Rorug04G0200200

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0000492
Physical Location & Seq
Reverse (-)
34799527 .. 34800108
582 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0200200.1

Sequence Viewer

Length: 582 bp
ATGTACCCCGCCATCGACCTCGCCTTTCACTCCATCACCTCCAAGTCGCCGTCGCTCACAGTCTTCGCTCCGGCCGACGCCGCCTTCTCCAACTCCGGCCACCCCAGTCTCAACCTCCTCCGCTACCACCTCCTCCCCATCGCTTTCCCTCTCCGATCACTCAAGTCCCTCCCGTTCGGTGCCAAGATCGCCACTCTGCTCGACGGCCACTCTCTCACCGTCACCACTCTGTCGTCCGACGACCGCCTCGTCTCGCTCAACAACGTCACCATCACGGCGTCCCCAATTTTTGACGACGGGTCGTTGATCATCTTCGGAACCAACAAATTCTTCGACCCGTATTTCCGGATCTCGGGTCCGATTCGGAGCTATAGCCCCAAGAATCTCTGCTGCTTGGCGCCGCGAAACCCTAACGAAGCGATGGCGGCCGAAACGGCGACGCATTACCTCGGAGATGAGGGGGTTGGAGAGGGAAACGTCGTCGTTTTGGGAGATGGCGGTTTGGTGGCGGTAGTTGAAATGGTGGGAATGGGAGTGGGAGAGGCGGGTGTAGAGGAAAGGAGGAGAAGGAGGAGGGCATAG
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-RVT

Protein Analysis

193

Amino Acids

20.65

Weight (kDa)

6.51

Isoelectric Point (pI)

53.17

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Fasciclin PF02469 14 - 97 6.8e-06 Fasciclin domain
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: OG0000492)

