Rh6AG355000

Ribonuclease H protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0000182
Physical Location & Seq
Reverse (-)
55497203 .. 55498021
819 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG355000.1

Sequence Viewer

Length: 819 bp
ATGATAGGAGACACCACGATCAACATTGATCGTTTTGCTGCCCATGTAGAATTGCCTCCACCACCTGCAGACTTTATCTCTCATTTCTCTAGGCTTTGCCTTGTCGGTAAAGTGTTTGGTACATTTGTGCAGGCTGAAGCTGTGTTCAATAGATTTCATGAATGTTGGAACCAGCTGCGAGGCTCTGTTACTATTAGGCAACTCATCAACAGCTGGTTCAGCTTTGAGTTCACTGAGGAAGAAGATGTTGAGTTTGTTCTCAACAATCGACCCTGGTATGTGAGAAGCAGACTTTCCTGCCTTCAGAGGTGGACTCATGATTTTGATGCAACGATTTCTGTCATCGACAATATCATTGTTTGGGTCCTGTTGGCTAATTTACCTCTCCCCCAATGGAATACCAAGTCTTTGGAGCACATTGTCCAGCCTCTGGGGCGCTTTATTTTGGCCGACGAGAACATTCTTGCTGCCAAGAAGTGTATCTTTGCGCGTGTTCTGGTGGAACTGGACCTTCATTATCCTCTTAAGAGAACTGTCATTGCTCATAGTACTTACGGTTTTCCTTCCACTACGATTATGGTCTCTTATGAAGTCGTGTTTGAAGTTTGCTTTAGGTGTGGCCGCTATAAGGAAAGGTTTCATAAATGCCCTGATCAAATCTTGAAGGAGAACTTCCTTATGGTGGAGCTTCTCGAGGATGAACAAGTTGTCTATCCTCTGGAAATGGCAAAGCATGAGTTCATTAAGCCCCTGTTATCGAATGACATCTCGATTGTCTTTCCTCAGCCTATGTTTAATTATCATGACCAAGAAATGTGA
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

272

Amino Acids

31.9

Weight (kDa)

5.57

Isoelectric Point (pI)

