Rorug04G0128800

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0000308
Physical Location & Seq
Reverse (-)
20487349 .. 20488219
871 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0128800.1

Sequence Viewer

Length: 537 bp
ATGCCTCCTCATCCTCACCACCACCACCACCACCACCACCATCATGATCAACCACCGCCCCCAAAACCCAATCCGAAGCTCCTATCTTCAATCCTCAAAGCTCTCATAATGACCTTCATAACCTCAATCTTCTTCCTCTTCCTCGGCTTCGTCGCCTTCCTCCTCTTTCTCATCCTCTCCGCCGGCGCTCTCCACCGTCGCCGCACCCAGTTCGACCTCCCATCATCTGGGTTCTCCCCCAGACACTTCAAGACCCTCCCTCAGTTCCGCTTCCGAACCCAAAACCAAACGGCGTCGTCGTCCGACTGCGTCGTCTGCCTGGACGCGTTTCGGGAAGGCCAGTGGTGCCGGAAACTCCCTGCATGTGGTCACCTGTTCCATAGGAGGTGCCTCGACACGTGGCTCGTTAAGGTTTCGGTTTGTCCCATTTGCCGGACACCTGTTCAATTAGGGAACACTGCCTCCGCCGCCGGTGAAGAAGAAGAGGCAAAGCGCTTGTGGAATTTTAATAGGAACACTAATTCAAGGGTTTGGTAG
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

178

Amino Acids

20.53

Weight (kDa)

10.0

Isoelectric Point (pI)

50.93

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-RING_2 PF13639 102 - 145 5.2e-13 Ring finger domain
zf-RING_11 PF17123 102 - 131 3.7e-09 RING-like zinc finger
zf-C3HC4_2 PF13923 103 - 144 3.9e-07 Zinc finger, C3HC4 type (RING finger)
zf-rbx1 PF12678 103 - 145 8.2e-07 RING-H2 zinc finger 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
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Orthologous Genes (Group: OG0000308)

