Rroxscaffold_1G00001520

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0000147
Physical Location & Seq
Forward (+)
1845582 .. 1848701
3120 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00001520.1

Sequence Viewer

Length: 942 bp
ATGCTTTCCACCCTCTCTGTTTGGGTTCGTTTTCCTTTGTTACCTCCTCACTGTTGGACTCGTGAAAAGGTTATCAAATTGGCTGATGCTATAGGTCATTGTCGTATGGTAGACCTTGAATCCCTCAATCCCAACACTTCTCTCTTTGCTCGACCTTGTGTTGAACTAGATCTTACTAAAACCCAGCCTCATGCTCTTAGGTTGCATGCTGACCCCTTTTCTAATGAATTGAAACTGATCTATCTAAATTATGAGACTTTAGTTGAAGCCTGCTCCTTTTGTGGGCGCATTGATCACCCGTTAGGTTCATGTCCCTCTCGTGCTCCTCGTAGGAATTTCCTCATGCTTCCCCGTCATCAAAATGAACCCAAGAGTATCCCTGACAAACAACAACATTCCTCTCAGAATACTTCGAGAACTCCTGTATCTGAATTTCGGTCCTTCTCTCTACGAGGGCGTGCTGCCGCTCGCTCTGCTTTTCGTCGTGCCGGTGTATCATTTGTAGATGCTGCAAGAAATTTCGATGATGTGGTTGCTCCGCGCGTTGTTCCTCCTACTTCCTCCACTCAAGATAAACAGGTTTCAGACTCTATTCCTGACCTGCATACTGCTACGGCTCCTATCCCTGAGCCGGACCCATTGGATGCTACTACCTCACCAGCTATTCCGGCTGCTGCTCCTGAAGATGATTTGGAGGCCAATGAGGAACTTGATCCTGGTTTAGATAATGAAGAGCTAGAAGAAGAAGTTGAGATTGTGGAGGTTACTGCTCCTGAACTGCAGAATTCTACTTTACCTTACCGTAGTCCCAGAAAGCGAGGTAGAGAGGATTTAGAGCTTTTGGATGCAGAACCTTCTTCTAATGTGCCAGAATCAGTGTGCTTTGTTGGAAGTGTCGTGGCTGTTCATGACGTGGGTTTTTGTCTCAAACTTTGTTCCTAA
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

313

Amino Acids

34.63

Weight (kDa)

5.12

Isoelectric Point (pI)

