Rroxscaffold_5G00336040

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000147
Physical Location & Seq
Reverse (-)
3783173 .. 3783896
724 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00336040.1

Sequence Viewer

Length: 486 bp
ATGGAAGTTTTAGACAACTCTTCCGAGGCGGAAGCTCGGAGACACTCAAACAAATCAATGATCTGGATGGATAATCTCCAAGCCGGGGCGGTGGTGGTTGGCCTACGGCCACAAGAAGACAATGGGTCAAATCCTCTCTTGGAGCTGTCGAGGTTTGGGACGAGCCTTGACGTCCAAAAGCTAGGGGAGCTCAATTACTTTTTCTATGGTCCACCTTACCATGAAGACAAGGTCCATTTACGGTCTTCATTAGATCACTTTTCTTTGCACGATGAGGGCCCTTGGGTACGTGTGGGTGATTGCAACGAGTTGGTCTCAAATGATGAGAAGGAAGGGGGAATACCTTGGCACCGGAACGAGGTCGGATACTTGAAGAACTTCATGGATAAAAACGGTCTCTTCGACACGAGGTTCACCGGACGAAGTTTACACAGGAAAATAGAAGAGAAGAGGCGAGAGGAAGTTATCGGGGAAAAGGCTGGATAG
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-CCHC_4 zf-RVT

Protein Analysis

161

Amino Acids

18.47

Weight (kDa)

5.5

Isoelectric Point (pI)

