.1_g000001 Rmu_sc0018068.1_g000002 Rmu_sc0021371.1_g000006 Rmu_sc0028652.1_g000007 Rmu_sc0032187.1_g000002 Rmu_sc0034241.1_g000001 Rmu_ssc0000127.1_g000003
rosa_roxburghii Rroxscaffold_6G00403950
rosa_rugosa Rorug01G0081700 Rorug02G0544000 Rorug05G0089900 Rorug05G0284500 Rorug05G0452400 Rorug07G0003400 Rorug07G0003400 Rorug07G0129200 Rorug07G0210600
rosa_samantha Rh1AG193900 Rh1AG194000 Rh1DG063400 Rh1DG204700 Rh2AG364300 Rh3BG140200 Rh3CG366000 Rh4DG342600 Rh5AG347700 Rh5BG437300 Rh5CG459900 Rh5DG127400 Rh5DG412800 Rh6BG381500 Rh7CG520500 Rh7DG241900 Rh7DG336000

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 1121
AccB7I CCANNNNNTGG 1 cut(s) 822
AccI GTMKAC 2 cut(s) 418, 913
AciI CCGC 4 cut(s) 50, 140, 220, 553
AclWI GGATC 5 cut(s) 81, 494, 507, 807, 885
AcoI YGGCCR 1 cut(s) 115
AcsI RAATTY 2 cut(s) 208, 1106
AcvI CACGTG 1 cut(s) 905
AfiI CCNNNNNNNGG 4 cut(s) 406, 762, 822, 1110
AflIII ACRYGT 1 cut(s) 904
AgsI TTSAA 3 cut(s) 208, 698, 1045
AjnI CCWGG 2 cut(s) 755, 1073
AjuI GAANNNNNNNTTGG 2 cut(s) 1092, 1124
AluBI AGCT 2 cut(s) 86, 456
AluI AGCT 2 cut(s) 86, 456
Alw26I GTCTC 3 cut(s) 132, 254, 615
AlwI GGATC 5 cut(s) 81, 494, 507, 807, 885
Ama87I CYCGRG 1 cut(s) 584
AoxI GGCC 2 cut(s) 115, 293
ApaI GGGCCC 1 cut(s) 297
ApoI RAATTY 2 cut(s) 208, 1106
Asp700I GAANNNNTTC 1 cut(s) 1036
AspA2I CCTAGG 1 cut(s) 917
AspLEI GCGC 1 cut(s) 1122
AspS9I GGNCC 4 cut(s) 293, 294, 340, 550
AsuC2I CCSGG 1 cut(s) 401
AsuHPI GGTGA 2 cut(s) 196, 848
AvaI CYCGRG 1 cut(s) 584
AvaII GGWCC 2 cut(s) 340, 550
AvrII CCTAGG 1 cut(s) 917
BaeGI GKGCMC 1 cut(s) 297
BaeI ACNNNNGTAYC 2 cut(s) 36, 69
BamHI GGATCC 1 cut(s) 499
BanII GRGCYC 1 cut(s) 297
BauI CACGAG 1 cut(s) 11
BbrPI CACGTG 1 cut(s) 905
BceAI ACGGC 1 cut(s) 63
BciT130I CCWGG 2 cut(s) 757, 1075
BcnI CCSGG 1 cut(s) 401
BcoDI GTCTC 3 cut(s) 132, 254, 615
BfaI CTAG 3 cut(s) 264, 846, 918
BlnI CCTAGG 1 cut(s) 917
Bme1390I CCNGG 3 cut(s) 401, 757, 1075
Bme18I GGWCC 2 cut(s) 340, 550
BmeT110I CYCGRG 1 cut(s) 584
BmgT120I GGNCC 4 cut(s) 293, 294, 340, 550
BmiI GGNNCC 2 cut(s) 295, 501
BmrFI CCNGG 3 cut(s) 401, 757, 1075
BmsI GCATC 2 cut(s) 220, 544
BpmI CTGGAG 1 cut(s) 778
BpuMI CCSGG 1 cut(s) 401
BsaAI YACGTR 1 cut(s) 905
BsaBI GATNNNNATC 1 cut(s) 321
