RchiOBHm_Chr5g0050651

nuclease activity

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
5
OG0000697
Physical Location & Seq
Reverse (-)
51133592 .. 51137228
3637 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ32818

Sequence Viewer

Length: 777 bp
ATGTCTGAAATGGACATGTATGGAGCTGATGAAGAGGAAGAACAGTTTTACGAGGCTGTTAAGATATTATTAATGGCAATACAAGCAATGGTTTATGTGTTATACGACCTTGTATTCAGCATACGTGGTGAACGTATTAGACGTCCACTGACTCGGCGACCAGTGACATCAAGTGGATACATATATATGCACAAAATATTAGACAGAGACCCTCAAATCTTTAGAGAGGTGTATAGAATGTATCCTGACGTTTTTCGAAAATTATGTAGCATCCTAAAAGTGAAAACACCTTTGCGAGATACAAGACACATTTGTGTTGAAGAAATGCTCCCAACCTTTCTACTTGTTGTCGGCCAAAACAATCGATACAGTGAAGCTCGGCTGATATTTGAGCGATCTCATTTCACTGTTAGCAAAAGTTTCAACAAAGTCTTGAAGGCCTTGAATACAATAGCACCGGAGTTTATGGCTAAACCTGAGTCTGTGCCACCTAACATAAGAGAAAGTACAAAGTTTTATCCTTACTTTAAGGATTGCGTCGGAGCTATAGATGGCACACATATTCCAGCAACGGTAGTTGGACGTGAGGTTAGCAGATATCAAAATCGACATGGGAAGATATCACAAAATGTATTAGCAGCTTGTAACTTTGATTTACAGTTCACATATGTAATTAGTGGATGGGAGGGTTCCGCTCATAATTCAAAAGTATTGAATGATGCGATTTCTAGACGAAATGGACTCAAAGTGCCACCAGGTATAGTAAATATTACTTAG
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

258

Amino Acids

29.77

Weight (kDa)

9.18

Isoelectric Point (pI)