43.93

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: OG0000147)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g10354 FvH4_1g17131 FvH4_2g11611 FvH4_2g33851 FvH4_3g32112 FvH4_3g35052 FvH4_3g44611 FvH4_4g05921 FvH4_4g06411 FvH4_4g06792 FvH4_4g10365 FvH4_4g21422 FvH4_4g22401 FvH4_4g30261 FvH4_5g08843 FvH4_5g14731 FvH4_5g24781 FvH4_5g26231 FvH4_5g31282 FvH4_6g23371 FvH4_6g38511 FvH4_7g01171 FvH4_7g03341 FvH4_7g06171 FvH4_7g32472
prunus_persica Prupe.2G036900_v2.0.a1
pyrus_communis pycom02g19900 pycom03g01520 pycom05g10510 pycom16g23820
rosa_chinensis RchiOBHm_Chr1g0316031 RchiOBHm_Chr1g0342451 RchiOBHm_Chr1g0344541 RchiOBHm_Chr1g0364721 RchiOBHm_Chr2g0133541 RchiOBHm_Chr2g0134511 RchiOBHm_Chr2g0145891 RchiOBHm_Chr2g0163241 RchiOBHm_Chr5g0027201 RchiOBHm_Chr5g0027881 RchiOBHm_Chr5g0047471 RchiOBHm_Chr7g0210901
rosa_laevigata RLG00000011116 RLG00000017964 RLG00000018128 RLG00000018387 RLG00000018829 RLG00000019353 RLG00000028973 RLG00000035870 RLG00000036629
rosa_multiflora Rmu_co8126340.1_g000001 Rmu_co8216750.1_g000001 Rmu_co8222072.1_g000001 Rmu_co8332453.1_g000001 Rmu_co8349913.1_g000001 Rmu_co8405337.1_g000001 Rmu_sc0000041.1_g000012 Rmu_sc0000166.1_g000029 Rmu_sc0000251.1_g000019 Rmu_sc0000271.1_g000028 Rmu_sc0000509.1_g000036 Rmu_sc0000543.1_g000048 Rmu_sc0000808.1_g000003 Rmu_sc0000847.1_g000040 Rmu_sc0000972.1_g000020 Rmu_sc0001260.1_g000001 Rmu_sc0001464.1_g000026 Rmu_sc0001616.1_g000003 Rmu_sc0001669.1_g000001 Rmu_sc0002005.1_g000001 Rmu_sc0002014.1_g000010 Rmu_sc0002082.1_g000033 Rmu_sc0002302.1_g000024 Rmu_sc0002531.1_g000045 Rmu_sc0003276.1_g000002 Rmu_sc0003737.1_g000007 Rmu_sc0003832.1_g000022 Rmu_sc0004080.1_g000011 Rmu_sc0004487.1_g000009 Rmu_sc0004988.1_g000018 Rmu_sc0004988.1_g000019 Rmu_sc0005254.1_g000002 Rmu_sc0005733.1_g000004 Rmu_sc0006413.1_g000006 Rmu_sc0007121.1_g000013 Rmu_sc0007869.1_g000006 Rmu_sc0008035.1_g000015 Rmu_sc0008279.1_g000017 Rmu_sc0008351.1_g000014 Rmu_sc0008957.1_g000007 Rmu_sc0009012.1_g000007 Rmu_sc0010556.1_g000009 Rmu_sc0012889.1_g000003 Rmu_sc0019808.1_g000004 Rmu_sc0028113.1_g000001 Rmu_sc0031202.1_g000001 Rmu_sc0034436.1_g000001 Rmu_sc0034445.1_g000001 Rmu_sc0040044.1_g000001 Rmu_ssc0000062.1_g000032 Rmu_ssc0000372.1_g000018
rosa_roxburghii Rroxscaffold_1G00001520 Rroxscaffold_1G00039990 Rroxscaffold_1G00046370 Rroxscaffold_2G00110140 Rroxscaffold_2G00131420 Rroxscaffold_3G00222390 Rroxscaffold_5G00336040 Rroxscaffold_5G00338000 Rroxscaffold_5G00344030 Rroxscaffold_5G00363460 Rroxscaffold_6G00402000 Rroxscaffold_7G00194940
rosa_rugosa Rorug01G0106500 Rorug01G0111300 Rorug01G0247000 Rorug02G0318100.1 Rorug02G0318200 Rorug02G0459500 Rorug03G0108100 Rorug03G0200500 Rorug03G0232500 Rorug03G0240600 Rorug04G0105300 Rorug04G0256600 Rorug06G0079300 Rorug06G0082700 Rorug06G0095600 Rorug06G0179000 Rorug07G0113500 Rorug07G0271100
