Rmu_sc0003652.1_g000018

RAI1 like PD-(D/E)XK nuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0003652.1
OG0022543
Physical Location & Seq
Reverse (-)
63009 .. 66982
3974 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0003652.1_g000018.1.cds

Sequence Viewer

Length: 846 bp
atgcttggtttcctactctcttgggactctgatcctatcatgatcaaactattcttgcagtattgcctgtggtacggaataataatcatagtcagggaagaggaaattttgggcgtggtcgttggcaagtcgggcatcaaaatgacagaggtgctggcatccttccctgacctggaccttatccgcagagggggcataattacggttatggaaagttctcaaatggttgtcatgacgaacatattggccactgcttatattcggcatgagccttgggaaatgggagtgcataaaaggaatggggttgtctatcttgatgtacataaacttccggaaaggccacaaaatgagatggatcgtcgaaggtgttactggggatactgttttgagagtcttgcaactgaagatccaggaagaggtgatggagagttgatacatcacgtcgatgccaatattgaatactgttcagtgatcaaaaccaaattaggggctcatcgtattctgatgggcgctgaaatggattgctgcgattcaactgatgatggaaggagattttacgtggagttaaagacaagtcgtgagttggagtaccatactgaggaaagatatgagagagagaagctcctcaaattttgggtacgggatgattcaggtcgacttgtccgcacagagagactaagaaccaaagatataacaccgagagtgaaaacgaagaactgctggcagggaggagtttacttggcattcgctgatgaggtattatgctggctgtatggaacagttaaagagaatgaagattacatattgcaatttgctcctcctgtccagcgtttggagcttctataa
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0044424 GO:0044444 GO:0044464
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
RAI1

Protein Analysis

281

Amino Acids

32.81

Weight (kDa)

5.61

Isoelectric Point (pI)

47.04

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
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Orthologous Genes (Group: OG0022543)