44.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF4283 PF14111 31 - 111 2.4e-12 Domain of unknown function (DUF4283)
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: OG0000182)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g21471 FvH4_1g27953 FvH4_1g28801 FvH4_2g14522 FvH4_3g04280 FvH4_3g28251 FvH4_4g07491 FvH4_4g30262
malus_domestica MD10G1046400.v1.1 MD10G1126900.v1.1 MD11G1236100.v1.1
prunus_persica Prupe.1G148300_v2.0.a1 Prupe.2G036800_v2.0.a1 Prupe.8G054600_v2.0.a1 Prupe.8G054700_v2.0.a1
pyrus_communis pycom05g05520 pycom08g11160 pycom13g29480
rosa_chinensis RchiOBHm_Chr7g0182921 RchiOBHm_Chr7g0230111
rosa_laevigata RLG00000000536 RLG00000001385 RLG00000001492 RLG00000002640 RLG00000003082 RLG00000005042 RLG00000007254 RLG00000007773 RLG00000008594 RLG00000009508 RLG00000010355 RLG00000013369 RLG00000014370 RLG00000014371 RLG00000018745 RLG00000020268 RLG00000020832 RLG00000022569 RLG00000028073 RLG00000028388 RLG00000028677 RLG00000035645
rosa_multiflora Rmu_co8277499.1_g000001 Rmu_co8500999.1_g000001 Rmu_sc0000014.1_g000025 Rmu_sc0000103.1_g000003 Rmu_sc0000168.1_g000019 Rmu_sc0000283.1_g000006 Rmu_sc0000693.1_g000080 Rmu_sc0000997.1_g000005 Rmu_sc0001228.1_g000005 Rmu_sc0001231.1_g000023 Rmu_sc0002833.1_g000037 Rmu_sc0002869.1_g000015 Rmu_sc0003545.1_g000003 Rmu_sc0003693.1_g000028 Rmu_sc0004000.1_g000022 Rmu_sc0004454.1_g000007 Rmu_sc0004976.1_g000036 Rmu_sc0005014.1_g000013 Rmu_sc0005046.1_g000013 Rmu_sc0005063.1_g000009 Rmu_sc0005652.1_g000002 Rmu_sc0005697.1_g000008 Rmu_sc0006989.1_g000014 Rmu_sc0008957.1_g000003 Rmu_sc0011659.1_g000001 Rmu_sc0027477.1_g000001 Rmu_ssc0000387.1_g000021
rosa_roxburghii Rroxscaffold_1G00020860 Rroxscaffold_1G00035780 Rroxscaffold_1G00051370 Rroxscaffold_2G00101730 Rroxscaffold_3G00230130 Rroxscaffold_4G00280070 Rroxscaffold_4G00281160 Rroxscaffold_4G00318780 Rroxscaffold_5G00341570 Rroxscaffold_5G00341580 Rroxscaffold_7G00191230 Rroxscaffold_7G00195880 Rroxscaffold_7G00195890 Rroxscaffold_7G00209080 Rroxscaffold_7G00209090
rosa_rugosa Rorug02G0170400 Rorug03G0234500 Rorug04G0045200 Rorug07G0191000
rosa_samantha Rh1AG012200 Rh1AG012300 Rh1AG021700 Rh1AG033800 Rh1AG033900 Rh1AG048100 Rh1AG087000 Rh1AG168600 Rh1CG004600 Rh2BG192700 Rh2BG200800 Rh2BG310200 Rh2BG356900 Rh2BG377900 Rh2BG378000 Rh2CG356300 Rh2DG394800 Rh3AG199000 Rh3AG258700 Rh3AG258800 Rh3AG324400 Rh3BG202300 Rh3BG202400 Rh3BG228800 Rh3BG318800 Rh3BG360400 Rh3BG368300 Rh3BG373700 Rh4AG071400 Rh4AG153700 Rh4AG224300 Rh4AG224400 Rh4CG044000 Rh4CG077200 Rh4CG077300 Rh4CG238700 Rh4CG238800 Rh4CG238900 Rh5BG367100 Rh5BG379500 Rh5BG379600 Rh5BG396700 Rh5BG412900 Rh5DG427200 Rh6AG015200 Rh6AG015300 Rh6AG122800 Rh6AG175600 Rh6AG187700 Rh6AG187800 Rh6AG260800 Rh6AG355000 Rh6BG074900 Rh6BG102300 Rh7AG127400 Rh7AG157500 Rh7AG157600 Rh7AG212200 Rh7AG331400 Rh7AG412000 Rh7CG055400 Rh7CG131400 Rh7CG131500 Rh7CG224300 Rh7CG267100 Rh7CG348800