Species Orthologous Gene IDs
arabidopsis_thaliana ATMG01250
fragaria_vesca FvH4_1g20711 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g24611 FvH4_3g28252 FvH4_3g31041 FvH4_4g00611 FvH4_5g15581 FvH4_5g21911 FvH4_5g35851 FvH4_6g24331 FvH4_6g34741
malus_domestica MD07G1291800.v1.1 MD09G1222500.v1.1
prunus_persica Prupe.1G162400_v2.0.a1 Prupe.1G210400_v2.0.a1 Prupe.6G308200_v2.0.a1
pyrus_communis pycom05g02580 pycom12g09210 pycom12g15310 pycom16g09140
rosa_chinensis RchiOBHm_Chr3g0484711 RchiOBHm_Chr4g0393411 RchiOBHm_Chr4g0397521 RchiOBHm_Chr4g0404571 RchiOBHm_Chr4g0418351 RchiOBHm_Chr5g0060311 RchiOBHm_Chr6g0301391 RchiOBHm_Chr7g0229871
rosa_laevigata RLG00000007836 RLG00000025145
rosa_multiflora Rmu_co8327795.1_g000001 Rmu_sc0000469.1_g000005 Rmu_sc0000498.1_g000050 Rmu_sc0000558.1_g000007 Rmu_sc0000693.1_g000082 Rmu_sc0000711.1_g000011 Rmu_sc0000814.1_g000039 Rmu_sc0001366.1_g000005 Rmu_sc0002205.1_g000004 Rmu_sc0002283.1_g000086 Rmu_sc0002406.1_g000011 Rmu_sc0002735.1_g000022 Rmu_sc0003545.1_g000004 Rmu_sc0004406.1_g000009 Rmu_sc0006301.1_g000009 Rmu_sc0006754.1_g000004 Rmu_sc0007324.1_g000010 Rmu_sc0008199.1_g000002 Rmu_sc0008563.1_g000009 Rmu_sc0009777.1_g000007 Rmu_sc0010560.1_g000011 Rmu_sc0011095.1_g000004 Rmu_sc0012101.1_g000004 Rmu_sc0014150.1_g000009 Rmu_sc0020270.1_g000004 Rmu_sc0021327.1_g000001 Rmu_sc0031326.1_g000003 Rmu_ssc0000116.1_g000050 Rmu_ssc0000368.1_g000056
rosa_roxburghii Rroxscaffold_2G00110080 Rroxscaffold_2G00141700 Rroxscaffold_2G00142400
rosa_rugosa Rorug01G0104400 Rorug01G0204500 Rorug02G0225600 Rorug02G0262000.1 Rorug02G0526700 Rorug03G0082000 Rorug03G0102500.1 Rorug04G0106400 Rorug04G0200200 Rorug05G0021900.1 Rorug05G0240000 Rorug05G0326500 Rorug05G0529200 Rorug07G0136100
rosa_samantha Rh1AG352100 Rh6DG494100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 248
AccB1I GGYRCC 2 cut(s) 179, 397
AccII CGCG 1 cut(s) 403
AccIII TCCGGA 1 cut(s) 345
AciI CCGC 9 cut(s) 9, 81, 121, 244, 401, 425, 498, 509, 545
AclWI GGATC 1 cut(s) 356
AcoI YGGCCR 4 cut(s) 72, 97, 205, 426
AcsI RAATTY 1 cut(s) 326
AcyI GRCGYC 3 cut(s) 78, 278, 398
AfaI GTAC 1 cut(s) 5
AfiI CCNNNNNNNGG 1 cut(s) 352
AgsI TTSAA 1 cut(s) 518
AhdI GACNNNNNGTC 1 cut(s) 298
AjuI GAANNNNNNNTTGG 2 cut(s) 314, 346
AluBI AGCT 1 cut(s) 369
AluI AGCT 1 cut(s) 369
Alw26I GTCTC 2 cut(s) 113, 256
AlwI GGATC 1 cut(s) 356
Ama87I CYCGRG 1 cut(s) 352
Aor13HI TCCGGA 1 cut(s) 345
AoxI GGCC 4 cut(s) 72, 97, 205, 426
ApeKI GCWGC 1 cut(s) 390
ApoI RAATTY 1 cut(s) 326
AspLEI GCGC 1 cut(s) 400
AspS9I GGNCC 1 cut(s) 356
AsuHPI GGTGA 4 cut(s) 28, 208, 214, 259
AvaI CYCGRG 1 cut(s) 352
AvaII GGWCC 1 cut(s) 356
BanI GGYRCC 2 cut(s) 179, 397
BbsI GAAGAC 1 cut(s) 55
BbvI GCAGC 1 cut(s) 377
BccI CCATC 6 cut(s) 20, 41, 146, 278, 415, 488
BceAI ACGGC 4 cut(s) 34, 220, 291, 450
BclI TGATCA 1 cut(s) 306
BcoDI GTCTC 2 cut(s) 113, 256