rosa_samantha Rh1AG087200 Rh1CG085300 Rh1DG013200 Rh1DG091700 Rh1DG091800 Rh1DG338300 Rh2AG375400 Rh2AG407000 Rh2AG513500 Rh2BG277700 Rh2BG371200 Rh2BG376100 Rh2BG580500 Rh2CG354300 Rh2DG200100 Rh2DG388000 Rh2DG393500 Rh2DG426400 Rh3CG304800 Rh4AG044600 Rh4AG220500 Rh4BG379300 Rh4CG007100 Rh4CG030300 Rh4CG038000 Rh4CG114900 Rh4CG393700 Rh5AG124900 Rh5AG342300 Rh5BG414400 Rh5CG263800 Rh5CG439000 Rh5DG231100 Rh5DG566900 Rh6AG138600 Rh6AG200000 Rh6AG253100 Rh6AG390900 Rh6AG441600 Rh6BG194700 Rh6BG225800 Rh6BG256100 Rh6CG231700 Rh6CG231900 Rh6CG312200 Rh6CG453700 Rh6DG219400 Rh7AG357700 Rh7AG442000 Rh7CG425700 Rh7CG474600 Rh7CG494100 Rh7DG253900 Rh7DG294700 Rh7DG401600 Rh7DG461300
rosa_wichuraiana Rw1G001190 Rw2G047020 Rw4G003490 Rw5G039690 Rw6G010450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 174
AccB1I GGYRCC 1 cut(s) 348
AciI CCGC 2 cut(s) 29, 89
AcoI YGGCCR 1 cut(s) 107
AcyI GRCGYC 1 cut(s) 171
AfaI GTAC 1 cut(s) 288
AfiI CCNNNNNNNGG 2 cut(s) 85, 358
AflIII ACRYGT 1 cut(s) 289
AgsI TTSAA 1 cut(s) 373
AhdI GACNNNNNGTC 1 cut(s) 124
AluBI AGCT 4 cut(s) 35, 145, 181, 190
AluI AGCT 4 cut(s) 35, 145, 181, 190
Alw21I GWGCWC 1 cut(s) 192
Alw26I GTCTC 3 cut(s) 34, 319, 401
AoxI GGCC 3 cut(s) 100, 107, 277
ApaI GGGCCC 1 cut(s) 281
Asp700I GAANNNNTTC 1 cut(s) 377
AspS9I GGNCC 4 cut(s) 209, 232, 277, 278
AsuC2I CCSGG 1 cut(s) 85
AsuHPI GGTGA 2 cut(s) 308, 406
AvaII GGWCC 2 cut(s) 209, 232
BaeGI GKGCMC 1 cut(s) 281
BanI GGYRCC 1 cut(s) 348
BanII GRGCYC 2 cut(s) 192, 281
BarI GAAGNNNNNNTAC 2 cut(s) 324, 356
BauI CACGAG 1 cut(s) 406
BbsI GAAGAC 3 cut(s) 123, 231, 237
Bbv12I GWGCWC 1 cut(s) 192
BccI CCATC 1 cut(s) 61
BceAI ACGGC 1 cut(s) 122
BciVI GTATCC 1 cut(s) 359
BcnI CCSGG 1 cut(s) 85
BcoDI GTCTC 3 cut(s) 34, 319, 401
BfaI CTAG 1 cut(s) 182
BfuI GTATCC 1 cut(s) 359
Bme1390I CCNGG 1 cut(s) 85
Bme18I GGWCC 2 cut(s) 209, 232
BmeRI GACNNNNNGTC 1 cut(s) 124
BmgT120I GGNCC 4 cut(s) 209, 232, 277, 278
BmiI GGNNCC 2 cut(s) 279, 350
BmrFI CCNGG 1 cut(s) 85
BpiI GAAGAC 3 cut(s) 123, 231, 237
BplI GAGNNNNNCTC 2 cut(s) 299, 331
BpuMI CCSGG 1 cut(s) 85
BsaAI YACGTR 1 cut(s) 290
BsaHI GRCGYC 1 cut(s) 171
BsaI GGTCTC 2 cut(s) 319, 401
BsaJI CCNNGG 4 cut(s) 24, 84, 281, 344
BsaWI WCCGGW 2 cut(s) 351, 416
Bsc4I CCNNNNNNNGG 2 cut(s) 85, 358
BseDI CCNNGG 4 cut(s) 24, 84, 281, 344
BseGI GGATG 1 cut(s) 72
BseLI CCNNNNNNNGG 2 cut(s) 85, 358
BseSI GKGCMC 1 cut(s) 281
BshFI GGCC 3 cut(s) 102, 109, 279
BshNI GGYRCC 1 cut(s) 348
BsiHKAI GWGCWC 1 cut(s) 192
BsiSI CCGG 3 cut(s) 84, 352, 417
BslFI GGGAC 1 cut(s) 172
BslI CCNNNNNNNGG 2 cut(s) 85, 358
BsmAI GTCTC 3 cut(s) 34, 319, 401
BsmFI GGGAC 1 cut(s) 172
BsnI GGCC 3 cut(s) 102, 109, 279
Bso31I GGTCTC 2 cut(s) 319, 401
Bsp120I GGGCCC 1 cut(s) 277
Bsp1286I GDGCHC 2 cut(s) 192, 281
Bsp143I GATC 2 cut(s) 60, 253
BspACI CCGC 2 cut(s) 29, 89
BspANI GGCC 3 cut(s) 102, 109, 279
BspLI GGNNCC 2 cut(s) 279, 350
BspT107I GGYRCC 1 cut(s) 348
BspTNI GGTCTC 2 cut(s) 319, 401
BssECI CCNNGG 4 cut(s) 24, 84, 281, 344
BssMI GATC 2 cut(s) 60, 253
BssNI GRCGYC 1 cut(s) 171
BssSI CACGAG 1 cut(s) 406
BssT1I CCWWGG 2 cut(s) 281, 344
Bst2BI CACGAG 1 cut(s) 406
Bst4CI ACNGT 2 cut(s) 243, 395
Bst6I CTCTTC 4 cut(s) 25, 404, 438, 443
BstACI GRCGYC 1 cut(s) 171
BstBAI YACGTR 1 cut(s) 290
BstF5I GGATG 1 cut(s) 72
BstKTI GATC 2 cut(s) 63, 256
BstMAI GTCTC 3 cut(s) 34, 319, 401
BstMBI GATC 2 cut(s) 60, 253
BstMWI GCNNNNNNNGC 1 cut(s) 187
BstSCI CCNGG 1 cut(s) 83
BstSLI GKGCMC 1 cut(s) 281
BstV2I GAAGAC 3 cut(s) 123, 231, 237
BsuI GTATCC 1 cut(s) 359
