Rh6BG225800

ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6B
OG0000147
Physical Location & Seq
Reverse (-)
42630928 .. 42631894
967 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6BG225800.1

Sequence Viewer

Length: 654 bp
ATGAGGACAATCTTGTGGAACTGTCAGGGGCTTGGATCATCCCTGACAGGGAGAACTTTGAGGAAGTTTTGCAAAAGACACAATTCTGAGATCCTGTTTCTGATGGAGACTAGGCAATCAGAGGACACAATAAAGGAGTGGCAGCGCAACTTGAAATTCTTGGATCATCATGTGGTTAATCCCATTGGAACTAATGGGGGATTAGCCCTTTTCTGGGATGATTCTGTGCAGGTCACCGTCCTTGACTCTTCTCCGAATTATATAGATACGGAACGTCTAGATAGAGCTCTGGGGAACTTAGCATGGTGTTCAGGTCAACCAAATACCCAAGTTCTTCACCTTCCCAAGATTGGGTCAGATCATCGACCAATCTTATTGGATACCCAGCCCGACGTTTTGAAAAGCTATGGCCTCTTTCGTTTTGAACAGATGTGGACCACTCATGAGGCTTACAGGGACATAGTTCGAAATTGTTGGACCATTGCTCCTGGTCGATCAGCAATGGAAAATTGGATCAATAATCTTACTCGCTGTACCAAGACTTTGAAAAGATGGAGCAAGGAAACCTTCTCTAACCCTTCTTTGCAGGTTGAGGAATTATTAGCAGATATTGAGAAACTTCATCAGGCCAACCCTCCGGATGCCAGTCAATAG
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

217

Amino Acids

25.05

Weight (kDa)

7.05

Isoelectric Point (pI)