Species Orthologous Gene IDs
fragaria_vesca FvH4_2g24891 FvH4_4g09031
rosa_multiflora Rmu_co8001542.1_g000001 Rmu_co8074240.1_g000001 Rmu_co8092076.1_g000001 Rmu_co8136936.1_g000001 Rmu_co8303129.1_g000001 Rmu_co8326579.1_g000001 Rmu_co8378475.1_g000001 Rmu_co8409011.1_g000001 Rmu_co8449663.1_g000001 Rmu_co8463085.1_g000001 Rmu_sc0000146.1_g000025 Rmu_sc0000294.1_g000018 Rmu_sc0000299.1_g000003 Rmu_sc0000342.1_g000003 Rmu_sc0000359.1_g000009 Rmu_sc0000431.1_g000022 Rmu_sc0000442.1_g000006 Rmu_sc0000458.1_g000011 Rmu_sc0000560.1_g000013 Rmu_sc0000594.1_g000075 Rmu_sc0000740.1_g000033 Rmu_sc0000839.1_g000002 Rmu_sc0000939.1_g000034 Rmu_sc0000955.1_g000002 Rmu_sc0001069.1_g000045 Rmu_sc0001074.1_g000019 Rmu_sc0001418.1_g000003 Rmu_sc0001484.1_g000006 Rmu_sc0001499.1_g000062 Rmu_sc0001631.1_g000002 Rmu_sc0001639.1_g000021 Rmu_sc0002146.1_g000007 Rmu_sc0002146.1_g000010 Rmu_sc0002260.1_g000065 Rmu_sc0002273.1_g000005 Rmu_sc0002310.1_g000016 Rmu_sc0002414.1_g000051 Rmu_sc0002479.1_g000003 Rmu_sc0002586.1_g000034 Rmu_sc0002586.1_g000035 Rmu_sc0002589.1_g000034 Rmu_sc0003187.1_g000020 Rmu_sc0003444.1_g000018 Rmu_sc0003633.1_g000041 Rmu_sc0003973.1_g000010 Rmu_sc0004209.1_g000004 Rmu_sc0004927.1_g000020 Rmu_sc0004950.1_g000007 Rmu_sc0004952.1_g000012 Rmu_sc0004966.1_g000001 Rmu_sc0006168.1_g000026 Rmu_sc0006325.1_g000003 Rmu_sc0006413.1_g000015 Rmu_sc0007192.1_g000002 Rmu_sc0007390.1_g000004 Rmu_sc0007847.1_g000003 Rmu_sc0008044.1_g000001 Rmu_sc0008101.1_g000008 Rmu_sc0008442.1_g000015 Rmu_sc0008714.1_g000004 Rmu_sc0009057.1_g000009 Rmu_sc0009916.1_g000015 Rmu_sc0010180.1_g000003 Rmu_sc0010560.1_g000005 Rmu_sc0010715.1_g000005 Rmu_sc0011022.1_g000002 Rmu_sc0011509.1_g000006 Rmu_sc0011831.1_g000006 Rmu_sc0012010.1_g000002 Rmu_sc0013320.1_g000007 Rmu_sc0013801.1_g000006 Rmu_sc0013801.1_g000007 Rmu_sc0013887.1_g000002 Rmu_sc0014485.1_g000014 Rmu_sc0018736.1_g000001 Rmu_sc0019355.1_g000001 Rmu_sc0020316.1_g000002 Rmu_sc0021214.1_g000001 Rmu_sc0021375.1_g000001 Rmu_sc0023412.1_g000001 Rmu_sc0024234.1_g000001 Rmu_sc0027415.1_g000001 Rmu_sc0029109.1_g000001 Rmu_sc0031708.1_g000001 Rmu_sc0035307.1_g000001 Rmu_sc0036546.1_g000001 Rmu_sc0037386.1_g000005 Rmu_sc0039204.1_g000001 Rmu_sc0039709.1_g000001 Rmu_sc0039867.1_g000001 Rmu_sc0040008.1_g000002 Rmu_sc0040009.1_g000002 Rmu_sc0041433.1_g000001 Rmu_sc0043076.1_g000001 Rmu_ssc0000024.1_g000022 Rmu_ssc0000065.1_g000003 Rmu_ssc0000100.1_g000036 Rmu_ssc0000171.1_g000015 Rmu_ssc0000190.1_g000018 Rmu_ssc0000226.1_g000017 Rmu_ssc0000244.1_g000039 Rmu_ssc0000419.1_g000008 Rmu_ssc0000451.1_g000014