rosa_wichuraiana Rw0G009820 Rw1G000520 Rw1G008820 Rw4G014110 Rw4G019370 Rw4G022440 Rw6G010550 Rw7G001520 Rw7G018400 Rw7G025210 Rw7G027910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 73
Acc36I ACCTGC 1 cut(s) 73
AccB7I CCANNNNNTGG 1 cut(s) 430
AccII CGCG 1 cut(s) 490
AciI CCGC 1 cut(s) 622
AcoI YGGCCR 2 cut(s) 447, 619
AcuI CTGAAG 2 cut(s) 156, 287
AfaI GTAC 2 cut(s) 121, 550
AfiI CCNNNNNNNGG 3 cut(s) 430, 628, 682
AflII CTTAAG 1 cut(s) 524
AgsI TTSAA 3 cut(s) 148, 602, 664
AjnI CCWGG 1 cut(s) 272
AluBI AGCT 5 cut(s) 140, 175, 213, 222, 688
AluI AGCT 5 cut(s) 140, 175, 213, 222, 688
Alw21I GWGCWC 1 cut(s) 417
Alw26I GTCTC 2 cut(s) 3, 586
AlwNI CAGNNNCTG 1 cut(s) 430
Ama87I CYCGRG 1 cut(s) 692
AoxI GGCC 2 cut(s) 447, 619
ApeKI GCWGC 3 cut(s) 38, 175, 467
Asp700I GAANNNNTTC 1 cut(s) 636
AspLEI GCGC 2 cut(s) 438, 490
AspS9I GGNCC 2 cut(s) 364, 508
AvaI CYCGRG 1 cut(s) 692
AvaII GGWCC 2 cut(s) 364, 508
BaeI ACNNNNGTAYC 2 cut(s) 111, 144
Bbv12I GWGCWC 1 cut(s) 417
BbvCI CCTCAGC 1 cut(s) 783
BbvI GCAGC 3 cut(s) 25, 162, 454
BciT130I CCWGG 1 cut(s) 274
BclI TGATCA 1 cut(s) 652
BcoDI GTCTC 2 cut(s) 3, 586
BfaI CTAG 1 cut(s) 90
BfmI CTRYAG 1 cut(s) 66
BfoI RGCGCY 1 cut(s) 439
BfrI CTTAAG 1 cut(s) 524
BfuAI ACCTGC 1 cut(s) 73
BglI GCCNNNNNGGC 1 cut(s) 433
BisI GCNGC 4 cut(s) 39, 176, 468, 622
BlsI GCNGC 4 cut(s) 40, 177, 469, 623
BmcAI AGTACT 1 cut(s) 550
Bme1390I CCNGG 1 cut(s) 274
Bme18I GGWCC 2 cut(s) 364, 508
BmeT110I CYCGRG 1 cut(s) 692
BmgT120I GGNCC 2 cut(s) 364, 508
BmiI GGNNCC 2 cut(s) 170, 365
BmrFI CCNGG 1 cut(s) 274
BmsI GCATC 1 cut(s) 316
BplI GAGNNNNNCTC 2 cut(s) 298, 330
Bpu10I CCTNAGC 1 cut(s) 783
BsaI GGTCTC 1 cut(s) 586
BsaJI CCNNGG 1 cut(s) 272
Bsc4I CCNNNNNNNGG 3 cut(s) 430, 628, 682
Bse1I ACTGG 1 cut(s) 510
Bse3DI GCAATG 1 cut(s) 537
BseBI CCWGG 1 cut(s) 274
BseDI CCNNGG 1 cut(s) 272
BseGI GGATG 1 cut(s) 703
BseLI CCNNNNNNNGG 3 cut(s) 430, 628, 682
BseMI GCAATG 1 cut(s) 537
BseMII CTCAG 2 cut(s) 225, 797
BseNI ACTGG 1 cut(s) 510
BseXI GCAGC 3 cut(s) 25, 162, 454
BsgI GTGCAG 1 cut(s) 149
Bsh1236I CGCG 1 cut(s) 490
BshFI GGCC 2 cut(s) 449, 621
BsiHKAI GWGCWC 1 cut(s) 417
BsiHKCI CYCGRG 1 cut(s) 692
BslI CCNNNNNNNGG 3 cut(s) 430, 628, 682
BsmAI GTCTC 2 cut(s) 3, 586
BsnI GGCC 2 cut(s) 449, 621