BfmI CTRYAG 1 cut(s) 370
BfoI RGCGCY 1 cut(s) 401
BglI GCCNNNNNGGC 1 cut(s) 434
BisI GCNGC 4 cut(s) 81, 391, 401, 426
BlsI GCNGC 4 cut(s) 82, 392, 402, 427
Bme18I GGWCC 1 cut(s) 356
BmeRI GACNNNNNGTC 1 cut(s) 298
BmeT110I CYCGRG 1 cut(s) 352
BmgT120I GGNCC 1 cut(s) 356
BmiI GGNNCC 4 cut(s) 181, 319, 357, 399
BmrI ACTGGG 1 cut(s) 99
BmuI ACTGGG 1 cut(s) 99
BpiI GAAGAC 1 cut(s) 55
BpuEI CTTGAG 1 cut(s) 146
BsaHI GRCGYC 3 cut(s) 78, 278, 398
BsaJI CCNNGG 1 cut(s) 448
BsaWI WCCGGW 1 cut(s) 345
Bsc4I CCNNNNNNNGG 1 cut(s) 352
Bse1I ACTGG 1 cut(s) 105
BseAI TCCGGA 1 cut(s) 345
BseDI CCNNGG 1 cut(s) 448
BseLI CCNNNNNNNGG 1 cut(s) 352
BseNI ACTGG 1 cut(s) 105
BseRI GAGGAG 3 cut(s) 107, 122, 577
BseX3I CGGCCG 2 cut(s) 72, 426
BseXI GCAGC 1 cut(s) 377
Bsh1236I CGCG 1 cut(s) 403
Bsh1285I CGRYCG 3 cut(s) 75, 244, 429
BshFI GGCC 4 cut(s) 74, 99, 207, 428
BshNI GGYRCC 2 cut(s) 179, 397
BsiEI CGRYCG 3 cut(s) 75, 244, 429
BsiHKCI CYCGRG 1 cut(s) 352
BsiSI CCGG 3 cut(s) 71, 96, 346
BslFI GGGAC 2 cut(s) 151, 265
BslI CCNNNNNNNGG 1 cut(s) 352
BsmAI GTCTC 2 cut(s) 113, 256
BsmBI CGTCTC 1 cut(s) 256
BsmFI GGGAC 2 cut(s) 151, 265
BsnI GGCC 4 cut(s) 74, 99, 207, 428
BsoBI CYCGRG 1 cut(s) 352
Bsp13I TCCGGA 1 cut(s) 345
Bsp143I GATC 4 cut(s) 155, 186, 306, 348
BspACI CCGC 9 cut(s) 9, 81, 121, 244, 401, 425, 498, 509, 545
BspANI GGCC 4 cut(s) 74, 99, 207, 428
BspEI TCCGGA 1 cut(s) 345
BspFNI CGCG 1 cut(s) 403
BspLI GGNNCC 4 cut(s) 181, 319, 357, 399
BspPI GGATC 1 cut(s) 356
BspT107I GGYRCC 2 cut(s) 179, 397
BsrI ACTGG 1 cut(s) 105
BssECI CCNNGG 1 cut(s) 448
BssMI GATC 4 cut(s) 155, 186, 306, 348
BssNI GRCGYC 3 cut(s) 78, 278, 398
Bst4CI ACNGT 2 cut(s) 61, 220
BstACI GRCGYC 3 cut(s) 78, 278, 398
BstFNI CGCG 1 cut(s) 403
BstH2I RGCGCY 1 cut(s) 401
BstHHI GCGC 1 cut(s) 400
BstKTI GATC 4 cut(s) 158, 189, 309, 351
BstMAI GTCTC 2 cut(s) 113, 256
BstMBI GATC 4 cut(s) 155, 186, 306, 348
BstMCI CGRYCG 3 cut(s) 75, 244, 429
BstMWI GCNNNNNNNGC 4 cut(s) 80, 188, 425, 434
BstSFI CTRYAG 1 cut(s) 370
BstUI CGCG 1 cut(s) 403
BstV1I GCAGC 1 cut(s) 377
BstV2I GAAGAC 1 cut(s) 55
BstX2I RGATCY 1 cut(s) 348
BstYI RGATCY 1 cut(s) 348
BstZI CGGCCG 2 cut(s) 72, 426
BsuRI GGCC 4 cut(s) 74, 99, 207, 428
BtgZI GCGATG 2 cut(s) 124, 434
CfoI GCGC 1 cut(s) 400
Cfr13I GGNCC 1 cut(s) 356
CseI GACGC 3 cut(s) 86, 267, 448
Csp6I GTAC 1 cut(s) 4
CviJI RGCY 6 cut(s) 74, 99, 207, 369, 375, 428
CviKI_1 RGCY 6 cut(s) 74, 99, 207, 369, 375, 428
CviQI GTAC 1 cut(s) 4
DinI GGCGCC 1 cut(s) 399
DpnI GATC 4 cut(s) 157, 188, 308, 350
DpnII GATC 4 cut(s) 155, 186, 306, 348
DrdI GACNNNNNNGTC 1 cut(s) 248
DriI GACNNNNNGTC 1 cut(s) 298
DseDI GACNNNNNNGTC 1 cut(s) 248
EaeI YGGCCR 4 cut(s) 72, 97, 205, 426
EagI CGGCCG 2 cut(s) 72, 426
Eam1105I GACNNNNNGTC 1 cut(s) 298
EclXI CGGCCG 2 cut(s) 72, 426
Eco47I GGWCC 1 cut(s) 356
Eco52I CGGCCG 2 cut(s) 72, 426