49.8

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)
Acc36I ACCTGC 1 cut(s) 609
AccBSI CCGCTC 1 cut(s) 467
AccI GTMKAC 1 cut(s) 111
AccII CGCG 2 cut(s) 541, 543
AciI CCGC 2 cut(s) 465, 539
AclWI GGATC 1 cut(s) 707
AcsI RAATTY 4 cut(s) 334, 431, 517, 784
AcuI CTGAAG 1 cut(s) 702
AfiI CCNNNNNNNGG 2 cut(s) 282, 631
AgsI TTSAA 4 cut(s) 119, 164, 232, 266
AjiI CACGTC 1 cut(s) 913
AjnI CCWGG 1 cut(s) 715
AluBI AGCT 3 cut(s) 662, 736, 838
AluI AGCT 3 cut(s) 662, 736, 838
Alw21I GWGCWC 1 cut(s) 325
Alw26I GTCTC 2 cut(s) 248, 929
AlwI GGATC 1 cut(s) 707
AoxI GGCC 1 cut(s) 696
ApeKI GCWGC 4 cut(s) 461, 509, 671, 674
ApoI RAATTY 4 cut(s) 334, 431, 517, 784
AspLEI GCGC 2 cut(s) 288, 543
AspS9I GGNCC 2 cut(s) 438, 634
AsuHPI GGTGA 2 cut(s) 287, 648
AvaII GGWCC 2 cut(s) 438, 634
BaeI ACNNNNGTAYC 2 cut(s) 408, 441
BauI CACGAG 2 cut(s) 60, 318
Bbv12I GWGCWC 1 cut(s) 325
BbvI GCAGC 4 cut(s) 448, 496, 658, 661
BceAI ACGGC 1 cut(s) 630
BciT130I CCWGG 1 cut(s) 717
BciVI GTATCC 1 cut(s) 386
BclI TGATCA 1 cut(s) 292
BcoDI GTCTC 2 cut(s) 248, 929
BfaI CTAG 2 cut(s) 167, 737
BfmI CTRYAG 2 cut(s) 90, 779
BfuAI ACCTGC 1 cut(s) 609
BfuI GTATCC 1 cut(s) 386
BglII AGATCT 1 cut(s) 169
BisI GCNGC 5 cut(s) 462, 465, 510, 672, 675
BlsI GCNGC 5 cut(s) 463, 466, 511, 673, 676
Bme1390I CCNGG 1 cut(s) 717
Bme18I GGWCC 2 cut(s) 438, 634
BmgBI CACGTC 1 cut(s) 913
BmgT120I GGNCC 2 cut(s) 438, 634
BmiI GGNNCC 2 cut(s) 618, 636
BmrFI CCNGG 1 cut(s) 717
BmsI GCATC 4 cut(s) 76, 496, 634, 835
Bpu10I CCTNAGC 1 cut(s) 627
BpuEI CTTGAG 1 cut(s) 552
Bsc4I CCNNNNNNNGG 2 cut(s) 282, 631
Bse118I RCCGGY 1 cut(s) 488
BseBI CCWGG 1 cut(s) 717
BseGI GGATG 2 cut(s) 649, 850
BseLI CCNNNNNNNGG 2 cut(s) 282, 631
BseMII CTCAG 2 cut(s) 416, 618
BseRI GAGGAG 2 cut(s) 36, 315
BseXI GCAGC 4 cut(s) 448, 496, 658, 661
BseYI CCCAGC 1 cut(s) 183
Bsh1236I CGCG 2 cut(s) 541, 543
BshFI GGCC 1 cut(s) 698
BsiHKAI GWGCWC 1 cut(s) 325
BsiSI CCGG 3 cut(s) 489, 632, 668
BslFI GGGAC 2 cut(s) 297, 792
BslI CCNNNNNNNGG 2 cut(s) 282, 631
BsmAI GTCTC 2 cut(s) 248, 929
BsmFI GGGAC 2 cut(s) 297, 792
BsnI GGCC 1 cut(s) 698
Bsp1286I GDGCHC 1 cut(s) 325
Bsp143I GATC 4 cut(s) 169, 237, 292, 712
BspACI CCGC 2 cut(s) 465, 539
BspANI GGCC 1 cut(s) 698
BspCNI CTCAG 2 cut(s) 415, 619
BspFNI CGCG 2 cut(s) 541, 543
BspHI TCATGA 1 cut(s) 907
BspLI GGNNCC 2 cut(s) 618, 636
BspMAI CTGCAG 1 cut(s) 783
BspMI ACCTGC 1 cut(s) 609
BspPI GGATC 1 cut(s) 707
BspQI GCTCTTC 1 cut(s) 726
BsrBI CCGCTC 1 cut(s) 467
BsrFI RCCGGY 1 cut(s) 488
BssAI RCCGGY 1 cut(s) 488
BssMI GATC 4 cut(s) 169, 237, 292, 712