Bso31I GGTCTC 1 cut(s) 586
BsoBI CYCGRG 1 cut(s) 692
Bsp1286I GDGCHC 1 cut(s) 417
Bsp143I GATC 3 cut(s) 18, 28, 652
BspACI CCGC 1 cut(s) 622
BspANI GGCC 2 cut(s) 449, 621
BspCNI CTCAG 2 cut(s) 226, 796
BspFNI CGCG 1 cut(s) 490
BspHI TCATGA 3 cut(s) 157, 316, 802
BspLI GGNNCC 2 cut(s) 170, 365
BspMAI CTGCAG 1 cut(s) 70
BspMI ACCTGC 1 cut(s) 73
BspTI CTTAAG 1 cut(s) 524
BspTNI GGTCTC 1 cut(s) 586
BsrDI GCAATG 1 cut(s) 537
BsrI ACTGG 1 cut(s) 510
BssECI CCNNGG 1 cut(s) 272
BssMI GATC 3 cut(s) 18, 28, 652
Bst2UI CCWGG 1 cut(s) 274
Bst4CI ACNGT 2 cut(s) 535, 557
BstAFI CTTAAG 1 cut(s) 524
BstC8I GCNNGC 1 cut(s) 132
BstDEI CTNAG 2 cut(s) 234, 783
BstF5I GGATG 1 cut(s) 703
BstFNI CGCG 1 cut(s) 490
BstH2I RGCGCY 1 cut(s) 439
BstHHI GCGC 2 cut(s) 438, 490
BstKTI GATC 3 cut(s) 21, 31, 655
BstMAI GTCTC 2 cut(s) 3, 586
BstMBI GATC 3 cut(s) 18, 28, 652
BstMWI GCNNNNNNNGC 2 cut(s) 219, 433
BstNI CCWGG 1 cut(s) 274
BstSCI CCNGG 1 cut(s) 272
BstSFI CTRYAG 1 cut(s) 66
BstUI CGCG 1 cut(s) 490
BstV1I GCAGC 3 cut(s) 25, 162, 454
BstXI CCANNNNNNTGG 1 cut(s) 409
BsuRI GGCC 2 cut(s) 449, 621
BtsCI GGATG 1 cut(s) 703
BtsIMutI CAGTG 1 cut(s) 231
BveI ACCTGC 1 cut(s) 73
Cac8I GCNNGC 1 cut(s) 132
CaiI CAGNNNCTG 1 cut(s) 430
CciI TCATGA 3 cut(s) 157, 316, 802
CfoI GCGC 2 cut(s) 438, 490
Cfr13I GGNCC 2 cut(s) 364, 508
Csp6I GTAC 2 cut(s) 120, 549
CviAII CATG 5 cut(s) 44, 158, 317, 734, 803
CviQI GTAC 2 cut(s) 120, 549
DdeI CTNAG 2 cut(s) 234, 783
DpnI GATC 3 cut(s) 20, 30, 654
DpnII GATC 3 cut(s) 18, 28, 652
EaeI YGGCCR 2 cut(s) 447, 619
Eco31I GGTCTC 1 cut(s) 586
Eco47I GGWCC 2 cut(s) 364, 508
Eco57I CTGAAG 2 cut(s) 156, 287
Eco88I CYCGRG 1 cut(s) 692
EcoO109I RGGNCCY 1 cut(s) 364
EcoRII CCWGG 1 cut(s) 272
FaeI CATG 5 cut(s) 47, 161, 320, 737, 806
FalI AAGNNNNNCTT 4 cut(s) 467, 499, 656, 688
FatI CATG 5 cut(s) 43, 157, 316, 733, 802
FbaI TGATCA 1 cut(s) 652
Fnu4HI GCNGC 4 cut(s) 39, 176, 468, 622
FokI GGATG 1 cut(s) 710
Fsp4HI GCNGC 4 cut(s) 39, 176, 468, 622
FspBI CTAG 1 cut(s) 90
GlaI GCGC 2 cut(s) 437, 489
GluI GCNGC 4 cut(s) 39, 176, 468, 622
HaeII RGCGCY 1 cut(s) 439
HaeIII GGCC 2 cut(s) 449, 621
HhaI GCGC 2 cut(s) 438, 490
Hin1II CATG 5 cut(s) 47, 161, 320, 737, 806
Hin6I GCGC 2 cut(s) 436, 488
HinP1I GCGC 2 cut(s) 436, 488
HinfI GANTC 1 cut(s) 313
Hpy166II GTNNAC 2 cut(s) 231, 312
Hpy188I TCNGA 1 cut(s) 306
Hpy188III TCNNGA 7 cut(s) 158, 317, 661, 692, 719, 769, 803
Hpy8I GTNNAC 2 cut(s) 231, 312
Hpy99I CGWCG 1 cut(s) 455
HpyAV CCTTC 4 cut(s) 311, 521, 573, 658
HpyCH4III ACNGT 2 cut(s) 535, 557
HpyCH4V TGCA 3 cut(s) 68, 130, 329
HpyF10VI GCNNNNNNNGC 2 cut(s) 219, 433
