Rroxscaffold_5G00344030

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000147
Physical Location & Seq
Forward (+)
13950865 .. 13954821
3957 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00344030.1

Sequence Viewer

Length: 528 bp
ATGTACTGGCAGCAGCGTTCCAAGGTAAATTGGCTAAAGTTGGGAGATCAGAACATGAGTTTTTTCCATCACTCAACTCTACAGAGAAGACAATTTAACAAAGTCTTGCGCCTTCAAGATTCAAATGGGGATTGGTTGGAAACTGATAGAGAAATTACCAATCTTTTCTCTGCTTATTTTCAAGAGTTGTTCACTTCGAATGGCCAGCAAGAGTGGGGTGAAGTTCTGGATTTTGTGGATCCAGTTGTCACCGCTAATATGAATGTCAAGCTCACTGAGTTGATTACTCTTCAGGAGGTTAAAGATGCGGTTTTTGATCTAGGTGCAACAAAAGCTCCGGGGCTAGATGGTTTTTCTGGTGTTTTCTATCAATCTCAATGGGATACTGTAAGAAGTATAATTCATGAGTCAGCCTTACAACATCAATCAACATCCTCTCTGCTCCAGGTTATGAATCAATCTCATCTTGCTCTTATTCCTAAAGTTAAGGCACCTGTGACTACTTCCCAATTAAGCTTTTGTTTCTGA
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

175

Amino Acids

20.11

Weight (kDa)

5.67

Isoelectric Point (pI)

