Rroxscaffold_5G00340530

nuclease activity

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0000697
Physical Location & Seq
Forward (+)
8964432 .. 8969958
5527 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00340530.1

Sequence Viewer

Length: 855 bp
ATGTCTAAAATGGACATGTATGGAGCTAATGAAGAGGAAGAGCAGTTTTACGAGGCTGTTAAGATATTATTAATGGCAATACAAGCAGTGATTTATGTGTTATACGACCTTGTGTTCAGCATACGTGGTGAACATATTAGACGTCCGCTGACTCGTCGACCAGTGACATCAAGTGGATACATATATATGCACAACATATTGGACAGAGACCCTCAAATCTTTAGAGAGGTGTATAGAATGTATCCTGACGTGTTTCGAAAATTATGTAGCATCCTAAAAGCGAAAACACCTTTACGGGATACAAGACACATTTGTGTTGAAGAAATGCTTGCAACCTTTTTACTAGTTGTCGGCCAAAATAATCGATACAGTGAAGCTAGGCTGATATTTGAGCGATCTCATTTTACTGTTAGTAGAAGTTTCAACAAAGTCTTGAAGGCCTTGAATACAATAGCACCACAGTTTATGGCTAAACCTGAGTCCATACCACCTAACATAAGAGAAAGTACAAGGTTCTATCCTTACTTTAAGGTAAGCAATGCAACTTTTATGGATGATTATTTATTTCATTGTACAGGAAACAATATCCCAACAAAGACTGAGTCTAACAACAAGATATTCAAAAAGAGCGCCCTCAAGTCCACCTTTATCTCCAAAGCACTTATTCTGGGTTGGGTTACAGCACAGGTAGCCCACTATGTAGATCCGCCTCAAGGTGTATATGCAGACATTGAGAAGAAAAACATCATGGCAGTGCAAATCCTCTGGAACAATATCATGGGATCAACCCTGATGGAAACCACTTCGATCTTCCTCTATGCCTGCCTGGCAGCAGTTATTACACATACAGTGTGA
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
DDE_Tnp_4

Protein Analysis

284

Amino Acids

32.86

Weight (kDa)

9.21

Isoelectric Point (pI)

62.9

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 58 - 148 7.6e-24 Domain of unknown function (DUF8040)
DUF599 PF04654 245 - 283 2.4e-06 Protein of unknown function, DUF599
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: OG0000697)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G35695
fragaria_vesca FvH4_4g17331 FvH4_6g20420 FvH4_6g24701 FvH4_6g52063
malus_domestica MD12G1024500.v1.1
prunus_persica Prupe.2G004900_v2.0.a1
pyrus_communis pycom10g09210 pycom111g03680 pycom12g13430 pycom16g19230
rosa_chinensis RchiOBHm_Chr5g0050651 RchiOBHm_Chr5g0054101 RchiOBHm_Chr6g0281391
rosa_multiflora Rmu_sc0000029.1_g000014 Rmu_sc0000147.1_g000039 Rmu_sc0000548.1_g000007 Rmu_sc0000913.1_g000001 Rmu_sc0000932.1_g000010 Rmu_sc0001304.1_g000041 Rmu_sc0001969.1_g000002 Rmu_sc0002357.1_g000042 Rmu_sc0002848.1_g000001 Rmu_sc0003113.1_g000003 Rmu_sc0003553.1_g000010 Rmu_sc0003642.1_g000003 Rmu_sc0004160.1_g000001 Rmu_sc0004511.1_g000001 Rmu_sc0004816.1_g000009 Rmu_sc0005500.1_g000008 Rmu_sc0005782.1_g000004 Rmu_sc0006833.1_g000005 Rmu_sc0007173.1_g000003 Rmu_sc0009973.1_g000001 Rmu_sc0016181.1_g000003 Rmu_sc0017974.1_g000001 Rmu_ssc0000255.1_g000020 Rmu_ssc0000263.1_g000011 Rmu_ssc0000366.1_g000012
rosa_roxburghii Rroxscaffold_1G00010110 Rroxscaffold_1G00023070 Rroxscaffold_1G00042980 Rroxscaffold_3G00273770 Rroxscaffold_4G00318480 Rroxscaffold_4G00323200 Rroxscaffold_5G00335150 Rroxscaffold_5G00340530 Rroxscaffold_5G00349500 Rroxscaffold_6G00401310 Rroxscaffold_6G00405610 Rroxscaffold_6G00409810 Rroxscaffold_7G00190250
rosa_rugosa Rorug04G0114300 Rorug05G0441600 Rorug07G0169600
rosa_wichuraiana Rw0G006340 Rw0G016280 Rw0G021420 Rw1G001890 Rw1G009310 Rw1G011130 Rw1G012600 Rw1G017460 Rw2G022560 Rw3G020960 Rw4G006850 Rw4G009950 Rw4G032810 Rw6G003640 Rw6G018030 Rw6G032240 Rw7G024530 Rw7G036060 Rw7G036830