54.59

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF8040 PF26138 58 - 148 2.2e-22 Domain of unknown function (DUF8040)
DDE_Tnp_4 PF13359 183 - 241 1.6e-07 DDE superfamily endonuclease
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
AccBSI CCGCTC 1 cut(s) 695
AciI CCGC 1 cut(s) 693
AcoI YGGCCR 1 cut(s) 352
AcyI GRCGYC 1 cut(s) 142
AfaI GTAC 1 cut(s) 508
AflIII ACRYGT 1 cut(s) 15
AgsI TTSAA 6 cut(s) 320, 424, 436, 445, 705, 715
AjiI CACGTC 1 cut(s) 584
AjnI CCWGG 1 cut(s) 754
AleI CACNNNNGTG 1 cut(s) 312
AluBI AGCT 4 cut(s) 26, 377, 545, 641
AluI AGCT 4 cut(s) 26, 377, 545, 641
Alw26I GTCTC 1 cut(s) 201
AoxI GGCC 2 cut(s) 352, 438
ApeKI GCWGC 1 cut(s) 638
AseI ATTAAT 1 cut(s) 71
AsuHPI GGTGA 1 cut(s) 140
AsuII TTCGAA 1 cut(s) 256
BbvI GCAGC 1 cut(s) 650
BccI CCATC 2 cut(s) 545, 675
BciT130I CCWGG 1 cut(s) 756
BciVI GTATCC 2 cut(s) 170, 252
BcoDI GTCTC 1 cut(s) 201
BfaI CTAG 1 cut(s) 729
BfmI CTRYAG 1 cut(s) 546
BfuI GTATCC 2 cut(s) 170, 252
BisI GCNGC 1 cut(s) 639
BlsI GCNGC 1 cut(s) 640
Bme1390I CCNGG 1 cut(s) 756
BmgBI CACGTC 1 cut(s) 584
BmiI GGNNCC 1 cut(s) 691
BmrFI CCNGG 1 cut(s) 756
BmsI GCATC 2 cut(s) 279, 709
Bpu14I TTCGAA 1 cut(s) 256
Bsa29I ATCGAT 1 cut(s) 364
BsaAI YACGTR 1 cut(s) 125
BsaHI GRCGYC 1 cut(s) 142
BsaI GGTCTC 1 cut(s) 201
BsaWI WCCGGW 1 cut(s) 457
Bse1I ACTGG 1 cut(s) 161
Bse3DI GCAATG 1 cut(s) 93
BseBI CCWGG 1 cut(s) 756
BseCI ATCGAT 1 cut(s) 364
BseGI GGATG 2 cut(s) 270, 686
BseMI GCAATG 1 cut(s) 93
BseMII CTCAG 1 cut(s) 468
BseNI ACTGG 1 cut(s) 161
BseXI GCAGC 1 cut(s) 650
BshFI GGCC 2 cut(s) 354, 440
BshVI ATCGAT 1 cut(s) 364
BsiSI CCGG 1 cut(s) 458
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
Bsp143I GATC 1 cut(s) 395
BspACI CCGC 1 cut(s) 693
BspANI GGCC 2 cut(s) 354, 440
BspCNI CTCAG 1 cut(s) 469
BspDI ATCGAT 1 cut(s) 364
BspLI GGNNCC 1 cut(s) 691
BspT104I TTCGAA 1 cut(s) 256
BspTNI GGTCTC 1 cut(s) 201
BsrBI CCGCTC 1 cut(s) 695
BsrDI GCAATG 1 cut(s) 93
BsrI ACTGG 1 cut(s) 161
BssMI GATC 1 cut(s) 395
BssNI GRCGYC 1 cut(s) 142
Bst2UI CCWGG 1 cut(s) 756
Bst4CI ACNGT 5 cut(s) 45, 371, 409, 574, 660
Bst6I CTCTTC 1 cut(s) 27
BstACI GRCGYC 1 cut(s) 142
BstBAI YACGTR 1 cut(s) 125
BstBI TTCGAA 1 cut(s) 256
BstDEI CTNAG 2 cut(s) 477, 774
BstF5I GGATG 2 cut(s) 270, 686
BstKTI GATC 1 cut(s) 398
BstMAI GTCTC 1 cut(s) 201
BstMBI GATC 1 cut(s) 395
BstMWI GCNNNNNNNGC 1 cut(s) 83
BstNI CCWGG 1 cut(s) 756
BstNSI RCATGY 1 cut(s) 19
BstSCI CCNGG 1 cut(s) 754
BstSFI CTRYAG 1 cut(s) 546
BstV1I GCAGC 1 cut(s) 650
Bsu15I ATCGAT 1 cut(s) 364
BsuI GTATCC 2 cut(s) 170, 252
BsuRI GGCC 2 cut(s) 354, 440
BsuTUI ATCGAT 1 cut(s) 364
BtrI CACGTC 1 cut(s) 584
BtsCI GGATG 2 cut(s) 270, 686
BtsIMutI CAGTG 4 cut(s) 146, 168, 376, 405
ClaI ATCGAT 1 cut(s) 364
CseI GACGC 1 cut(s) 526
CsiI ACCWGGT 1 cut(s) 754
Csp6I GTAC 1 cut(s) 507
CviAII CATG 2 cut(s) 16, 611
CviJI RGCY 9 cut(s) 26, 56, 354, 377, 382, 440, 470, 545, 641
CviKI_1 RGCY 9 cut(s) 26, 56, 354, 377, 382, 440, 470, 545, 641
CviQI GTAC 1 cut(s) 507
DdeI CTNAG 2 cut(s) 477, 774
DpnI GATC 1 cut(s) 397
DpnII GATC 1 cut(s) 395
EaeI YGGCCR 1 cut(s) 352
Eam1104I CTCTTC 1 cut(s) 27
EarI CTCTTC 1 cut(s) 27
Eco147I AGGCCT 1 cut(s) 440
Eco31I GGTCTC 1 cut(s) 201
Eco32I GATATC 2 cut(s) 599, 621
EcoRII CCWGG 1 cut(s) 754
EcoRV GATATC 2 cut(s) 599, 621