BsaJI CCNNGG 6 cut(s) 177, 282, 483, 583, 605, 917
BsaWI WCCGGW 1 cut(s) 130
BsaXI ACNNNNNCTCC 4 cut(s) 251, 281, 1136, 1166
Bsc4I CCNNNNNNNGG 4 cut(s) 406, 762, 822, 1110
Bse8I GATNNNNATC 1 cut(s) 321
BseBI CCWGG 2 cut(s) 757, 1075
BseDI CCNNGG 6 cut(s) 177, 282, 483, 583, 605, 917
BseGI GGATG 3 cut(s) 10, 277, 535
BseJI GATNNNNATC 1 cut(s) 321
BseLI CCNNNNNNNGG 4 cut(s) 406, 762, 822, 1110
BseRI GAGGAG 4 cut(s) 109, 794, 980, 1001
BseSI GKGCMC 1 cut(s) 297
BseYI CCCAGC 1 cut(s) 404
BsgI GTGCAG 2 cut(s) 128, 1012
BshFI GGCC 2 cut(s) 117, 295
BsiHKCI CYCGRG 1 cut(s) 584
BsiSI CCGG 3 cut(s) 118, 131, 400
BslI CCNNNNNNNGG 4 cut(s) 406, 762, 822, 1110
BsmAI GTCTC 3 cut(s) 132, 254, 615
BsnI GGCC 2 cut(s) 117, 295
BsoBI CYCGRG 1 cut(s) 584
Bsp120I GGGCCC 1 cut(s) 293
Bsp1286I GDGCHC 1 cut(s) 297
Bsp143I GATC 8 cut(s) 15, 73, 322, 499, 676, 799, 829, 877
Bsp19I CCATGG 1 cut(s) 483
BspACI CCGC 4 cut(s) 50, 140, 220, 553
BspANI GGCC 2 cut(s) 117, 295
BspLI GGNNCC 2 cut(s) 295, 501
BspPI GGATC 5 cut(s) 81, 494, 507, 807, 885
BssECI CCNNGG 6 cut(s) 177, 282, 483, 583, 605, 917
BssMI GATC 8 cut(s) 15, 73, 322, 499, 676, 799, 829, 877
BssSI CACGAG 1 cut(s) 11
BssT1I CCWWGG 4 cut(s) 177, 282, 483, 917
Bst2BI CACGAG 1 cut(s) 11
Bst2UI CCWGG 2 cut(s) 757, 1075
Bst4CI ACNGT 2 cut(s) 337, 606
BstAPI GCANNNNNTGC 1 cut(s) 169
BstBAI YACGTR 1 cut(s) 905
BstC8I GCNNGC 1 cut(s) 250
BstDEI CTNAG 1 cut(s) 668
BstDSI CCRYGG 2 cut(s) 483, 605
BstF5I GGATG 3 cut(s) 10, 277, 535
BstHHI GCGC 1 cut(s) 1122
BstKTI GATC 8 cut(s) 18, 76, 325, 502, 679, 802, 832, 880
BstMAI GTCTC 3 cut(s) 132, 254, 615
BstMBI GATC 8 cut(s) 15, 73, 322, 499, 676, 799, 829, 877
BstMWI GCNNNNNNNGC 2 cut(s) 169, 1075
BstNI CCWGG 2 cut(s) 757, 1075
BstSCI CCNGG 3 cut(s) 399, 755, 1073
BstSLI GKGCMC 1 cut(s) 297
BstX2I RGATCY 1 cut(s) 499
BstYI RGATCY 1 cut(s) 499
BsuRI GGCC 2 cut(s) 117, 295
BtgI CCRYGG 2 cut(s) 483, 605
BtgZI GCGATG 1 cut(s) 42
BtsCI GGATG 3 cut(s) 10, 277, 535
BtsIMutI CAGTG 1 cut(s) 599
Cac8I GCNNGC 1 cut(s) 250
CfoI GCGC 1 cut(s) 1122
Cfr13I GGNCC 4 cut(s) 293, 294, 340, 550
CspCI CAANNNNNGTGG 2 cut(s) 545, 580
CviAII CATG 7 cut(s) 59, 298, 344, 470, 484, 740, 1022
DdeI CTNAG 1 cut(s) 668
DpnI GATC 8 cut(s) 17, 75, 324, 501, 678, 801, 831, 879