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 145
AccI GTMKAC 1 cut(s) 157
AciI CCGC 2 cut(s) 146, 707
AclWI GGATC 2 cut(s) 698, 790
AcoI YGGCCR 1 cut(s) 352
AcyI GRCGYC 1 cut(s) 142
AfaI GTAC 2 cut(s) 508, 574
AfiI CCNNNNNNNGG 1 cut(s) 713
AflIII ACRYGT 2 cut(s) 15, 249
AgsI TTSAA 5 cut(s) 320, 424, 436, 445, 622
AhlI ACTAGT 1 cut(s) 343
AjiI CACGTC 1 cut(s) 250
AjnI CCWGG 1 cut(s) 825
AleI CACNNNNGTG 1 cut(s) 312
AluBI AGCT 2 cut(s) 26, 377
AluI AGCT 2 cut(s) 26, 377
Alw26I GTCTC 1 cut(s) 201
AlwI GGATC 2 cut(s) 698, 790
AoxI GGCC 2 cut(s) 352, 438
ApeKI GCWGC 1 cut(s) 830
ArsI GACNNNNNNTTYG 2 cut(s) 587, 619
AseI ATTAAT 1 cut(s) 71
AspLEI GCGC 1 cut(s) 632
AsuHPI GGTGA 1 cut(s) 140
AsuII TTCGAA 1 cut(s) 256
BbvI GCAGC 1 cut(s) 842
BccI CCATC 1 cut(s) 787
BciT130I CCWGG 1 cut(s) 827
BciVI GTATCC 3 cut(s) 170, 252, 292
BcoDI GTCTC 1 cut(s) 201
BcuI ACTAGT 1 cut(s) 343
BfaI CTAG 2 cut(s) 344, 378
BfoI RGCGCY 1 cut(s) 633
BfuI GTATCC 3 cut(s) 170, 252, 292
BglI GCCNNNNNGGC 1 cut(s) 827
BisI GCNGC 1 cut(s) 831
BlsI GCNGC 1 cut(s) 832
Bme1390I CCNGG 1 cut(s) 827
BmgBI CACGTC 1 cut(s) 250
BmrFI CCNGG 1 cut(s) 827
BmsI GCATC 1 cut(s) 279
Bpu14I TTCGAA 1 cut(s) 256
BpuEI CTTGAG 2 cut(s) 620, 696
Bsa29I ATCGAT 1 cut(s) 364
BsaAI YACGTR 1 cut(s) 125
BsaHI GRCGYC 1 cut(s) 142
BsaI GGTCTC 1 cut(s) 201
Bsc4I CCNNNNNNNGG 1 cut(s) 713
Bse1I ACTGG 1 cut(s) 161
Bse3DI GCAATG 1 cut(s) 544
BseBI CCWGG 1 cut(s) 827
BseCI ATCGAT 1 cut(s) 364
BseGI GGATG 2 cut(s) 270, 559
BseLI CCNNNNNNNGG 1 cut(s) 713
BseMI GCAATG 1 cut(s) 544
BseMII CTCAG 2 cut(s) 468, 591
BseNI ACTGG 1 cut(s) 161
BseXI GCAGC 1 cut(s) 842
BshFI GGCC 2 cut(s) 354, 440
BshVI ATCGAT 1 cut(s) 364
BslI CCNNNNNNNGG 1 cut(s) 713
BsmAI GTCTC 1 cut(s) 201
BsnI GGCC 2 cut(s) 354, 440
Bso31I GGTCTC 1 cut(s) 201
Bsp119I TTCGAA 1 cut(s) 256
Bsp1407I TGTACA 1 cut(s) 572
Bsp143I GATC 4 cut(s) 395, 703, 782, 807
BspACI CCGC 2 cut(s) 146, 707
BspANI GGCC 2 cut(s) 354, 440
BspCNI CTCAG 2 cut(s) 469, 592
BspDI ATCGAT 1 cut(s) 364
BspPI GGATC 2 cut(s) 698, 790
BspQI GCTCTTC 1 cut(s) 33
BspT104I TTCGAA 1 cut(s) 256
BspTNI GGTCTC 1 cut(s) 201
BsrDI GCAATG 1 cut(s) 544
BsrGI TGTACA 1 cut(s) 572
BsrI ACTGG 1 cut(s) 161
BssMI GATC 4 cut(s) 395, 703, 782, 807
BssNI GRCGYC 1 cut(s) 142
Bst2UI CCWGG 1 cut(s) 827
Bst4CI ACNGT 4 cut(s) 371, 409, 462, 850
Bst6I CTCTTC 2 cut(s) 27, 33
BstACI GRCGYC 1 cut(s) 142
BstAUI TGTACA 1 cut(s) 572
BstBAI YACGTR 1 cut(s) 125
