Rmu_sc0007129.1_g000017

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0007129.1
OG0000187
Physical Location & Seq
Reverse (-)
75125 .. 75544
420 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0007129.1_g000017.1.cds

Sequence Viewer

Length: 420 bp
atgagttccgttgatgccatggctgctaggcttgcatcttcgcttgctattgctgagggtaagaaacaggtggatctccggcctacacaaggccaaggtctacgacaatctgaggtgtttatagtgggaaagctactcactgctcgagattttaagatctggtcctttctagggatgttccgcaatgcatggcggacgaatagatctctccaggtggaggaggcagaaggacagagggtgttgttcacgctgtcggatccttcagatcgggttcatatttggaagggcgctccatggggatacaaccatgctccggtggcgctggcttgctatgatggagttacaccggtggaacaggtccctctgaccttggcttcatattggataactctccaaggtatccctcttgcttttagataa
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

139

Amino Acids

15.49

Weight (kDa)

9.3

Isoelectric Point (pI)

41.14

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: OG0000187)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g20170 FvH4_4g06831
rosa_chinensis RchiOBHm_Chr1g0321991 RchiOBHm_Chr2g0161811
rosa_laevigata RLG00000015375 RLG00000018377
rosa_multiflora Rmu_co8011754.1_g000001 Rmu_co8019986.1_g000001 Rmu_co8067766.1_g000001 Rmu_co8156128.1_g000001 Rmu_co8219154.1_g000003 Rmu_co8297235.1_g000001 Rmu_co8345223.1_g000001 Rmu_co8364775.1_g000001 Rmu_co8465075.1_g000001 Rmu_sc0000007.1_g000002 Rmu_sc0000054.1_g000015 Rmu_sc0000054.1_g000023 Rmu_sc0000145.1_g000010 Rmu_sc0000166.1_g000006 Rmu_sc0000218.1_g000012 Rmu_sc0000339.1_g000008 Rmu_sc0000342.1_g000015 Rmu_sc0000464.1_g000008 Rmu_sc0000620.1_g000003 Rmu_sc0000638.1_g000017 Rmu_sc0000890.1_g000007 Rmu_sc0000894.1_g000024 Rmu_sc0000909.1_g000010 Rmu_sc0000928.1_g000020 Rmu_sc0000977.1_g000007 Rmu_sc0001022.1_g000003 Rmu_sc0001035.1_g000037 Rmu_sc0001060.1_g000008 Rmu_sc0001168.1_g000005 Rmu_sc0001173.1_g000022 Rmu_sc0001179.1_g000016 Rmu_sc0001408.1_g000003 Rmu_sc0001455.1_g000005 Rmu_sc0001484.1_g000008 Rmu_sc0001585.1_g000010 Rmu_sc0001702.1_g000030 Rmu_sc0001755.1_g000063 Rmu_sc0001903.1_g000009 Rmu_sc0002099.1_g000001 Rmu_sc0002142.1_g000012 Rmu_sc0002158.1_g000014 Rmu_sc0002307.1_g000009 Rmu_sc0002358.1_g000013 Rmu_sc0002421.1_g000002 Rmu_sc0002426.1_g000003 Rmu_sc0002438.1_g000001 Rmu_sc0002461.1_g000001 Rmu_sc0002508.1_g000003 Rmu_sc0002532.1_g000056 