Eco88I CYCGRG 1 cut(s) 352
EgeI GGCGCC 1 cut(s) 399
EheI GGCGCC 1 cut(s) 399
Esp3I CGTCTC 1 cut(s) 256
FaiI YATR 2 cut(s) 372, 580
FaqI GGGAC 2 cut(s) 151, 265
FauI CCCGC 2 cut(s) 16, 538
FbaI TGATCA 1 cut(s) 306
Fnu4HI GCNGC 4 cut(s) 81, 391, 401, 426
Fsp4HI GCNGC 4 cut(s) 81, 391, 401, 426
GlaI GCGC 1 cut(s) 399
GluI GCNGC 4 cut(s) 81, 391, 401, 426
HaeII RGCGCY 1 cut(s) 401
HaeIII GGCC 4 cut(s) 74, 99, 207, 428
HapII CCGG 3 cut(s) 71, 96, 346
HgaI GACGC 3 cut(s) 86, 267, 448
HhaI GCGC 1 cut(s) 400
Hin1I GRCGYC 3 cut(s) 78, 278, 398
Hin6I GCGC 1 cut(s) 398
HinP1I GCGC 1 cut(s) 398
HinfI GANTC 2 cut(s) 361, 382
HpaII CCGG 3 cut(s) 71, 96, 346
HphI GGTGA 4 cut(s) 28, 208, 214, 259
Hpy188I TCNGA 6 cut(s) 155, 238, 317, 360, 366, 452
Hpy188III TCNNGA 1 cut(s) 346
Hpy99I CGWCG 8 cut(s) 55, 80, 206, 242, 299, 442, 482, 485
HpyAV CCTTC 2 cut(s) 94, 561
HpyCH4III ACNGT 2 cut(s) 61, 220
HpyCH4IV ACGT 2 cut(s) 264, 477
HpyF10VI GCNNNNNNNGC 4 cut(s) 80, 188, 425, 434
HpySE526I ACGT 2 cut(s) 264, 477
Hsp92I GRCGYC 3 cut(s) 78, 278, 398
HspAI GCGC 1 cut(s) 398
KasI GGCGCC 1 cut(s) 397
Kpn2I TCCGGA 1 cut(s) 345
Ksp22I TGATCA 1 cut(s) 306
Kzo9I GATC 4 cut(s) 155, 186, 306, 348
LmnI GCTCC 2 cut(s) 73, 366
LpnPI CCDG 4 cut(s) 84, 109, 118, 359
Lsp1109I GCAGC 1 cut(s) 377
MaeII ACGT 2 cut(s) 264, 477
MaeIII GTNAC 2 cut(s) 220, 265
MalI GATC 4 cut(s) 157, 188, 308, 350
MboI GATC 4 cut(s) 155, 186, 306, 348
MboII GAAGA 3 cut(s) 55, 304, 322
MflI RGATCY 1 cut(s) 348
MluCI AATT 2 cut(s) 285, 326
Mly113I GGCGCC 1 cut(s) 398
MmeI TCCRAC 3 cut(s) 114, 261, 445
MroI TCCGGA 1 cut(s) 345
MspI CCGG 3 cut(s) 71, 96, 346
MvnI CGCG 1 cut(s) 403
MwoI GCNNNNNNNGC 4 cut(s) 80, 188, 425, 434
NarI GGCGCC 1 cut(s) 398
NdeII GATC 4 cut(s) 155, 186, 306, 348
NlaIV GGNNCC 4 cut(s) 181, 319, 357, 399
NmuCI GTSAC 2 cut(s) 220, 265
PcsI WCGNNNNNNNCGW 2 cut(s) 72, 246
PfeI GAWTC 2 cut(s) 361, 382
PkrI GCNGC 4 cut(s) 82, 392, 402, 427
PluTI GGCGCC 1 cut(s) 401
PspN4I GGNNCC 4 cut(s) 181, 319, 357, 399
PspPI GGNCC 1 cut(s) 356
PsuI RGATCY 1 cut(s) 348
RsaI GTAC 1 cut(s) 5
RsaNI GTAC 1 cut(s) 4
SatI GCNGC 4 cut(s) 81, 391, 401, 426
Sau3AI GATC 4 cut(s) 155, 186, 306, 348
Sau96I GGNCC 1 cut(s) 356
SetI ASST 8 cut(s) 21, 41, 117, 132, 267, 371, 450, 480
SfcI CTRYAG 1 cut(s) 370
SfoI GGCGCC 1 cut(s) 399
SinI GGWCC 1 cut(s) 356
SmlI CTYRAG 1 cut(s) 161
SmoI CTYRAG 1 cut(s) 161
Sse9I AATT 2 cut(s) 285, 326
SsiI CCGC 9 cut(s) 9, 81, 121, 244, 401, 425, 498, 509, 545
SspDI GGCGCC 1 cut(s) 397
TaaI ACNGT 2 cut(s) 61, 220
TaiI ACGT 2 cut(s) 267, 480
TaqI TCGA 3 cut(s) 15, 201, 333
TasI AATT 2 cut(s) 285, 326
TauI GCSGC 3 cut(s) 83, 403, 428
TfiI GAWTC 2 cut(s) 361, 382
TseFI GTSAC 2 cut(s) 220, 265
TseI GCWGC 1 cut(s) 390
Tsp45I GTSAC 2 cut(s) 220, 265
VpaK11BI GGWCC 1 cut(s) 356
XapI RAATTY 1 cut(s) 326
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.