BsuRI GGCC 3 cut(s) 102, 109, 279
BtsCI GGATG 1 cut(s) 72
Cfr13I GGNCC 4 cut(s) 209, 232, 277, 278
Csp6I GTAC 1 cut(s) 287
CviAII CATG 2 cut(s) 221, 382
CviQI GTAC 1 cut(s) 287
DpnI GATC 2 cut(s) 62, 255
DpnII GATC 2 cut(s) 60, 253
DriI GACNNNNNGTC 1 cut(s) 124
EaeI YGGCCR 1 cut(s) 107
Eam1104I CTCTTC 4 cut(s) 25, 404, 438, 443
Eam1105I GACNNNNNGTC 1 cut(s) 124
EarI CTCTTC 4 cut(s) 25, 404, 438, 443
EciI GGCGGA 1 cut(s) 44
Ecl136II GAGCTC 1 cut(s) 190
Eco130I CCWWGG 2 cut(s) 281, 344
Eco24I GRGCYC 2 cut(s) 192, 281
Eco31I GGTCTC 2 cut(s) 319, 401
Eco47I GGWCC 2 cut(s) 209, 232
Eco53kI GAGCTC 1 cut(s) 190
EcoICRI GAGCTC 1 cut(s) 190
EcoO109I RGGNCCY 2 cut(s) 277, 278
EcoT14I CCWWGG 2 cut(s) 281, 344
EcoT38I GRGCYC 2 cut(s) 192, 281
ErhI CCWWGG 2 cut(s) 281, 344
FaeI CATG 2 cut(s) 224, 385
FaiI YATR 3 cut(s) 207, 222, 383
FaqI GGGAC 1 cut(s) 172
FatI CATG 2 cut(s) 220, 381
FokI GGATG 1 cut(s) 79
FriOI GRGCYC 2 cut(s) 192, 281
FspBI CTAG 1 cut(s) 182
HaeIII GGCC 3 cut(s) 102, 109, 279
HapII CCGG 3 cut(s) 84, 352, 417
Hin1I GRCGYC 1 cut(s) 171
Hin1II CATG 2 cut(s) 224, 385
HpaII CCGG 3 cut(s) 84, 352, 417
HphI GGTGA 2 cut(s) 308, 406
Hpy166II GTNNAC 3 cut(s) 212, 414, 428
Hpy188I TCNGA 3 cut(s) 25, 39, 365
Hpy188III TCNNGA 1 cut(s) 64
Hpy8I GTNNAC 3 cut(s) 212, 414, 428
HpyAV CCTTC 2 cut(s) 322, 326
HpyCH4III ACNGT 2 cut(s) 243, 395
HpyCH4IV ACGT 2 cut(s) 171, 289
HpyCH4V TGCA 2 cut(s) 268, 303
HpyF10VI GCNNNNNNNGC 1 cut(s) 187
HpySE526I ACGT 2 cut(s) 171, 289
Hsp92I GRCGYC 1 cut(s) 171
Hsp92II CATG 2 cut(s) 224, 385
Kzo9I GATC 2 cut(s) 60, 253
LmnI GCTCC 2 cut(s) 142, 187
LpnPI CCDG 6 cut(s) 49, 97, 365, 418, 430, 465
MaeI CTAG 1 cut(s) 182
MaeII ACGT 2 cut(s) 171, 289
MalI GATC 2 cut(s) 62, 255
MboI GATC 2 cut(s) 60, 253
MboII GAAGA 8 cut(s) 12, 128, 236, 237, 385, 391, 455, 460
MhlI GDGCHC 2 cut(s) 192, 281
MluCI AATT 1 cut(s) 193
MmeI TCCRAC 1 cut(s) 343
MnlI CCTC 8 cut(s) 19, 144, 144, 268, 352, 402, 444, 451
MroXI GAANNNNTTC 1 cut(s) 377
MspI CCGG 3 cut(s) 84, 352, 417
MspR9I CCNGG 1 cut(s) 85
MwoI GCNNNNNNNGC 1 cut(s) 187
NciI CCSGG 1 cut(s) 85
NdeII GATC 2 cut(s) 60, 253
NlaIII CATG 2 cut(s) 224, 385
NlaIV GGNNCC 2 cut(s) 279, 350
PcsI WCGNNNNNNNCGW 1 cut(s) 399
PdmI GAANNNNTTC 1 cut(s) 377
PflFI GACNNNGTC 1 cut(s) 230
Ppu21I YACGTR 1 cut(s) 290
Psp124BI GAGCTC 1 cut(s) 192
PspN4I GGNNCC 2 cut(s) 279, 350
PspOMI GGGCCC 1 cut(s) 277
PspPI GGNCC 4 cut(s) 209, 232, 277, 278
PsyI GACNNNGTC 1 cut(s) 230
RsaI GTAC 1 cut(s) 288
RsaNI GTAC 1 cut(s) 287
SacI GAGCTC 1 cut(s) 192
Sau3AI GATC 2 cut(s) 60, 253
Sau96I GGNCC 4 cut(s) 209, 232, 277, 278
ScrFI CCNGG 1 cut(s) 85
SduI GDGCHC 2 cut(s) 192, 281
SinI GGWCC 2 cut(s) 209, 232
Sse9I AATT 1 cut(s) 193
SsiI CCGC 2 cut(s) 29, 89
SspMI CTAG 1 cut(s) 182
SstI GAGCTC 1 cut(s) 192
StyD4I CCNGG 1 cut(s) 83
StyI CCWWGG 2 cut(s) 281, 344
TaaI ACNGT 2 cut(s) 243, 395
TaiI ACGT 2 cut(s) 174, 292
TaqI TCGA 2 cut(s) 149, 402
TasI AATT 1 cut(s) 193
TspDTI ATGAA 3 cut(s) 237, 237, 370
Tth111I GACNNNGTC 1 cut(s) 230
VpaK11BI GGWCC 2 cut(s) 209, 232
XmnI GAANNNNTTC 1 cut(s) 377
XspI CTAG 1 cut(s) 182
ZraI GACGTC 1 cut(s) 172
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.