Rmu_sc0002583.1_g000002 Rmu_sc0002927.1_g000033 Rmu_sc0003033.1_g000040 Rmu_sc0003271.1_g000006 Rmu_sc0003381.1_g000006 Rmu_sc0003507.1_g000007 Rmu_sc0003578.1_g000003 Rmu_sc0003693.1_g000004 Rmu_sc0003693.1_g000005 Rmu_sc0003704.1_g000003 Rmu_sc0003840.1_g000002 Rmu_sc0004084.1_g000026 Rmu_sc0004193.1_g000007 Rmu_sc0004234.1_g000033 Rmu_sc0004235.1_g000025 Rmu_sc0004435.1_g000006 Rmu_sc0004727.1_g000003 Rmu_sc0004741.1_g000001 Rmu_sc0004926.1_g000004 Rmu_sc0005365.1_g000001 Rmu_sc0005392.1_g000007 Rmu_sc0005415.1_g000001 Rmu_sc0005539.1_g000007 Rmu_sc0005708.1_g000017 Rmu_sc0006317.1_g000007 Rmu_sc0006453.1_g000054 Rmu_sc0006536.1_g000004 Rmu_sc0006740.1_g000022 Rmu_sc0006763.1_g000012 Rmu_sc0007115.1_g000002 Rmu_sc0007115.1_g000010 Rmu_sc0007129.1_g000017 Rmu_sc0007131.1_g000010 Rmu_sc0008373.1_g000008 Rmu_sc0009005.1_g000008 Rmu_sc0009252.1_g000007 Rmu_sc0009599.1_g000022 Rmu_sc0009785.1_g000027 Rmu_sc0009891.1_g000003 Rmu_sc0010099.1_g000010 Rmu_sc0010266.1_g000008 Rmu_sc0010334.1_g000003 Rmu_sc0010381.1_g000001 Rmu_sc0010496.1_g000003 Rmu_sc0010496.1_g000004 Rmu_sc0010546.1_g000003 Rmu_sc0011482.1_g000006 Rmu_sc0011875.1_g000010 Rmu_sc0011917.1_g000006 Rmu_sc0012293.1_g000004 Rmu_sc0012847.1_g000003 Rmu_sc0013773.1_g000001 Rmu_sc0016060.1_g000003 Rmu_sc0016170.1_g000013 Rmu_sc0016393.1_g000002 Rmu_sc0017589.1_g000001 Rmu_sc0017786.1_g000005 Rmu_sc0018326.1_g000002 Rmu_sc0020760.1_g000001 Rmu_sc0021262.1_g000003 Rmu_sc0023851.1_g000002 Rmu_sc0024044.1_g000001 Rmu_sc0026820.1_g000001 Rmu_sc0032306.1_g000001 Rmu_sc0035666.1_g000001 Rmu_sc0036881.1_g000001 Rmu_sc0037030.1_g000001 Rmu_sc0037158.1_g000001 Rmu_ssc0000016.1_g000002 Rmu_ssc0000044.1_g000012 Rmu_ssc0000044.1_g000014 Rmu_ssc0000050.1_g000064 Rmu_ssc0000064.1_g000022 Rmu_ssc0000154.1_g000037 Rmu_ssc0000178.1_g000013 Rmu_ssc0000217.1_g000022 Rmu_ssc0000392.1_g000004
rosa_roxburghii Rroxscaffold_3G00242000 Rroxscaffold_3G00242530 Rroxscaffold_6G00406010
rosa_rugosa Rorug01G0062000 Rorug02G0224000 Rorug02G0262900 Rorug02G0263000 Rorug02G0358900 Rorug02G0360500 Rorug02G0378500.1 Rorug02G0378600 Rorug02G0394700 Rorug03G0122900 Rorug03G0254600 Rorug03G0254700 Rorug03G0254800 Rorug04G0042200.1 Rorug04G0378100 Rorug05G0053400 Rorug05G0238600 Rorug05G0364500 Rorug05G0562000 Rorug06G0089300 Rorug06G0089400 Rorug06G0145700 Rorug07G0111600 Rorug07G0229500.1 Rorug07G0287600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 100