FaeI CATG 2 cut(s) 19, 614
FatI CATG 2 cut(s) 15, 610
FauNDI CATATG 1 cut(s) 667
Fnu4HI GCNGC 1 cut(s) 639
FokI GGATG 2 cut(s) 257, 693
Fsp4HI GCNGC 1 cut(s) 639
FspBI CTAG 1 cut(s) 729
GluI GCNGC 1 cut(s) 639
HaeIII GGCC 2 cut(s) 354, 440
HapII CCGG 1 cut(s) 458
HgaI GACGC 1 cut(s) 526
Hin1I GRCGYC 1 cut(s) 142
Hin1II CATG 2 cut(s) 19, 614
HinfI GANTC 3 cut(s) 151, 479, 741
HpaII CCGG 1 cut(s) 458
HphI GGTGA 1 cut(s) 140
Hpy166II GTNNAC 3 cut(s) 131, 146, 663
Hpy188I TCNGA 2 cut(s) 7, 542
Hpy188III TCNNGA 3 cut(s) 245, 433, 729
Hpy8I GTNNAC 3 cut(s) 131, 146, 663
Hpy99I CGWCG 1 cut(s) 542
HpyAV CCTTC 1 cut(s) 430
HpyCH4III ACNGT 5 cut(s) 45, 371, 409, 574, 660
HpyCH4IV ACGT 5 cut(s) 124, 133, 142, 249, 583
HpyCH4V TGCA 1 cut(s) 190
HpyF10VI GCNNNNNNNGC 1 cut(s) 83
HpyF3I CTNAG 2 cut(s) 477, 774
HpySE526I ACGT 5 cut(s) 124, 133, 142, 249, 583
Hsp92I GRCGYC 1 cut(s) 142
Hsp92II CATG 2 cut(s) 19, 614
Kzo9I GATC 1 cut(s) 395
LmnI GCTCC 3 cut(s) 23, 333, 542
LpnPI CCDG 7 cut(s) 174, 258, 471, 489, 579, 741, 768
Lsp1109I GCAGC 1 cut(s) 650
LweI GCATC 2 cut(s) 279, 709
MabI ACCWGGT 1 cut(s) 754
MaeI CTAG 1 cut(s) 729
MaeII ACGT 5 cut(s) 124, 133, 142, 249, 583
MaeIII GTNAC 2 cut(s) 163, 644
MalI GATC 1 cut(s) 397
MbiI CCGCTC 1 cut(s) 695
MboI GATC 1 cut(s) 395
MboII GAAGA 4 cut(s) 44, 50, 332, 628
MluCI AATT 3 cut(s) 260, 672, 700
MlyI GAGTC 3 cut(s) 145, 488, 735
MmeI TCCRAC 2 cut(s) 520, 559
MnlI CCTC 6 cut(s) 28, 46, 220, 222, 580, 679
MseI TTAA 3 cut(s) 60, 71, 528
MslI CAYNNNNRTG 2 cut(s) 185, 312
MspI CCGG 1 cut(s) 458
MspR9I CCNGG 1 cut(s) 756
MvaI CCWGG 1 cut(s) 756
MwoI GCNNNNNNNGC 1 cut(s) 83
NdeI CATATG 1 cut(s) 667
NdeII GATC 1 cut(s) 395
NlaIII CATG 2 cut(s) 19, 614
NlaIV GGNNCC 1 cut(s) 691
NmeAIII GCCGAG 2 cut(s) 133, 358
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
PcsI WCGNNNNNNNCGW 2 cut(s) 130, 139
PkrI GCNGC 1 cut(s) 640
PleI GAGTC 3 cut(s) 145, 487, 735
PpsI GAGTC 3 cut(s) 145, 487, 735
Ppu21I YACGTR 1 cut(s) 125
PscI ACATGT 1 cut(s) 15
PshBI ATTAAT 1 cut(s) 71
Psp6I CCWGG 1 cut(s) 754
PspGI CCWGG 1 cut(s) 754
PspN4I GGNNCC 1 cut(s) 691
RsaI GTAC 1 cut(s) 508
RsaNI GTAC 1 cut(s) 507
RseI CAYNNNNRTG 2 cut(s) 185, 312
SaqAI TTAA 3 cut(s) 60, 71, 528
SatI GCNGC 1 cut(s) 639
Sau3AI GATC 1 cut(s) 395
SchI GAGTC 3 cut(s) 145, 488, 735
ScrFI CCNGG 1 cut(s) 756
SexAI ACCWGGT 1 cut(s) 754
SfaNI GCATC 2 cut(s) 279, 709
SfcI CTRYAG 1 cut(s) 546
SfuI TTCGAA 1 cut(s) 256
SmiMI CAYNNNNRTG 2 cut(s) 185, 312
Sse9I AATT 3 cut(s) 260, 672, 700
SseBI AGGCCT 1 cut(s) 440
SsiI CCGC 1 cut(s) 693
SspI AATATT 2 cut(s) 198, 769
SspMI CTAG 1 cut(s) 729
StuI AGGCCT 1 cut(s) 440
StyD4I CCNGG 1 cut(s) 754
TaaI ACNGT 5 cut(s) 45, 371, 409, 574, 660
TaiI ACGT 5 cut(s) 127, 136, 145, 252, 586
TaqI TCGA 3 cut(s) 256, 364, 607
TasI AATT 3 cut(s) 260, 672, 700
TatI WGTACW 1 cut(s) 506
Tru1I TTAA 3 cut(s) 60, 71, 528
Tru9I TTAA 3 cut(s) 60, 71, 528
TscAI CASTG 4 cut(s) 153, 168, 376, 412
TseFI GTSAC 1 cut(s) 163
TseI GCWGC 1 cut(s) 638
Tsp45I GTSAC 1 cut(s) 163
TspDTI ATGAA 1 cut(s) 45
TspRI CASTG 4 cut(s) 153, 168, 376, 412
VspI ATTAAT 1 cut(s) 71
XbaI TCTAGA 1 cut(s) 728
XceI RCATGY 1 cut(s) 19
XspI CTAG 1 cut(s) 729
ZraI GACGTC 1 cut(s) 143
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.