BssSI CACGAG 2 cut(s) 60, 318
Bst2BI CACGAG 2 cut(s) 60, 318
Bst2UI CCWGG 1 cut(s) 717
Bst4CI ACNGT 2 cut(s) 53, 803
Bst6I CTCTTC 1 cut(s) 726
BstC8I GCNNGC 4 cut(s) 207, 271, 459, 469
BstDEI CTNAG 3 cut(s) 197, 402, 627
BstF5I GGATG 2 cut(s) 649, 850
BstFNI CGCG 2 cut(s) 541, 543
BstHHI GCGC 2 cut(s) 288, 543
BstKTI GATC 4 cut(s) 172, 240, 295, 715
BstMAI GTCTC 2 cut(s) 248, 929
BstMBI GATC 4 cut(s) 169, 237, 292, 712
BstMWI GCNNNNNNNGC 2 cut(s) 473, 668
BstNI CCWGG 1 cut(s) 717
BstNSI RCATGY 1 cut(s) 209
BstSCI CCNGG 1 cut(s) 715
BstSFI CTRYAG 2 cut(s) 90, 779
BstUI CGCG 2 cut(s) 541, 543
BstV1I GCAGC 4 cut(s) 448, 496, 658, 661
BstX2I RGATCY 1 cut(s) 169
BstYI RGATCY 1 cut(s) 169
BsuI GTATCC 1 cut(s) 386
BsuRI GGCC 1 cut(s) 698
BtrI CACGTC 1 cut(s) 913
BtsCI GGATG 2 cut(s) 649, 850
BtsIMutI CAGTG 2 cut(s) 49, 882
BveI ACCTGC 1 cut(s) 609
Cac8I GCNNGC 4 cut(s) 207, 271, 459, 469
CciI TCATGA 1 cut(s) 907
CfoI GCGC 2 cut(s) 288, 543
Cfr10I RCCGGY 1 cut(s) 488
Cfr13I GGNCC 2 cut(s) 438, 634
CviAII CATG 5 cut(s) 191, 206, 309, 343, 908
DdeI CTNAG 3 cut(s) 197, 402, 627
DpnI GATC 4 cut(s) 171, 239, 294, 714
DpnII GATC 4 cut(s) 169, 237, 292, 712
Eam1104I CTCTTC 1 cut(s) 726
EarI CTCTTC 1 cut(s) 726
Eco47I GGWCC 2 cut(s) 438, 634
Eco57I CTGAAG 1 cut(s) 702
EcoRI GAATTC 1 cut(s) 784
EcoRII CCWGG 1 cut(s) 715
FaeI CATG 5 cut(s) 194, 209, 312, 346, 911
FaiI YATR 9 cut(s) 92, 107, 192, 207, 252, 310, 344, 606, 909
FaqI GGGAC 2 cut(s) 297, 792
FatI CATG 5 cut(s) 190, 205, 308, 342, 907
FbaI TGATCA 1 cut(s) 292
FblI GTMKAC 1 cut(s) 111
Fnu4HI GCNGC 5 cut(s) 462, 465, 510, 672, 675
FokI GGATG 2 cut(s) 656, 857
Fsp4HI GCNGC 5 cut(s) 462, 465, 510, 672, 675
FspBI CTAG 2 cut(s) 167, 737
GlaI GCGC 2 cut(s) 287, 542
GluI GCNGC 5 cut(s) 462, 465, 510, 672, 675
GsaI CCCAGC 1 cut(s) 187
HaeIII GGCC 1 cut(s) 698
HapII CCGG 3 cut(s) 489, 632, 668
HhaI GCGC 2 cut(s) 288, 543
Hin1II CATG 5 cut(s) 194, 209, 312, 346, 911
Hin6I GCGC 2 cut(s) 286, 541
HinP1I GCGC 2 cut(s) 286, 541
HinfI GANTC 4 cut(s) 58, 119, 587, 872
HpaII CCGG 3 cut(s) 489, 632, 668
HphI GGTGA 2 cut(s) 287, 648
Hpy166II GTNNAC 1 cut(s) 112
Hpy188I TCNGA 3 cut(s) 405, 430, 586
Hpy188III TCNNGA 7 cut(s) 62, 414, 569, 596, 680, 773, 908
Hpy8I GTNNAC 1 cut(s) 112
Hpy99I CGWCG 1 cut(s) 486
HpyAV CCTTC 2 cut(s) 451, 864
HpyCH4III ACNGT 2 cut(s) 53, 803
HpyCH4IV ACGT 1 cut(s) 912
HpyCH4V TGCA 5 cut(s) 205, 512, 604, 781, 848
HpyF10VI GCNNNNNNNGC 2 cut(s) 473, 668
HpyF3I CTNAG 3 cut(s) 197, 402, 627
HpySE526I ACGT 1 cut(s) 912
Hsp92II CATG 5 cut(s) 194, 209, 312, 346, 911