AciI CCGC 2 cut(s) 181, 193
AclWI GGATC 3 cut(s) 81, 251, 264
AcuI CTGAAG 1 cut(s) 246
AfiI CCNNNNNNNGG 4 cut(s) 89, 171, 217, 313
AgeI ACCGGT 1 cut(s) 346
AjnI CCWGG 1 cut(s) 210
AluBI AGCT 1 cut(s) 133
AluI AGCT 1 cut(s) 133
AlwI GGATC 3 cut(s) 81, 251, 264
Ama87I CYCGRG 1 cut(s) 144
AoxI GGCC 2 cut(s) 80, 91
ApeKI GCWGC 1 cut(s) 23
AsiGI ACCGGT 1 cut(s) 346
AspLEI GCGC 2 cut(s) 290, 322
AspS9I GGNCC 2 cut(s) 162, 358
AvaI CYCGRG 1 cut(s) 144
AvaII GGWCC 2 cut(s) 162, 358
BamHI GGATCC 1 cut(s) 256
BbvCI CCTCAGC 1 cut(s) 54
BbvI GCAGC 1 cut(s) 10
BccI CCATC 1 cut(s) 329
BciT130I CCWGG 1 cut(s) 212
BciVI GTATCC 2 cut(s) 293, 410
BfaI CTAG 2 cut(s) 27, 170
BfoI RGCGCY 2 cut(s) 291, 323
BfuI GTATCC 2 cut(s) 293, 410
BglII AGATCT 2 cut(s) 156, 203
BisI GCNGC 1 cut(s) 24
BlsI GCNGC 1 cut(s) 25
Bme1390I CCNGG 1 cut(s) 212
Bme18I GGWCC 2 cut(s) 162, 358
BmeT110I CYCGRG 1 cut(s) 144
BmgT120I GGNCC 2 cut(s) 162, 358
BmiI GGNNCC 2 cut(s) 258, 360
BmrFI CCNGG 1 cut(s) 212
BmsI GCATC 2 cut(s) 4, 44
BpmI CTGGAG 1 cut(s) 194
Bpu10I CCTNAGC 1 cut(s) 54
BsaJI CCNNGG 5 cut(s) 18, 94, 293, 369, 394
BsaWI WCCGGW 2 cut(s) 313, 346
Bsc4I CCNNNNNNNGG 4 cut(s) 89, 171, 217, 313
Bse118I RCCGGY 1 cut(s) 346
Bse3DI GCAATG 1 cut(s) 190
BseBI CCWGG 1 cut(s) 212
BseDI CCNNGG 5 cut(s) 18, 94, 293, 369, 394
BseGI GGATG 1 cut(s) 180
BseLI CCNNNNNNNGG 4 cut(s) 89, 171, 217, 313
BseMI GCAATG 1 cut(s) 190
BseMII CTCAG 2 cut(s) 45, 102
BseRI GAGGAG 1 cut(s) 233
BseXI GCAGC 1 cut(s) 10
BshFI GGCC 2 cut(s) 82, 93
BshTI ACCGGT 1 cut(s) 346
BsiHKCI CYCGRG 1 cut(s) 144
BsiSI CCGG 3 cut(s) 79, 314, 347
BslFI GGGAC 1 cut(s) 344
BslI CCNNNNNNNGG 4 cut(s) 89, 171, 217, 313
BsmFI GGGAC 1 cut(s) 344
BsnI GGCC 2 cut(s) 82, 93
BsoBI CYCGRG 1 cut(s) 144
Bsp143I GATC 5 cut(s) 73, 156, 203, 256, 265
Bsp19I CCATGG 2 cut(s) 18, 293
BspACI CCGC 2 cut(s) 181, 193
BspANI GGCC 2 cut(s) 82, 93
BspCNI CTCAG 2 cut(s) 46, 103
BspLI GGNNCC 2 cut(s) 258, 360
BspPI GGATC 3 cut(s) 81, 251, 264
BsrDI GCAATG 1 cut(s) 190
BsrFI RCCGGY 1 cut(s) 346
BssAI RCCGGY 1 cut(s) 346
BssECI CCNNGG 5 cut(s) 18, 94, 293, 369, 394