rosa_roxburghii Rroxscaffold_1G00006150 Rroxscaffold_3G00219360 Rroxscaffold_5G00368320 Rroxscaffold_7G00191310
rosa_rugosa Rorug04G0060300 Rorug04G0115300 Rorug04G0128800
rosa_samantha Rh1AG029600 Rh2BG406100 Rh4DG128300 Rh5DG195500 Rh6AG427300 Rh6CG440900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 311
AccB1I GGYRCC 2 cut(s) 345, 387
AccB7I CCANNNNNTGG 1 cut(s) 227
AccII CGCG 1 cut(s) 326
AciI CCGC 6 cut(s) 56, 180, 202, 268, 465, 468
AcsI RAATTY 1 cut(s) 502
AcvI CACGTG 1 cut(s) 399
AcyI GRCGYC 1 cut(s) 293
AfeI AGCGCT 1 cut(s) 494
AfiI CCNNNNNNNGG 3 cut(s) 227, 365, 432
AflIII ACRYGT 2 cut(s) 324, 396
AgsI TTSAA 4 cut(s) 90, 250, 446, 525
AjnI CCWGG 1 cut(s) 318
AloI GAACNNNNNNTCC 2 cut(s) 446, 478
AluBI AGCT 2 cut(s) 79, 101
AluI AGCT 2 cut(s) 79, 101
Aor51HI AGCGCT 1 cut(s) 494
AoxI GGCC 1 cut(s) 337
ApoI RAATTY 1 cut(s) 502
AspLEI GCGC 2 cut(s) 188, 495
AsuHPI GGTGA 3 cut(s) 8, 362, 485
BanI GGYRCC 2 cut(s) 345, 387
BbrPI CACGTG 1 cut(s) 399
BccI CCATC 2 cut(s) 48, 229
BceAI ACGGC 1 cut(s) 306
BcgI CGANNNNNNTGC 2 cut(s) 193, 227
BciT130I CCWGG 1 cut(s) 320
BclI TGATCA 1 cut(s) 46
BfoI RGCGCY 2 cut(s) 189, 496
BisI GCNGC 2 cut(s) 202, 468
BlsI GCNGC 2 cut(s) 203, 469
Bme1390I CCNGG 1 cut(s) 320
BmiI GGNNCC 2 cut(s) 347, 389
BmrFI CCNGG 1 cut(s) 320
BmrI ACTGGG 1 cut(s) 202
BmuI ACTGGG 1 cut(s) 202
BsaAI YACGTR 1 cut(s) 399
BsaHI GRCGYC 1 cut(s) 293
BsaJI CCNNGG 1 cut(s) 142
BsaXI ACNNNNNCTCC 2 cut(s) 446, 476
Bsc4I CCNNNNNNNGG 3 cut(s) 227, 365, 432
Bse118I RCCGGY 2 cut(s) 182, 470
Bse1I ACTGG 2 cut(s) 208, 340
BseBI CCWGG 1 cut(s) 320
BseDI CCNNGG 1 cut(s) 142
BseGI GGATG 2 cut(s) 10, 171
BseLI CCNNNNNNNGG 3 cut(s) 227, 365, 432
BseMII CTCAG 1 cut(s) 275
BseNI ACTGG 2 cut(s) 208, 340
BseRI GAGGAG 1 cut(s) 152
Bsh1236I CGCG 1 cut(s) 326
BshFI GGCC 1 cut(s) 339
BshNI GGYRCC 2 cut(s) 345, 387
BsiSI CCGG 4 cut(s) 183, 349, 433, 471
BslFI GGGAC 1 cut(s) 408
BslI CCNNNNNNNGG 3 cut(s) 227, 365, 432
BsmFI GGGAC 1 cut(s) 408
BsnI GGCC 1 cut(s) 339
Bsp143I GATC 1 cut(s) 46
BspACI CCGC 6 cut(s) 56, 180, 202, 268, 465, 468
BspANI GGCC 1 cut(s) 339
BspCNI CTCAG 1 cut(s) 274