HspAI GCGC 2 cut(s) 286, 541
Ksp22I TGATCA 1 cut(s) 292
Kzo9I GATC 4 cut(s) 169, 237, 292, 712
LguI GCTCTTC 1 cut(s) 726
LmnI GCTCC 6 cut(s) 278, 328, 541, 622, 682, 775
Lsp1109I GCAGC 4 cut(s) 448, 496, 658, 661
LweI GCATC 4 cut(s) 76, 496, 634, 835
MaeI CTAG 2 cut(s) 167, 737
MaeII ACGT 1 cut(s) 912
MaeIII GTNAC 2 cut(s) 39, 763
MalI GATC 4 cut(s) 171, 239, 294, 714
MbiI CCGCTC 1 cut(s) 467
MboI GATC 4 cut(s) 169, 237, 292, 712
MboII GAAGA 5 cut(s) 695, 743, 752, 755, 849
MflI RGATCY 1 cut(s) 169
MhlI GDGCHC 1 cut(s) 325
MluCI AATT 7 cut(s) 77, 227, 247, 334, 431, 517, 784
MlyI GAGTC 2 cut(s) 52, 581
MmeI TCCRAC 2 cut(s) 35, 868
MslI CAYNNNNRTG 1 cut(s) 360
MspI CCGG 3 cut(s) 489, 632, 668
MspR9I CCNGG 1 cut(s) 717
MvaI CCWGG 1 cut(s) 717
MvnI CGCG 2 cut(s) 541, 543
MwoI GCNNNNNNNGC 2 cut(s) 473, 668
NdeII GATC 4 cut(s) 169, 237, 292, 712
NlaIII CATG 5 cut(s) 194, 209, 312, 346, 911
NlaIV GGNNCC 2 cut(s) 618, 636
NspI RCATGY 1 cut(s) 209
PaeI GCATGC 1 cut(s) 209
PagI TCATGA 1 cut(s) 907
PciSI GCTCTTC 1 cut(s) 726
PcsI WCGNNNNNNNCGW 1 cut(s) 325
PfeI GAWTC 2 cut(s) 119, 872
PkrI GCNGC 5 cut(s) 463, 466, 511, 673, 676
PleI GAGTC 2 cut(s) 52, 581
PpsI GAGTC 2 cut(s) 52, 581
Psp6I CCWGG 1 cut(s) 715
PspFI CCCAGC 1 cut(s) 183
PspGI CCWGG 1 cut(s) 715
PspN4I GGNNCC 2 cut(s) 618, 636
PspPI GGNCC 2 cut(s) 438, 634
PstI CTGCAG 1 cut(s) 783
PsuI RGATCY 1 cut(s) 169
RseI CAYNNNNRTG 1 cut(s) 360
SapI GCTCTTC 1 cut(s) 726
SatI GCNGC 5 cut(s) 462, 465, 510, 672, 675
Sau3AI GATC 4 cut(s) 169, 237, 292, 712
Sau96I GGNCC 2 cut(s) 438, 634
SchI GAGTC 2 cut(s) 52, 581
ScrFI CCNGG 1 cut(s) 717
SduI GDGCHC 1 cut(s) 325
SfaNI GCATC 4 cut(s) 76, 496, 634, 835
SfcI CTRYAG 2 cut(s) 90, 779
SinI GGWCC 2 cut(s) 438, 634
SmiMI CAYNNNNRTG 1 cut(s) 360
SmlI CTYRAG 1 cut(s) 567
SmoI CTYRAG 1 cut(s) 567
SphI GCATGC 1 cut(s) 209
Sse9I AATT 7 cut(s) 77, 227, 247, 334, 431, 517, 784
SsiI CCGC 2 cut(s) 465, 539
SspMI CTAG 2 cut(s) 167, 737
StyD4I CCNGG 1 cut(s) 715
TaaI ACNGT 2 cut(s) 53, 803
TaiI ACGT 1 cut(s) 915
TaqI TCGA 3 cut(s) 151, 413, 522
TaqII GACCGA 1 cut(s) 426
TasI AATT 7 cut(s) 77, 227, 247, 334, 431, 517, 784
TauI GCSGC 1 cut(s) 467
TfiI GAWTC 2 cut(s) 119, 872
TscAI CASTG 2 cut(s) 56, 882
TseI GCWGC 4 cut(s) 461, 509, 671, 674
TspDTI ATGAA 5 cut(s) 240, 297, 378, 744, 896
TspRI CASTG 2 cut(s) 56, 882
VpaK11BI GGWCC 2 cut(s) 438, 634
XapI RAATTY 4 cut(s) 334, 431, 517, 784
XceI RCATGY 1 cut(s) 209
XmiI GTMKAC 1 cut(s) 111
XspI CTAG 2 cut(s) 167, 737
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.