BstBI TTCGAA 1 cut(s) 256
BstC8I GCNNGC 2 cut(s) 330, 823
BstDEI CTNAG 2 cut(s) 477, 600
BstF5I GGATG 2 cut(s) 270, 559
BstH2I RGCGCY 1 cut(s) 633
BstHHI GCGC 1 cut(s) 632
BstKTI GATC 4 cut(s) 398, 706, 785, 810
BstMAI GTCTC 1 cut(s) 201
BstMBI GATC 4 cut(s) 395, 703, 782, 807
BstMWI GCNNNNNNNGC 3 cut(s) 83, 689, 827
BstNI CCWGG 1 cut(s) 827
BstNSI RCATGY 1 cut(s) 19
BstSCI CCNGG 1 cut(s) 825
BstV1I GCAGC 1 cut(s) 842
BstX2I RGATCY 1 cut(s) 703
BstYI RGATCY 1 cut(s) 703
Bsu15I ATCGAT 1 cut(s) 364
BsuI GTATCC 3 cut(s) 170, 252, 292
BsuRI GGCC 2 cut(s) 354, 440
BsuTUI ATCGAT 1 cut(s) 364
BtrI CACGTC 1 cut(s) 250
BtsCI GGATG 2 cut(s) 270, 559
BtsI GCAGTG 2 cut(s) 93, 759
BtsIMutI CAGTG 5 cut(s) 93, 168, 376, 759, 855
Cac8I GCNNGC 2 cut(s) 330, 823
CfoI GCGC 1 cut(s) 632
ClaI ATCGAT 1 cut(s) 364
Csp6I GTAC 2 cut(s) 507, 573
CviAII CATG 3 cut(s) 16, 748, 778
CviJI RGCY 8 cut(s) 26, 56, 354, 377, 382, 440, 470, 692
CviKI_1 RGCY 8 cut(s) 26, 56, 354, 377, 382, 440, 470, 692
CviQI GTAC 2 cut(s) 507, 573
DdeI CTNAG 2 cut(s) 477, 600
DpnI GATC 4 cut(s) 397, 705, 784, 809
DpnII GATC 4 cut(s) 395, 703, 782, 807
EaeI YGGCCR 1 cut(s) 352
Eam1104I CTCTTC 2 cut(s) 27, 33
EarI CTCTTC 2 cut(s) 27, 33
EciI GGCGGA 1 cut(s) 696
Eco147I AGGCCT 1 cut(s) 440
Eco31I GGTCTC 1 cut(s) 201
EcoRII CCWGG 1 cut(s) 825
FaeI CATG 3 cut(s) 19, 751, 781
FalI AAGNNNNNCTT 4 cut(s) 312, 344, 629, 661
FatI CATG 3 cut(s) 15, 747, 777
FblI GTMKAC 1 cut(s) 157
Fnu4HI GCNGC 1 cut(s) 831
FokI GGATG 2 cut(s) 257, 566
Fsp4HI GCNGC 1 cut(s) 831
FspBI CTAG 2 cut(s) 344, 378
GlaI GCGC 1 cut(s) 631
GluI GCNGC 1 cut(s) 831
HaeII RGCGCY 1 cut(s) 633
HaeIII GGCC 2 cut(s) 354, 440
HhaI GCGC 1 cut(s) 632
Hin1I GRCGYC 1 cut(s) 142
Hin1II CATG 3 cut(s) 19, 751, 781
Hin6I GCGC 1 cut(s) 630
HinP1I GCGC 1 cut(s) 630
HincII GTYRAC 1 cut(s) 158
HindII GTYRAC 1 cut(s) 158
HinfI GANTC 3 cut(s) 151, 479, 602
HphI GGTGA 1 cut(s) 140
Hpy166II GTNNAC 3 cut(s) 131, 158, 642
Hpy188III TCNNGA 3 cut(s) 245, 433, 766
Hpy8I GTNNAC 3 cut(s) 131, 158, 642
Hpy99I CGWCG 1 cut(s) 159
HpyAV CCTTC 1 cut(s) 430
HpyCH4III ACNGT 4 cut(s) 371, 409, 462, 850
HpyCH4IV ACGT 3 cut(s) 124, 142, 249
HpyCH4V TGCA 5 cut(s) 190, 332, 542, 725, 757
HpyF10VI GCNNNNNNNGC 3 cut(s) 83, 689, 827
HpyF3I CTNAG 2 cut(s) 477, 600
HpySE526I ACGT 3 cut(s) 124, 142, 249
Hsp92I GRCGYC 1 cut(s) 142
Hsp92II CATG 3 cut(s) 19, 751, 781
HspAI GCGC 1 cut(s) 630
Kzo9I GATC 4 cut(s) 395, 703, 782, 807
LguI GCTCTTC 1 cut(s) 33