39.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Exo_endo_phos PF03372 6 - 97 7.1e-06 Endonuclease/Exonuclease/phosphatase family
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: 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)
Acc36I ACCTGC 2 cut(s) 220, 577
AccIII TCCGGA 1 cut(s) 637
AclWI GGATC 4 cut(s) 43, 85, 171, 521
AcsI RAATTY 1 cut(s) 155
AfaI GTAC 1 cut(s) 535
AfiI CCNNNNNNNGG 5 cut(s) 48, 213, 214, 350, 351
AgsI TTSAA 4 cut(s) 154, 400, 425, 547
AjnI CCWGG 1 cut(s) 487
AluBI AGCT 2 cut(s) 287, 405
AluI AGCT 2 cut(s) 287, 405
Alw21I GWGCWC 1 cut(s) 289
Alw26I GTCTC 1 cut(s) 101
AlwI GGATC 4 cut(s) 43, 85, 171, 521
Aor13HI TCCGGA 1 cut(s) 637
AoxI GGCC 2 cut(s) 409, 627
ApeKI GCWGC 1 cut(s) 142
ApoI RAATTY 1 cut(s) 155
AspLEI GCGC 1 cut(s) 147
AspS9I GGNCC 2 cut(s) 435, 477
AsuHPI GGTGA 2 cut(s) 226, 329
AsuII TTCGAA 1 cut(s) 466
AvaII GGWCC 2 cut(s) 435, 477
BanII GRGCYC 1 cut(s) 289
Bbv12I GWGCWC 1 cut(s) 289
BbvI GCAGC 1 cut(s) 154
BccI CCATC 2 cut(s) 97, 546
BciT130I CCWGG 1 cut(s) 489
BciVI GTATCC 1 cut(s) 373
BcoDI GTCTC 1 cut(s) 101
BfaI CTAG 2 cut(s) 111, 278
BfuAI ACCTGC 2 cut(s) 220, 577
BfuI GTATCC 1 cut(s) 373
BisI GCNGC 1 cut(s) 143
BlsI GCNGC 1 cut(s) 144
Bme1390I CCNGG 1 cut(s) 489
Bme18I GGWCC 2 cut(s) 435, 477
BmgT120I GGNCC 2 cut(s) 435, 477
BmrFI CCNGG 1 cut(s) 489
BmsI GCATC 1 cut(s) 631
Bpu14I TTCGAA 1 cut(s) 466
BsaWI WCCGGW 1 cut(s) 637
BsaXI ACNNNNNCTCC 2 cut(s) 469, 499
Bsc4I CCNNNNNNNGG 5 cut(s) 48, 213, 214, 350, 351
Bse1I ACTGG 1 cut(s) 645
Bse3DI GCAATG 2 cut(s) 480, 507
BseAI TCCGGA 1 cut(s) 637
BseBI CCWGG 1 cut(s) 489
BseGI GGATG 3 cut(s) 38, 223, 646
BseLI CCNNNNNNNGG 5 cut(s) 48, 213, 214, 350, 351
BseMI GCAATG 2 cut(s) 480, 507
BseMII CTCAG 1 cut(s) 78
BseNI ACTGG 1 cut(s) 645
BseXI GCAGC 1 cut(s) 154
BseYI CCCAGC 1 cut(s) 384
BsgI GTGCAG 1 cut(s) 248
BshFI GGCC 2 cut(s) 411, 629
BsiHKAI GWGCWC 1 cut(s) 289
BsiSI CCGG 1 cut(s) 638
BslFI GGGAC 1 cut(s) 470
BslI CCNNNNNNNGG 5 cut(s) 48, 213, 214, 350, 351
BsmAI GTCTC 1 cut(s) 101
BsmFI GGGAC 1 cut(s) 470
BsnI GGCC 2 cut(s) 411, 629
Bsp119I TTCGAA 1 cut(s) 466
Bsp1286I GDGCHC 1 cut(s) 289
Bsp13I TCCGGA 1 cut(s) 637
Bsp143I GATC 6 cut(s) 35, 90, 163, 358, 494, 513
BspANI GGCC 2 cut(s) 411, 629
BspCNI CTCAG 1 cut(s) 79
BspEI TCCGGA 1 cut(s) 637
BspHI TCATGA 1 cut(s) 442
BspMI ACCTGC 2 cut(s) 220, 577
BspPI GGATC 4 cut(s) 43, 85, 171, 521
BspT104I TTCGAA 1 cut(s) 466
BsrDI GCAATG 2 cut(s) 480, 507
BsrI ACTGG 1 cut(s) 645
BssMI GATC 6 cut(s) 35, 90, 163, 358, 494, 513
Bst2UI CCWGG 1 cut(s) 489
Bst4CI ACNGT 2 cut(s) 23, 238
Bst6I CTCTTC 1 cut(s) 253
BstBI TTCGAA 1 cut(s) 466
BstDEI CTNAG 2 cut(s) 87, 298
BstEII GGTNACC 1 cut(s) 232
BstF5I GGATG 3 cut(s) 38, 223, 646
BstHHI GCGC 1 cut(s) 147
BstKTI GATC 6 cut(s) 38, 93, 166, 361, 497, 516
BstMAI GTCTC 1 cut(s) 101
BstMBI GATC 6 cut(s) 35, 90, 163, 358, 494, 513
BstNI CCWGG 1 cut(s) 489
BstPI GGTNACC 1 cut(s) 232
BstSCI CCNGG 1 cut(s) 487
BstV1I GCAGC 1 cut(s) 154
BstX2I RGATCY 1 cut(s) 90
BstYI RGATCY 1 cut(s) 90
BsuI GTATCC 1 cut(s) 373
BsuRI GGCC 2 cut(s) 411, 629
BtsCI GGATG 3 cut(s) 38, 223, 646
BveI ACCTGC 2 cut(s) 220, 577
CciI TCATGA 1 cut(s) 442
CfoI GCGC 1 cut(s) 147
Cfr13I GGNCC 2 cut(s) 435, 477
Csp6I GTAC 1 cut(s) 534
CviAII CATG 3 cut(s) 170, 303, 443
CviJI RGCY 8 cut(s) 31, 206, 287, 388, 405, 411, 449, 629
CviKI_1 RGCY 8 cut(s) 31, 206, 287, 388, 405, 411, 449, 629
CviQI GTAC 1 cut(s) 534
DdeI CTNAG 2 cut(s) 87, 298
DpnI GATC 6 cut(s) 37, 92, 165, 360, 496, 515
DpnII GATC 6 cut(s) 35, 90, 163, 358, 494, 513
Eam1104I CTCTTC 1 cut(s) 253