DpnII GATC 8 cut(s) 15, 73, 322, 499, 676, 799, 829, 877
DraI TTTAAA 2 cut(s) 213, 723
EaeI YGGCCR 1 cut(s) 115
EciI GGCGGA 1 cut(s) 155
Eco130I CCWWGG 4 cut(s) 177, 282, 483, 917
Eco24I GRGCYC 1 cut(s) 297
Eco47I GGWCC 2 cut(s) 340, 550
Eco72I CACGTG 1 cut(s) 905
Eco88I CYCGRG 1 cut(s) 584
EcoRII CCWGG 2 cut(s) 755, 1073
EcoT14I CCWWGG 4 cut(s) 177, 282, 483, 917
EcoT38I GRGCYC 1 cut(s) 297
ErhI CCWWGG 4 cut(s) 177, 282, 483, 917
FaeI CATG 7 cut(s) 62, 301, 347, 473, 487, 743, 1025
FatI CATG 7 cut(s) 58, 297, 343, 469, 483, 739, 1021
FauI CCCGC 1 cut(s) 213
FblI GTMKAC 2 cut(s) 418, 913
FokI GGATG 3 cut(s) 17, 284, 522
FriOI GRGCYC 1 cut(s) 297
FspBI CTAG 3 cut(s) 264, 846, 918
FspI TGCGCA 1 cut(s) 1121
GlaI GCGC 1 cut(s) 1121
GsaI CCCAGC 1 cut(s) 408
GsuI CTGGAG 1 cut(s) 778
HaeIII GGCC 2 cut(s) 117, 295
HapII CCGG 3 cut(s) 118, 131, 400
HhaI GCGC 1 cut(s) 1122
Hin1II CATG 7 cut(s) 62, 301, 347, 473, 487, 743, 1025
Hin6I GCGC 1 cut(s) 1120
HinP1I GCGC 1 cut(s) 1120
HinfI GANTC 4 cut(s) 224, 278, 1037, 1166
HpaII CCGG 3 cut(s) 118, 131, 400
HphI GGTGA 2 cut(s) 196, 848
Hpy166II GTNNAC 4 cut(s) 187, 419, 856, 914
Hpy188I TCNGA 6 cut(s) 229, 463, 499, 504, 877, 980
Hpy188III TCNNGA 1 cut(s) 698
Hpy8I GTNNAC 4 cut(s) 187, 419, 856, 914
HpyAV CCTTC 4 cut(s) 183, 504, 646, 1051
HpyCH4III ACNGT 2 cut(s) 337, 606
HpyCH4IV ACGT 3 cut(s) 189, 769, 904
HpyCH4V TGCA 6 cut(s) 109, 163, 233, 301, 347, 993
HpyF10VI GCNNNNNNNGC 2 cut(s) 169, 1075
HpyF3I CTNAG 1 cut(s) 668
HpySE526I ACGT 3 cut(s) 189, 769, 904
Hsp92II CATG 7 cut(s) 62, 301, 347, 473, 487, 743, 1025
HspAI GCGC 1 cut(s) 1120
Kzo9I GATC 8 cut(s) 15, 73, 322, 499, 676, 799, 829, 877
LweI GCATC 2 cut(s) 220, 544
MaeI CTAG 3 cut(s) 264, 846, 918
MaeII ACGT 3 cut(s) 189, 769, 904
MaeIII GTNAC 5 cut(s) 447, 478, 567, 1055, 1152
MalI GATC 8 cut(s) 17, 75, 324, 501, 678, 801, 831, 879
MboI GATC 8 cut(s) 15, 73, 322, 499, 676, 799, 829, 877
MboII GAAGA 9 cut(s) 391, 934, 943, 946, 949, 952, 955, 1161, 1170
MfeI CAATTG 1 cut(s) 998
MflI RGATCY 1 cut(s) 499
MhlI GDGCHC 1 cut(s) 297
MluCI AATT 6 cut(s) 202, 208, 998, 1047, 1106, 1148
MlyI GAGTC 1 cut(s) 233
MmeI TCCRAC 3 cut(s) 249, 777, 803
MroXI GAANNNNTTC 1 cut(s) 1036