LmnI GCTCC 1 cut(s) 23
Lsp1109I GCAGC 1 cut(s) 842
LweI GCATC 1 cut(s) 279
MaeI CTAG 2 cut(s) 344, 378
MaeII ACGT 3 cut(s) 124, 142, 249
MaeIII GTNAC 2 cut(s) 163, 676
MalI GATC 4 cut(s) 397, 705, 784, 809
MboI GATC 4 cut(s) 395, 703, 782, 807
MboII GAAGA 5 cut(s) 44, 50, 332, 748, 802
MflI RGATCY 1 cut(s) 703
MluCI AATT 1 cut(s) 260
MlyI GAGTC 3 cut(s) 145, 488, 611
MnlI CCTC 8 cut(s) 28, 46, 220, 222, 644, 720, 773, 824
MseI TTAA 3 cut(s) 60, 71, 528
MslI CAYNNNNRTG 3 cut(s) 185, 312, 752
MspA1I CMGCKG 1 cut(s) 148
MspR9I CCNGG 1 cut(s) 827
MvaI CCWGG 1 cut(s) 827
MwoI GCNNNNNNNGC 3 cut(s) 83, 689, 827
NdeII GATC 4 cut(s) 395, 703, 782, 807
NlaIII CATG 3 cut(s) 19, 751, 781
NmuCI GTSAC 1 cut(s) 163
NspI RCATGY 1 cut(s) 19
NspV TTCGAA 1 cut(s) 256
OliI CACNNNNGTG 1 cut(s) 312
PceI AGGCCT 1 cut(s) 440
PciI ACATGT 1 cut(s) 15
PciSI GCTCTTC 1 cut(s) 33
PflFI GACNNNGTC 1 cut(s) 601
PkrI GCNGC 1 cut(s) 832
PleI GAGTC 3 cut(s) 145, 487, 610
PpsI GAGTC 3 cut(s) 145, 487, 610
Ppu21I YACGTR 1 cut(s) 125
PscI ACATGT 1 cut(s) 15
PshBI ATTAAT 1 cut(s) 71
Psp6I CCWGG 1 cut(s) 825
PspGI CCWGG 1 cut(s) 825
PsuI RGATCY 1 cut(s) 703
PsyI GACNNNGTC 1 cut(s) 601
RsaI GTAC 2 cut(s) 508, 574
RsaNI GTAC 2 cut(s) 507, 573
RseI CAYNNNNRTG 3 cut(s) 185, 312, 752
SalI GTCGAC 1 cut(s) 156
SapI GCTCTTC 1 cut(s) 33
SaqAI TTAA 3 cut(s) 60, 71, 528
SatI GCNGC 1 cut(s) 831
Sau3AI GATC 4 cut(s) 395, 703, 782, 807
SchI GAGTC 3 cut(s) 145, 488, 611
ScrFI CCNGG 1 cut(s) 827
SfaNI GCATC 1 cut(s) 279
SfuI TTCGAA 1 cut(s) 256
SmiMI CAYNNNNRTG 3 cut(s) 185, 312, 752
SmlI CTYRAG 2 cut(s) 635, 711
SmoI CTYRAG 2 cut(s) 635, 711
SpeI ACTAGT 1 cut(s) 343
Sse9I AATT 1 cut(s) 260
SseBI AGGCCT 1 cut(s) 440
SsiI CCGC 2 cut(s) 146, 707
SspMI CTAG 2 cut(s) 344, 378
StuI AGGCCT 1 cut(s) 440
StyD4I CCNGG 1 cut(s) 825
TaaI ACNGT 4 cut(s) 371, 409, 462, 850
TaiI ACGT 3 cut(s) 127, 145, 252
TaqI TCGA 4 cut(s) 157, 256, 364, 806
TasI AATT 1 cut(s) 260
TatI WGTACW 2 cut(s) 506, 572
Tru1I TTAA 3 cut(s) 60, 71, 528
Tru9I TTAA 3 cut(s) 60, 71, 528
TscAI CASTG 5 cut(s) 93, 168, 376, 759, 855
TseFI GTSAC 1 cut(s) 163
TseI GCWGC 1 cut(s) 830
Tsp45I GTSAC 1 cut(s) 163
TspDTI ATGAA 2 cut(s) 45, 557
TspRI CASTG 5 cut(s) 93, 168, 376, 759, 855
Tth111I GACNNNGTC 1 cut(s) 601
VspI ATTAAT 1 cut(s) 71
XceI RCATGY 1 cut(s) 19
XmiI GTMKAC 1 cut(s) 157
XspI CTAG 2 cut(s) 344, 378
ZraI GACGTC 1 cut(s) 143
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.