BssMI GATC 5 cut(s) 73, 156, 203, 256, 265
BssT1I CCWWGG 5 cut(s) 18, 94, 293, 369, 394
Bst2UI CCWGG 1 cut(s) 212
BstC8I GCNNGC 4 cut(s) 33, 45, 324, 328
BstDEI CTNAG 2 cut(s) 54, 111
BstDSI CCRYGG 2 cut(s) 18, 293
BstENI CCTNNNNNAGG 1 cut(s) 87
BstF5I GGATG 1 cut(s) 180
BstH2I RGCGCY 2 cut(s) 291, 323
BstHHI GCGC 2 cut(s) 290, 322
BstKTI GATC 5 cut(s) 76, 159, 206, 259, 268
BstMBI GATC 5 cut(s) 73, 156, 203, 256, 265
BstMWI GCNNNNNNNGC 3 cut(s) 23, 32, 317
BstNI CCWGG 1 cut(s) 212
BstSCI CCNGG 1 cut(s) 210
BstV1I GCAGC 1 cut(s) 10
BstX2I RGATCY 4 cut(s) 73, 156, 203, 256
BstYI RGATCY 4 cut(s) 73, 156, 203, 256
BsuI GTATCC 2 cut(s) 293, 410
BsuRI GGCC 2 cut(s) 82, 93
BtgI CCRYGG 2 cut(s) 18, 293
BtsCI GGATG 1 cut(s) 180
BtsI GCAGTG 1 cut(s) 138
BtsIMutI CAGTG 1 cut(s) 138
Cac8I GCNNGC 4 cut(s) 33, 45, 324, 328
CfoI GCGC 2 cut(s) 290, 322
Cfr10I RCCGGY 1 cut(s) 346
Cfr13I GGNCC 2 cut(s) 162, 358
CspAI ACCGGT 1 cut(s) 346
CviAII CATG 4 cut(s) 19, 189, 294, 308
CviJI RGCY 7 cut(s) 23, 31, 82, 93, 133, 326, 374
CviKI_1 RGCY 7 cut(s) 23, 31, 82, 93, 133, 326, 374
DdeI CTNAG 2 cut(s) 54, 111
DpnI GATC 5 cut(s) 75, 158, 205, 258, 267
DpnII GATC 5 cut(s) 73, 156, 203, 256, 265
EciI GGCGGA 1 cut(s) 208
Eco130I CCWWGG 5 cut(s) 18, 94, 293, 369, 394
Eco47I GGWCC 2 cut(s) 162, 358
Eco57I CTGAAG 1 cut(s) 246
Eco88I CYCGRG 1 cut(s) 144
EcoNI CCTNNNNNAGG 1 cut(s) 87
EcoO109I RGGNCCY 1 cut(s) 358
EcoRII CCWGG 1 cut(s) 210
EcoT14I CCWWGG 5 cut(s) 18, 94, 293, 369, 394
EcoT22I ATGCAT 1 cut(s) 190
ErhI CCWWGG 5 cut(s) 18, 94, 293, 369, 394
FaeI CATG 4 cut(s) 22, 192, 297, 311
FaiI YATR 8 cut(s) 20, 122, 190, 276, 295, 309, 333, 379
FaqI GGGAC 1 cut(s) 344
FatI CATG 4 cut(s) 18, 188, 293, 307
FblI GTMKAC 1 cut(s) 100
Fnu4HI GCNGC 1 cut(s) 24
FokI GGATG 1 cut(s) 187
Fsp4HI GCNGC 1 cut(s) 24
FspBI CTAG 2 cut(s) 27, 170
GlaI GCGC 2 cut(s) 289, 321
GluI GCNGC 1 cut(s) 24
GsuI CTGGAG 1 cut(s) 194
HaeII RGCGCY 2 cut(s) 291, 323
HaeIII GGCC 2 cut(s) 82, 93
HapII CCGG 3 cut(s) 79, 314, 347
HhaI GCGC 2 cut(s) 290, 322
Hin1II CATG 4 cut(s) 22, 192, 297, 311
Hin6I GCGC 2 cut(s) 288, 320
HinP1I GCGC 2 cut(s) 288, 320
HpaII CCGG 3 cut(s) 79, 314, 347
Hpy166II GTNNAC 2 cut(s) 101, 246
Hpy188I TCNGA 4 cut(s) 112, 256, 265, 366
Hpy188III TCNNGA 1 cut(s) 146