MseI TTAA 4 cut(s) 212, 627, 722, 1065
MslI CAYNNNNRTG 2 cut(s) 474, 1026
MspA1I CMGCKG 1 cut(s) 220
MspI CCGG 3 cut(s) 118, 131, 400
MspR9I CCNGG 3 cut(s) 401, 757, 1075
MunI CAATTG 1 cut(s) 998
MvaI CCWGG 2 cut(s) 757, 1075
MwoI GCNNNNNNNGC 2 cut(s) 169, 1075
NciI CCSGG 1 cut(s) 401
NcoI CCATGG 1 cut(s) 483
NdeII GATC 8 cut(s) 15, 73, 322, 499, 676, 799, 829, 877
NlaIII CATG 7 cut(s) 62, 301, 347, 473, 487, 743, 1025
NlaIV GGNNCC 2 cut(s) 295, 501
NmuCI GTSAC 1 cut(s) 1152
NsbI TGCGCA 1 cut(s) 1121
PcsI WCGNNNNNNNCGW 1 cut(s) 24
PdmI GAANNNNTTC 1 cut(s) 1036
PfeI GAWTC 3 cut(s) 278, 1037, 1166
PflMI CCANNNNNTGG 1 cut(s) 822
PleI GAGTC 1 cut(s) 232
PmaCI CACGTG 1 cut(s) 905
PmlI CACGTG 1 cut(s) 905
PpsI GAGTC 1 cut(s) 232
Ppu21I YACGTR 1 cut(s) 905
Psp6I CCWGG 2 cut(s) 755, 1073
PspCI CACGTG 1 cut(s) 905
PspFI CCCAGC 1 cut(s) 404
PspGI CCWGG 2 cut(s) 755, 1073
PspN4I GGNNCC 2 cut(s) 295, 501
PspOMI GGGCCC 1 cut(s) 293
PspPI GGNCC 4 cut(s) 293, 294, 340, 550
PsuI RGATCY 1 cut(s) 499
RseI CAYNNNNRTG 2 cut(s) 474, 1026
SaqAI TTAA 4 cut(s) 212, 627, 722, 1065
Sau3AI GATC 8 cut(s) 15, 73, 322, 499, 676, 799, 829, 877
Sau96I GGNCC 4 cut(s) 293, 294, 340, 550
SchI GAGTC 1 cut(s) 233
ScrFI CCNGG 3 cut(s) 401, 757, 1075
SduI GDGCHC 1 cut(s) 297
SfaNI GCATC 2 cut(s) 220, 544
SinI GGWCC 2 cut(s) 340, 550
SmiMI CAYNNNNRTG 2 cut(s) 474, 1026
Sse9I AATT 6 cut(s) 202, 208, 998, 1047, 1106, 1148
SsiI CCGC 4 cut(s) 50, 140, 220, 553
SspI AATATT 1 cut(s) 636
SspMI CTAG 3 cut(s) 264, 846, 918
StyD4I CCNGG 3 cut(s) 399, 755, 1073
StyI CCWWGG 4 cut(s) 177, 282, 483, 917
TaaI ACNGT 2 cut(s) 337, 606
TaiI ACGT 3 cut(s) 192, 772, 907
TasI AATT 6 cut(s) 202, 208, 998, 1047, 1106, 1148
TfiI GAWTC 3 cut(s) 278, 1037, 1166
Tru1I TTAA 4 cut(s) 212, 627, 722, 1065
Tru9I TTAA 4 cut(s) 212, 627, 722, 1065
TscAI CASTG 1 cut(s) 599
TseFI GTSAC 1 cut(s) 1152
Tsp45I GTSAC 1 cut(s) 1152
TspDTI ATGAA 4 cut(s) 21, 47, 645, 728
TspGWI ACGGA 1 cut(s) 655
TspRI CASTG 1 cut(s) 599
Van91I CCANNNNNTGG 1 cut(s) 822
VpaK11BI GGWCC 2 cut(s) 340, 550
XapI RAATTY 2 cut(s) 208, 1106
XmaJI CCTAGG 1 cut(s) 917
XmiI GTMKAC 2 cut(s) 418, 913
XmnI GAANNNNTTC 1 cut(s) 1036
XspI CTAG 3 cut(s) 264, 846, 918
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.