EarI CTCTTC 1 cut(s) 253
Ecl136II GAGCTC 1 cut(s) 287
Eco24I GRGCYC 1 cut(s) 289
Eco47I GGWCC 2 cut(s) 435, 477
Eco53kI GAGCTC 1 cut(s) 287
Eco91I GGTNACC 1 cut(s) 232
EcoICRI GAGCTC 1 cut(s) 287
EcoO65I GGTNACC 1 cut(s) 232
EcoRII CCWGG 1 cut(s) 487
EcoT38I GRGCYC 1 cut(s) 289
FaeI CATG 3 cut(s) 173, 306, 446
FaiI YATR 7 cut(s) 171, 261, 263, 304, 408, 444, 461
FalI AAGNNNNNCTT 2 cut(s) 551, 583
FaqI GGGAC 1 cut(s) 470
FatI CATG 3 cut(s) 169, 302, 442
Fnu4HI GCNGC 1 cut(s) 143
FokI GGATG 2 cut(s) 25, 230
FriOI GRGCYC 1 cut(s) 289
Fsp4HI GCNGC 1 cut(s) 143
FspBI CTAG 2 cut(s) 111, 278
GlaI GCGC 1 cut(s) 146
GluI GCNGC 1 cut(s) 143
GsaI CCCAGC 1 cut(s) 388
HaeIII GGCC 2 cut(s) 411, 629
HapII CCGG 1 cut(s) 638
HhaI GCGC 1 cut(s) 147
Hin1II CATG 3 cut(s) 173, 306, 446
Hin6I GCGC 1 cut(s) 145
HinP1I GCGC 1 cut(s) 145
HincII GTYRAC 1 cut(s) 317
HindII GTYRAC 1 cut(s) 317
HinfI GANTC 2 cut(s) 221, 245
HpaII CCGG 1 cut(s) 638
HphI GGTGA 2 cut(s) 226, 329
Hpy166II GTNNAC 2 cut(s) 317, 435
Hpy188I TCNGA 5 cut(s) 88, 102, 121, 255, 358
Hpy188III TCNNGA 3 cut(s) 278, 443, 638
Hpy8I GTNNAC 2 cut(s) 317, 435
Hpy99I CGWCG 1 cut(s) 395
HpyAV CCTTC 3 cut(s) 350, 577, 588
HpyCH4III ACNGT 2 cut(s) 23, 238
HpyCH4IV ACGT 2 cut(s) 274, 393
HpyCH4V TGCA 3 cut(s) 72, 229, 586
HpyF3I CTNAG 2 cut(s) 87, 298
HpySE526I ACGT 2 cut(s) 274, 393
Hsp92II CATG 3 cut(s) 173, 306, 446
HspAI GCGC 1 cut(s) 145
Kpn2I TCCGGA 1 cut(s) 637
Kzo9I GATC 6 cut(s) 35, 90, 163, 358, 494, 513
LmnI GCTCC 2 cut(s) 490, 555
Lsp1109I GCAGC 1 cut(s) 154
LweI GCATC 1 cut(s) 631
MaeI CTAG 2 cut(s) 111, 278
MaeII ACGT 2 cut(s) 274, 393
MaeIII GTNAC 1 cut(s) 232
MalI GATC 6 cut(s) 37, 92, 165, 360, 496, 515
MboI GATC 6 cut(s) 35, 90, 163, 358, 494, 513
MboII GAAGA 2 cut(s) 240, 326
MflI RGATCY 1 cut(s) 90
MhlI GDGCHC 1 cut(s) 289
MluCI AATT 6 cut(s) 82, 155, 256, 469, 508, 596
MlyI GAGTC 1 cut(s) 239
MmeI TCCRAC 1 cut(s) 455
MnlI CCTC 6 cut(s) 54, 115, 422, 439, 586, 645
MroI TCCGGA 1 cut(s) 637
MseI TTAA 1 cut(s) 177
MspI CCGG 1 cut(s) 638
MspR9I CCNGG 1 cut(s) 489
MvaI CCWGG 1 cut(s) 489
NdeII GATC 6 cut(s) 35, 90, 163, 358, 494, 513
NlaIII CATG 3 cut(s) 173, 306, 446
NmuCI GTSAC 1 cut(s) 232
NspV TTCGAA 1 cut(s) 466
PagI TCATGA 1 cut(s) 442
PfeI GAWTC 1 cut(s) 221
PkrI GCNGC 1 cut(s) 144
PleI GAGTC 1 cut(s) 239
PpsI GAGTC 1 cut(s) 239
Psp124BI GAGCTC 1 cut(s) 289
Psp6I CCWGG 1 cut(s) 487
PspEI GGTNACC 1 cut(s) 232
PspFI CCCAGC 1 cut(s) 384
PspGI CCWGG 1 cut(s) 487
PspPI GGNCC 2 cut(s) 435, 477
PsuI RGATCY 1 cut(s) 90
RsaI GTAC 1 cut(s) 535
RsaNI GTAC 1 cut(s) 534
SacI GAGCTC 1 cut(s) 289
SaqAI TTAA 1 cut(s) 177
SatI GCNGC 1 cut(s) 143
Sau3AI GATC 6 cut(s) 35, 90, 163, 358, 494, 513
Sau96I GGNCC 2 cut(s) 435, 477
SchI GAGTC 1 cut(s) 239
ScrFI CCNGG 1 cut(s) 489
SduI GDGCHC 1 cut(s) 289
SetI ASST 9 cut(s) 234, 277, 289, 316, 342, 396, 407, 569, 591
SfaNI GCATC 1 cut(s) 631
SfuI TTCGAA 1 cut(s) 466
SinI GGWCC 2 cut(s) 435, 477
Sse9I AATT 6 cut(s) 82, 155, 256, 469, 508, 596
SspMI CTAG 2 cut(s) 111, 278
SstI GAGCTC 1 cut(s) 289
StyD4I CCNGG 1 cut(s) 487
TaaI ACNGT 2 cut(s) 23, 238
TaiI ACGT 2 cut(s) 277, 396
TaqI TCGA 3 cut(s) 364, 466, 493
TasI AATT 6 cut(s) 82, 155, 256, 469, 508, 596
TfiI GAWTC 1 cut(s) 221
Tru1I TTAA 1 cut(s) 177
Tru9I TTAA 1 cut(s) 177
TseFI GTSAC 1 cut(s) 232
TseI GCWGC 1 cut(s) 142
Tsp45I GTSAC 1 cut(s) 232
TspDTI ATGAA 1 cut(s) 611
TspGWI ACGGA 1 cut(s) 284
VpaK11BI GGWCC 2 cut(s) 435, 477
XapI RAATTY 1 cut(s) 155
XbaI TCTAGA 1 cut(s) 277
XspI CTAG 2 cut(s) 111, 278
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.