BspFNI CGCG 1 cut(s) 326
BspHI TCATGA 1 cut(s) 43
BspLI GGNNCC 2 cut(s) 347, 389
BspT107I GGYRCC 2 cut(s) 345, 387
BsrFI RCCGGY 2 cut(s) 182, 470
BsrI ACTGG 2 cut(s) 208, 340
BssAI RCCGGY 2 cut(s) 182, 470
BssECI CCNNGG 1 cut(s) 142
BssMI GATC 1 cut(s) 46
BssNI GRCGYC 1 cut(s) 293
Bst2UI CCWGG 1 cut(s) 320
Bst4CI ACNGT 1 cut(s) 197
Bst6I CTCTTC 2 cut(s) 143, 477
BstACI GRCGYC 1 cut(s) 293
BstBAI YACGTR 1 cut(s) 399
BstC8I GCNNGC 1 cut(s) 184
BstDEI CTNAG 1 cut(s) 261
BstEII GGTNACC 1 cut(s) 368
BstF5I GGATG 2 cut(s) 10, 171
BstFNI CGCG 1 cut(s) 326
BstH2I RGCGCY 2 cut(s) 189, 496
BstHHI GCGC 2 cut(s) 188, 495
BstKTI GATC 1 cut(s) 49
BstMBI GATC 1 cut(s) 46
BstMWI GCNNNNNNNGC 3 cut(s) 315, 345, 467
BstNI CCWGG 1 cut(s) 320
BstNSI RCATGY 1 cut(s) 366
BstPI GGTNACC 1 cut(s) 368
BstSCI CCNGG 1 cut(s) 318
BstUI CGCG 1 cut(s) 326
BsuRI GGCC 1 cut(s) 339
BtsCI GGATG 2 cut(s) 10, 171
BtsI GCAGTG 1 cut(s) 456
BtsIMutI CAGTG 2 cut(s) 347, 456
Cac8I GCNNGC 1 cut(s) 184
CciI TCATGA 1 cut(s) 43
CfoI GCGC 2 cut(s) 188, 495
Cfr10I RCCGGY 2 cut(s) 182, 470
CseI GACGC 3 cut(s) 282, 298, 332
CviAII CATG 2 cut(s) 44, 363
CviJI RGCY 5 cut(s) 79, 101, 147, 339, 403
CviKI_1 RGCY 5 cut(s) 79, 101, 147, 339, 403
DdeI CTNAG 1 cut(s) 261
DpnI GATC 1 cut(s) 48
DpnII GATC 1 cut(s) 46
DrdI GACNNNNNNGTC 1 cut(s) 311
DseDI GACNNNNNNGTC 1 cut(s) 311
Eam1104I CTCTTC 2 cut(s) 143, 477
EarI CTCTTC 2 cut(s) 143, 477
EciI GGCGGA 2 cut(s) 169, 454
Eco47III AGCGCT 1 cut(s) 494
Eco72I CACGTG 1 cut(s) 399
Eco91I GGTNACC 1 cut(s) 368
EcoO65I GGTNACC 1 cut(s) 368
EcoRII CCWGG 1 cut(s) 318
FaeI CATG 2 cut(s) 47, 366
FaiI YATR 5 cut(s) 45, 107, 119, 364, 381
FaqI GGGAC 1 cut(s) 408
FatI CATG 2 cut(s) 43, 362
FbaI TGATCA 1 cut(s) 46
Fnu4HI GCNGC 2 cut(s) 202, 468
FokI GGATG 1 cut(s) 158
Fsp4HI GCNGC 2 cut(s) 202, 468
GlaI GCGC 2 cut(s) 187, 494
GluI GCNGC 2 cut(s) 202, 468
HaeII RGCGCY 2 cut(s) 189, 496
HaeIII GGCC 1 cut(s) 339
HapII CCGG 4 cut(s) 183, 349, 433, 471
HgaI GACGC 3 cut(s) 282, 298, 332
HhaI GCGC 2 cut(s) 188, 495
Hin1I GRCGYC 1 cut(s) 293
Hin1II CATG 2 cut(s) 47, 366
Hin6I GCGC 2 cut(s) 186, 493
HinP1I GCGC 2 cut(s) 186, 493
HpaII CCGG 4 cut(s) 183, 349, 433, 471
HphI GGTGA 3 cut(s) 8, 362, 485
Hpy188I TCNGA 3 cut(s) 75, 275, 304
Hpy188III TCNNGA 3 cut(s) 44, 250, 332
Hpy99I CGWCG 5 cut(s) 155, 201, 298, 301, 314