51.36

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)
AccB1I GGYRCC 1 cut(s) 490
AciI CCGC 2 cut(s) 252, 308
AclWI GGATC 2 cut(s) 233, 246
AcoI YGGCCR 1 cut(s) 202
AcuI CTGAAG 1 cut(s) 275
AfaI GTAC 1 cut(s) 5
AgsI TTSAA 3 cut(s) 116, 123, 182
AjnI CCWGG 1 cut(s) 444
AluBI AGCT 3 cut(s) 271, 335, 516
AluI AGCT 3 cut(s) 271, 335, 516
AlwI GGATC 2 cut(s) 233, 246
AoxI GGCC 1 cut(s) 202
ApeKI GCWGC 2 cut(s) 10, 13
AspLEI GCGC 1 cut(s) 111
AsuC2I CCSGG 1 cut(s) 339
AsuHPI GGTGA 2 cut(s) 230, 241
AsuII TTCGAA 1 cut(s) 197
BalI TGGCCA 1 cut(s) 204
BamHI GGATCC 1 cut(s) 238
BanI GGYRCC 1 cut(s) 490
BbsI GAAGAC 1 cut(s) 94
BbvI GCAGC 2 cut(s) 22, 25
BccI CCATC 2 cut(s) 75, 341
BciT130I CCWGG 1 cut(s) 446
BciVI GTATCC 1 cut(s) 376
BcnI CCSGG 1 cut(s) 339
BfaI CTAG 2 cut(s) 320, 344
BfmI CTRYAG 1 cut(s) 80
BfuI GTATCC 1 cut(s) 376
BisI GCNGC 2 cut(s) 11, 14
BlsI GCNGC 2 cut(s) 12, 15
Bme1390I CCNGG 2 cut(s) 339, 446
BmiI GGNNCC 2 cut(s) 240, 492
BmrFI CCNGG 2 cut(s) 339, 446
BmsI GCATC 1 cut(s) 295
BpiI GAAGAC 1 cut(s) 94
BpmI CTGGAG 1 cut(s) 428
Bpu14I TTCGAA 1 cut(s) 197
BpuMI CCSGG 1 cut(s) 339
BsaJI CCNNGG 2 cut(s) 21, 338
BsaXI ACNNNNNCTCC 2 cut(s) 319, 349
Bse1I ACTGG 2 cut(s) 11, 242
BseBI CCWGG 1 cut(s) 446
BseDI CCNNGG 2 cut(s) 21, 338
BseGI GGATG 1 cut(s) 431
BseMII CTCAG 1 cut(s) 267
BseNI ACTGG 2 cut(s) 11, 242
BseXI GCAGC 2 cut(s) 22, 25
BshFI GGCC 1 cut(s) 204
BshNI GGYRCC 1 cut(s) 490
BsiSI CCGG 1 cut(s) 338
BsnI GGCC 1 cut(s) 204
Bsp119I TTCGAA 1 cut(s) 197
Bsp143I GATC 3 cut(s) 46, 238, 316
BspACI CCGC 2 cut(s) 252, 308
BspANI GGCC 1 cut(s) 204
BspCNI CTCAG 1 cut(s) 268
BspHI TCATGA 1 cut(s) 403
BspLI GGNNCC 2 cut(s) 240, 492
BspPI GGATC 2 cut(s) 233, 246
BspT104I TTCGAA 1 cut(s) 197
BspT107I GGYRCC 1 cut(s) 490
BsrI ACTGG 2 cut(s) 11, 242
BssECI CCNNGG 2 cut(s) 21, 338
BssMI GATC 3 cut(s) 46, 238, 316
BssT1I CCWWGG 1 cut(s) 21
Bst2UI CCWGG 1 cut(s) 446
Bst4CI ACNGT 1 cut(s) 388
Bst6I CTCTTC 1 cut(s) 294
BstBI TTCGAA 1 cut(s) 197
BstC8I GCNNGC 1 cut(s) 206
BstDEI CTNAG 1 cut(s) 276
BstF5I GGATG 1 cut(s) 431
BstHHI GCGC 1 cut(s) 111
BstKTI GATC 3 cut(s) 49, 241, 319
BstMBI GATC 3 cut(s) 46, 238, 316
BstMWI GCNNNNNNNGC 1 cut(s) 332
BstNI CCWGG 1 cut(s) 446
BstSCI CCNGG 2 cut(s) 337, 444
BstSFI CTRYAG 1 cut(s) 80
BstV1I GCAGC 2 cut(s) 22, 25
BstV2I GAAGAC 1 cut(s) 94
BstX2I RGATCY 1 cut(s) 238
BstYI RGATCY 1 cut(s) 238
BsuI GTATCC 1 cut(s) 376
BsuRI GGCC 1 cut(s) 204
BtsCI GGATG 1 cut(s) 431
BtsIMutI CAGTG 1 cut(s) 273
Cac8I GCNNGC 1 cut(s) 206
CciI TCATGA 1 cut(s) 403
CfoI GCGC 1 cut(s) 111
Csp6I GTAC 1 cut(s) 4
CviAII CATG 2 cut(s) 55, 404
CviJI RGCY 7 cut(s) 34, 204, 271, 335, 343, 413, 516
CviKI_1 RGCY 7 cut(s) 34, 204, 271, 335, 343, 413, 516
CviQI GTAC 1 cut(s) 4
DdeI CTNAG 1 cut(s) 276
DpnI GATC 3 cut(s) 48, 240, 318
DpnII GATC 3 cut(s) 46, 238, 316
EaeI YGGCCR 1 cut(s) 202
Eam1104I CTCTTC 1 cut(s) 294
EarI CTCTTC 1 cut(s) 294
Eco130I CCWWGG 1 cut(s) 21
Eco57I CTGAAG 1 cut(s) 275
EcoRII CCWGG 1 cut(s) 444
EcoT14I CCWWGG 1 cut(s) 21