HpyF3I CTNAG 2 cut(s) 234, 783
Hsp92II CATG 5 cut(s) 47, 161, 320, 737, 806
HspAI GCGC 2 cut(s) 436, 488
Ksp22I TGATCA 1 cut(s) 652
Kzo9I GATC 3 cut(s) 18, 28, 652
LmnI GCTCC 2 cut(s) 412, 685
Lsp1109I GCAGC 3 cut(s) 25, 162, 454
LweI GCATC 1 cut(s) 316
MaeI CTAG 1 cut(s) 90
MaeIII GTNAC 1 cut(s) 187
MalI GATC 3 cut(s) 20, 30, 654
MboI GATC 3 cut(s) 18, 28, 652
MboII GAAGA 2 cut(s) 251, 254
MhlI GDGCHC 1 cut(s) 417
MluCI AATT 3 cut(s) 50, 376, 796
MlyI GAGTC 1 cut(s) 307
MmeI TCCRAC 1 cut(s) 146
MroXI GAANNNNTTC 1 cut(s) 636
MseI TTAA 3 cut(s) 525, 744, 795
MspA1I CMGCKG 2 cut(s) 175, 213
MspCI CTTAAG 1 cut(s) 524
MspR9I CCNGG 1 cut(s) 274
MvaI CCWGG 1 cut(s) 274
MvnI CGCG 1 cut(s) 490
MwoI GCNNNNNNNGC 2 cut(s) 219, 433
NdeII GATC 3 cut(s) 18, 28, 652
NlaIII CATG 5 cut(s) 47, 161, 320, 737, 806
NlaIV GGNNCC 2 cut(s) 170, 365
PaeR7I CTCGAG 1 cut(s) 692
PagI TCATGA 3 cut(s) 157, 316, 802
PaqCI CACCTGC 1 cut(s) 73
PdmI GAANNNNTTC 1 cut(s) 636
PflMI CCANNNNNTGG 1 cut(s) 430
PkrI GCNGC 4 cut(s) 40, 177, 469, 623
PleI GAGTC 1 cut(s) 307
PpsI GAGTC 1 cut(s) 307
PpuMI RGGWCCY 1 cut(s) 364
Psp5II RGGWCCY 1 cut(s) 364
Psp6I CCWGG 1 cut(s) 272
PspGI CCWGG 1 cut(s) 272
PspN4I GGNNCC 2 cut(s) 170, 365
PspPI GGNCC 2 cut(s) 364, 508
PspPPI RGGWCCY 1 cut(s) 364
PstI CTGCAG 1 cut(s) 70
PstNI CAGNNNCTG 1 cut(s) 430
PvuII CAGCTG 2 cut(s) 175, 213
RsaI GTAC 2 cut(s) 121, 550
RsaNI GTAC 2 cut(s) 120, 549
SaqAI TTAA 3 cut(s) 525, 744, 795
SatI GCNGC 4 cut(s) 39, 176, 468, 622
Sau3AI GATC 3 cut(s) 18, 28, 652
Sau96I GGNCC 2 cut(s) 364, 508
ScaI AGTACT 1 cut(s) 550
SchI GAGTC 1 cut(s) 307
ScrFI CCNGG 1 cut(s) 274
SduI GDGCHC 1 cut(s) 417
SfaNI GCATC 1 cut(s) 316
SfcI CTRYAG 1 cut(s) 66
Sfr274I CTCGAG 1 cut(s) 692
SinI GGWCC 2 cut(s) 364, 508
SlaI CTCGAG 1 cut(s) 692
SmlI CTYRAG 2 cut(s) 524, 692
SmoI CTYRAG 2 cut(s) 524, 692
Sse9I AATT 3 cut(s) 50, 376, 796
SsiI CCGC 1 cut(s) 622
SspMI CTAG 1 cut(s) 90
StyD4I CCNGG 1 cut(s) 272
TaaI ACNGT 2 cut(s) 535, 557
TaqI TCGA 5 cut(s) 268, 345, 693, 758, 770
TasI AATT 3 cut(s) 50, 376, 796
TatI WGTACW 1 cut(s) 548
TauI GCSGC 1 cut(s) 624
Tru1I TTAA 3 cut(s) 525, 744, 795
Tru9I TTAA 3 cut(s) 525, 744, 795
TscAI CASTG 1 cut(s) 238
TseI GCWGC 3 cut(s) 38, 175, 467
TspDTI ATGAA 7 cut(s) 146, 174, 503, 603, 629, 714, 730
TspRI CASTG 1 cut(s) 238
Van91I CCANNNNNTGG 1 cut(s) 430
Vha464I CTTAAG 1 cut(s) 524
VpaK11BI GGWCC 2 cut(s) 364, 508
XcmI CCANNNNNNNNNTGG 1 cut(s) 574
XhoI CTCGAG 1 cut(s) 692
XmnI GAANNNNTTC 1 cut(s) 636
XspI CTAG 1 cut(s) 90
ZrmI AGTACT 1 cut(s) 550
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.