HpyAV CCTTC 3 cut(s) 124, 166, 329
HpyCH4III ACNGT 1 cut(s) 197
HpyCH4IV ACGT 1 cut(s) 398
HpyCH4V TGCA 1 cut(s) 362
HpyF10VI GCNNNNNNNGC 3 cut(s) 315, 345, 467
HpyF3I CTNAG 1 cut(s) 261
HpySE526I ACGT 1 cut(s) 398
Hsp92I GRCGYC 1 cut(s) 293
Hsp92II CATG 2 cut(s) 47, 366
HspAI GCGC 2 cut(s) 186, 493
KroI GCCGGC 1 cut(s) 182
KroNI GCCGGC 1 cut(s) 184
Ksp22I TGATCA 1 cut(s) 46
Kzo9I GATC 1 cut(s) 46
LmnI GCTCC 1 cut(s) 84
MaeII ACGT 1 cut(s) 398
MaeIII GTNAC 1 cut(s) 368
MalI GATC 1 cut(s) 48
MboI GATC 1 cut(s) 46
MboII GAAGA 7 cut(s) 78, 121, 124, 130, 488, 491, 494
MluCI AATT 3 cut(s) 446, 502, 520
MluI ACGCGT 1 cut(s) 324
MmeI TCCRAC 1 cut(s) 327
MreI CGCCGGCG 1 cut(s) 182
MroNI GCCGGC 1 cut(s) 182
MseI TTAA 2 cut(s) 408, 507
MslI CAYNNNNRTG 1 cut(s) 42
MspI CCGG 4 cut(s) 183, 349, 433, 471
MspR9I CCNGG 1 cut(s) 320
MvaI CCWGG 1 cut(s) 320
MvnI CGCG 1 cut(s) 326
MwoI GCNNNNNNNGC 3 cut(s) 315, 345, 467
NaeI GCCGGC 1 cut(s) 184
NdeII GATC 1 cut(s) 46
NgoMIV GCCGGC 1 cut(s) 182
NlaIII CATG 2 cut(s) 47, 366
NlaIV GGNNCC 2 cut(s) 347, 389
NmeAIII GCCGAG 1 cut(s) 123
NmuCI GTSAC 1 cut(s) 368
NspI RCATGY 1 cut(s) 366
PagI TCATGA 1 cut(s) 43
PcsI WCGNNNNNNNCGW 1 cut(s) 296
PdiI GCCGGC 1 cut(s) 184
PflFI GACNNNGTC 1 cut(s) 308
PflMI CCANNNNNTGG 1 cut(s) 227
PkrI GCNGC 2 cut(s) 203, 469
PmaCI CACGTG 1 cut(s) 399
PmlI CACGTG 1 cut(s) 399
Ppu21I YACGTR 1 cut(s) 399
Psp6I CCWGG 1 cut(s) 318
PspCI CACGTG 1 cut(s) 399
PspEI GGTNACC 1 cut(s) 368
PspGI CCWGG 1 cut(s) 318
PspN4I GGNNCC 2 cut(s) 347, 389
PsyI GACNNNGTC 1 cut(s) 308
RseI CAYNNNNRTG 1 cut(s) 42
SaqAI TTAA 2 cut(s) 408, 507
SatI GCNGC 2 cut(s) 202, 468
Sau3AI GATC 1 cut(s) 46
ScrFI CCNGG 1 cut(s) 320
SgrAI CRCCGGYG 2 cut(s) 182, 470
SmiMI CAYNNNNRTG 1 cut(s) 42
Sse9I AATT 3 cut(s) 446, 502, 520
SsiI CCGC 6 cut(s) 56, 180, 202, 268, 465, 468
StyD4I CCNGG 1 cut(s) 318
TaaI ACNGT 1 cut(s) 197
TaiI ACGT 1 cut(s) 401
TaqI TCGA 2 cut(s) 213, 393
TasI AATT 3 cut(s) 446, 502, 520
TauI GCSGC 2 cut(s) 204, 470
Tru1I TTAA 2 cut(s) 408, 507
Tru9I TTAA 2 cut(s) 408, 507
TscAI CASTG 2 cut(s) 347, 463
TseFI GTSAC 1 cut(s) 368
Tsp45I GTSAC 1 cut(s) 368
TspDTI ATGAA 1 cut(s) 106
TspRI CASTG 2 cut(s) 347, 463
Tth111I GACNNNGTC 1 cut(s) 308
Van91I CCANNNNNTGG 1 cut(s) 227
XapI RAATTY 1 cut(s) 502
XceI RCATGY 1 cut(s) 366
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.