Hpy8I GTNNAC 2 cut(s) 101, 246
HpyAV CCTTC 3 cut(s) 221, 270, 277
HpyCH4V TGCA 2 cut(s) 35, 188
HpyF10VI GCNNNNNNNGC 3 cut(s) 23, 32, 317
HpyF3I CTNAG 2 cut(s) 54, 111
Hsp92II CATG 4 cut(s) 22, 192, 297, 311
HspAI GCGC 2 cut(s) 288, 320
Kzo9I GATC 5 cut(s) 73, 156, 203, 256, 265
LmnI GCTCC 2 cut(s) 295, 316
LpnPI CCDG 9 cut(s) 53, 92, 145, 197, 224, 308, 327, 341, 360
Lsp1109I GCAGC 1 cut(s) 10
LweI GCATC 2 cut(s) 4, 44
MaeI CTAG 2 cut(s) 27, 170
MaeIII GTNAC 1 cut(s) 340
MalI GATC 5 cut(s) 75, 158, 205, 258, 267
MboI GATC 5 cut(s) 73, 156, 203, 256, 265
MboII GAAGA 1 cut(s) 30
MflI RGATCY 4 cut(s) 73, 156, 203, 256
MmeI TCCRAC 1 cut(s) 234
MnlI CCTC 7 cut(s) 49, 106, 211, 214, 228, 372, 414
Mph1103I ATGCAT 1 cut(s) 190
MseI TTAA 1 cut(s) 153
MspI CCGG 3 cut(s) 79, 314, 347
MspR9I CCNGG 1 cut(s) 212
MvaI CCWGG 1 cut(s) 212
MwoI GCNNNNNNNGC 3 cut(s) 23, 32, 317
NcoI CCATGG 2 cut(s) 18, 293
NdeII GATC 5 cut(s) 73, 156, 203, 256, 265
NlaIII CATG 4 cut(s) 22, 192, 297, 311
NlaIV GGNNCC 2 cut(s) 258, 360
NsiI ATGCAT 1 cut(s) 190
PaeR7I CTCGAG 1 cut(s) 144
PinAI ACCGGT 1 cut(s) 346
PkrI GCNGC 1 cut(s) 25
PpuMI RGGWCCY 1 cut(s) 358
Psp5II RGGWCCY 1 cut(s) 358
Psp6I CCWGG 1 cut(s) 210
PspGI CCWGG 1 cut(s) 210
PspN4I GGNNCC 2 cut(s) 258, 360
PspPI GGNCC 2 cut(s) 162, 358
PspPPI RGGWCCY 1 cut(s) 358
PsuI RGATCY 4 cut(s) 73, 156, 203, 256
SaqAI TTAA 1 cut(s) 153
SatI GCNGC 1 cut(s) 24
Sau3AI GATC 5 cut(s) 73, 156, 203, 256, 265
Sau96I GGNCC 2 cut(s) 162, 358
ScrFI CCNGG 1 cut(s) 212
SetI ASST 8 cut(s) 72, 100, 117, 135, 216, 360, 371, 400
SfaNI GCATC 2 cut(s) 4, 44
Sfr274I CTCGAG 1 cut(s) 144
SgrAI CRCCGGYG 1 cut(s) 346
SinI GGWCC 2 cut(s) 162, 358
SlaI CTCGAG 1 cut(s) 144
SmlI CTYRAG 1 cut(s) 144
SmoI CTYRAG 1 cut(s) 144
SsiI CCGC 2 cut(s) 181, 193
SspMI CTAG 2 cut(s) 27, 170
StyD4I CCNGG 1 cut(s) 210
StyI CCWWGG 5 cut(s) 18, 94, 293, 369, 394
TaqI TCGA 1 cut(s) 145
Tru1I TTAA 1 cut(s) 153
Tru9I TTAA 1 cut(s) 153
TscAI CASTG 1 cut(s) 145
TseI GCWGC 1 cut(s) 23
TspDTI ATGAA 2 cut(s) 263, 366
TspRI CASTG 1 cut(s) 145
VpaK11BI GGWCC 2 cut(s) 162, 358
XagI CCTNNNNNAGG 1 cut(s) 87
XhoI CTCGAG 1 cut(s) 144
XmiI GTMKAC 1 cut(s) 100
XspI CTAG 2 cut(s) 27, 170
Zsp2I ATGCAT 1 cut(s) 190
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.