ErhI CCWWGG 1 cut(s) 21
FaeI CATG 2 cut(s) 58, 407
FaiI YATR 5 cut(s) 56, 260, 398, 405, 452
FatI CATG 2 cut(s) 54, 403
Fnu4HI GCNGC 2 cut(s) 11, 14
FokI GGATG 1 cut(s) 418
Fsp4HI GCNGC 2 cut(s) 11, 14
FspBI CTAG 2 cut(s) 320, 344
GlaI GCGC 1 cut(s) 110
GluI GCNGC 2 cut(s) 11, 14
GsuI CTGGAG 1 cut(s) 428
HaeIII GGCC 1 cut(s) 204
HapII CCGG 1 cut(s) 338
HhaI GCGC 1 cut(s) 111
Hin1II CATG 2 cut(s) 58, 407
Hin6I GCGC 1 cut(s) 109
HinP1I GCGC 1 cut(s) 109
HindIII AAGCTT 1 cut(s) 514
HinfI GANTC 3 cut(s) 119, 407, 454
HpaII CCGG 1 cut(s) 338
HphI GGTGA 2 cut(s) 230, 241
Hpy166II GTNNAC 1 cut(s) 192
Hpy188I TCNGA 2 cut(s) 51, 527
Hpy188III TCNNGA 5 cut(s) 116, 182, 227, 293, 404
Hpy8I GTNNAC 1 cut(s) 192
HpyAV CCTTC 1 cut(s) 122
HpyCH4III ACNGT 1 cut(s) 388
HpyCH4V TGCA 1 cut(s) 326
HpyF10VI GCNNNNNNNGC 1 cut(s) 332
HpyF3I CTNAG 1 cut(s) 276
Hsp92II CATG 2 cut(s) 58, 407
HspAI GCGC 1 cut(s) 109
Kzo9I GATC 3 cut(s) 46, 238, 316
LmnI GCTCC 2 cut(s) 340, 447
LpnPI CCDG 9 cut(s) 212, 218, 255, 278, 342, 351, 431, 458, 507
Lsp1109I GCAGC 2 cut(s) 22, 25
LweI GCATC 1 cut(s) 295
MaeI CTAG 2 cut(s) 320, 344
MaeIII GTNAC 2 cut(s) 247, 496
MalI GATC 3 cut(s) 48, 240, 318
MboI GATC 3 cut(s) 46, 238, 316
MboII GAAGA 2 cut(s) 99, 281
MflI RGATCY 1 cut(s) 238
MlsI TGGCCA 1 cut(s) 204
MluCI AATT 5 cut(s) 28, 92, 153, 399, 509
MluNI TGGCCA 1 cut(s) 204
MlyI GAGTC 1 cut(s) 416
MmeI TCCRAC 1 cut(s) 117
MnlI CCTC 2 cut(s) 289, 445
Mox20I TGGCCA 1 cut(s) 204
MscI TGGCCA 1 cut(s) 204
MseI TTAA 4 cut(s) 96, 300, 486, 512
Msp20I TGGCCA 1 cut(s) 204
MspI CCGG 1 cut(s) 338
MspR9I CCNGG 2 cut(s) 339, 446
MvaI CCWGG 1 cut(s) 446
MwoI GCNNNNNNNGC 1 cut(s) 332
NciI CCSGG 1 cut(s) 339
NdeII GATC 3 cut(s) 46, 238, 316
NlaIII CATG 2 cut(s) 58, 407
NlaIV GGNNCC 2 cut(s) 240, 492
NmuCI GTSAC 2 cut(s) 247, 496
NspV TTCGAA 1 cut(s) 197
PagI TCATGA 1 cut(s) 403
PfeI GAWTC 2 cut(s) 119, 454
PkrI GCNGC 2 cut(s) 12, 15
PleI GAGTC 1 cut(s) 415
PpsI GAGTC 1 cut(s) 415
Psp6I CCWGG 1 cut(s) 444
PspGI CCWGG 1 cut(s) 444
PspN4I GGNNCC 2 cut(s) 240, 492
PsuI RGATCY 1 cut(s) 238
RsaI GTAC 1 cut(s) 5
RsaNI GTAC 1 cut(s) 4
SaqAI TTAA 4 cut(s) 96, 300, 486, 512
SatI GCNGC 2 cut(s) 11, 14
Sau3AI GATC 3 cut(s) 46, 238, 316
SchI GAGTC 1 cut(s) 416
ScrFI CCNGG 2 cut(s) 339, 446
SetI ASST 8 cut(s) 27, 273, 300, 325, 337, 450, 496, 518
SfaNI GCATC 1 cut(s) 295
SfcI CTRYAG 1 cut(s) 80
SfuI TTCGAA 1 cut(s) 197
Sse9I AATT 5 cut(s) 28, 92, 153, 399, 509
SsiI CCGC 2 cut(s) 252, 308
SspMI CTAG 2 cut(s) 320, 344
StyD4I CCNGG 2 cut(s) 337, 444
StyI CCWWGG 1 cut(s) 21
TaaI ACNGT 1 cut(s) 388
TaqI TCGA 1 cut(s) 197
TasI AATT 5 cut(s) 28, 92, 153, 399, 509
TatI WGTACW 1 cut(s) 3
TfiI GAWTC 2 cut(s) 119, 454
Tru1I TTAA 4 cut(s) 96, 300, 486, 512
Tru9I TTAA 4 cut(s) 96, 300, 486, 512
TscAI CASTG 1 cut(s) 280
TseFI GTSAC 2 cut(s) 247, 496
TseI GCWGC 2 cut(s) 10, 13
Tsp45I GTSAC 2 cut(s) 247, 496
TspDTI ATGAA 3 cut(s) 275, 392, 467
TspRI CASTG 1 cut(s) 280
XspI CTAG 2 cut(s) 320, 344
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.