Species Orthologous Gene IDs
pyrus_communis pycom06g03860
rosa_laevigata RLG00000003315
rosa_multiflora Rmu_sc0003652.1_g000018
rosa_samantha Rh7AG228600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 832
AccI GTMKAC 1 cut(s) 655
AccIII TCCGGA 1 cut(s) 331
AciI CCGC 2 cut(s) 184, 664
AclWI GGATC 3 cut(s) 26, 363, 401
AcoI YGGCCR 1 cut(s) 246
AcsI RAATTY 2 cut(s) 105, 629
AcuI CTGAAG 1 cut(s) 423
AfaI GTAC 4 cut(s) 74, 321, 590, 639
AfiI CCNNNNNNNGG 6 cut(s) 172, 190, 416, 486, 598, 832
AgsI TTSAA 2 cut(s) 458, 534
AjiI CACGTC 1 cut(s) 442
AjnI CCWGG 2 cut(s) 171, 409
AluBI AGCT 2 cut(s) 622, 838
AluI AGCT 2 cut(s) 622, 838
Alw26I GTCTC 1 cut(s) 667
AlwI GGATC 3 cut(s) 26, 363, 401
Aor13HI TCCGGA 1 cut(s) 331
AoxI GGCC 2 cut(s) 246, 338
ApeKI GCWGC 1 cut(s) 525
ApoI RAATTY 2 cut(s) 105, 629
AspLEI GCGC 1 cut(s) 512
AspS9I GGNCC 1 cut(s) 175
AsuHPI GGTGA 1 cut(s) 431
AvaII GGWCC 1 cut(s) 175
BalI TGGCCA 1 cut(s) 248
BanII GRGCYC 1 cut(s) 493
BarI GAAGNNNNNNTAC 2 cut(s) 312, 344
BbvI GCAGC 1 cut(s) 512
BccI CCATC 4 cut(s) 346, 416, 499, 536
BciT130I CCWGG 2 cut(s) 173, 411
BciVI GTATCC 1 cut(s) 371
BclI TGATCA 2 cut(s) 42, 471
BcoDI GTCTC 1 cut(s) 667
BfoI RGCGCY 1 cut(s) 513
BfuI GTATCC 1 cut(s) 371
BisI GCNGC 1 cut(s) 526
BlsI GCNGC 1 cut(s) 527
Bme1390I CCNGG 2 cut(s) 173, 411
Bme18I GGWCC 1 cut(s) 175
BmgBI CACGTC 1 cut(s) 442
BmgT120I GGNCC 1 cut(s) 175
BmrFI CCNGG 2 cut(s) 173, 411
BmrI ACTGGG 1 cut(s) 382
BmsI GCATC 3 cut(s) 144, 167, 436
BmuI ACTGGG 1 cut(s) 382
BplI GAGNNNNNCTC 2 cut(s) 606, 638
BsaAI YACGTR 1 cut(s) 559
BsaJI CCNNGG 1 cut(s) 272
BsaWI WCCGGW 1 cut(s) 331
Bsc4I CCNNNNNNNGG 6 cut(s) 172, 190, 416, 486, 598, 832
Bse1I ACTGG 1 cut(s) 377
BseAI TCCGGA 1 cut(s) 331
BseBI CCWGG 2 cut(s) 173, 411
BseDI CCNNGG 1 cut(s) 272
BseGI GGATG 2 cut(s) 158, 649
BseLI CCNNNNNNNGG 6 cut(s) 172, 190, 416, 486, 598, 832
BseMII CTCAG 1 cut(s) 588
BseNI ACTGG 1 cut(s) 377
BseRI GAGGAG 3 cut(s) 614, 744, 807
BseXI GCAGC 1 cut(s) 512
BshFI GGCC 2 cut(s) 248, 340
BsiSI CCGG 1 cut(s) 332
BslFI GGGAC 1 cut(s) 38
BslI CCNNNNNNNGG 6 cut(s) 172, 190, 416, 486, 598, 832
BsmAI GTCTC 1 cut(s) 667
BsmFI GGGAC 1 cut(s) 38
BsmI GAATGC 1 cut(s) 743
BsnI GGCC 2 cut(s) 248, 340
Bsp1286I GDGCHC 1 cut(s) 493
Bsp13I TCCGGA 1 cut(s) 331
Bsp1407I TGTACA 1 cut(s) 319
Bsp143I GATC 5 cut(s) 31, 42, 355, 406, 471
BspACI CCGC 2 cut(s) 184, 664
BspANI GGCC 2 cut(s) 248, 340
BspCNI CTCAG 1 cut(s) 589
BspEI TCCGGA 1 cut(s) 331
BspHI TCATGA 2 cut(s) 39, 231
BspPI GGATC 3 cut(s) 26, 363, 401
BsrGI TGTACA 1 cut(s) 319
BsrI ACTGG 1 cut(s) 377
BssECI CCNNGG 1 cut(s) 272
BssMI GATC 5 cut(s) 31, 42, 355, 406, 471
BssT1I CCWWGG 1 cut(s) 272
Bst2UI CCWGG 2 cut(s) 173, 411
Bst4CI ACNGT 4 cut(s) 205, 383, 464, 781
Bst6I CTCTTC 2 cut(s) 93, 409
BstAUI TGTACA 1 cut(s) 319
BstBAI YACGTR 1 cut(s) 559
BstC8I GCNNGC 3 cut(s) 156, 722, 767
BstDEI CTNAG 2 cut(s) 597, 677
BstF5I GGATG 2 cut(s) 158, 649
BstH2I RGCGCY 1 cut(s) 513
BstHHI GCGC 1 cut(s) 512
BstKTI GATC 5 cut(s) 34, 45, 358, 409, 474
BstMAI GTCTC 1 cut(s) 667
BstMBI GATC 5 cut(s) 31, 42, 355, 406, 471
BstMWI GCNNNNNNNGC 3 cut(s) 132, 192, 835
BstNI CCWGG 2 cut(s) 173, 411
BstSCI CCNGG 2 cut(s) 171, 409
BstV1I GCAGC 1 cut(s) 512
BstX2I RGATCY 1 cut(s) 406
BstYI RGATCY 1 cut(s) 406
BsuI GTATCC 1 cut(s) 371
BsuRI GGCC 2 cut(s) 248, 340
BtrI CACGTC 1 cut(s) 442
BtsCI GGATG 2 cut(s) 158, 649
BtsI GCAGTG 1 cut(s) 249
BtsIMutI CAGTG 2 cut(s) 249, 474
Cac8I GCNNGC 3 cut(s) 156, 722, 767
CciI TCATGA 2 cut(s) 39, 231
CfoI GCGC 1 cut(s) 512
Cfr13I GGNCC 1 cut(s) 175
Csp6I GTAC 4 cut(s) 73, 320, 589, 638
CviAII CATG 3 cut(s) 40, 232, 266
CviJI RGCY 7 cut(s) 248, 271, 340, 491, 622, 769, 838
CviKI_1 RGCY 7 cut(s) 248, 271, 340, 491, 622, 769, 838
CviQI GTAC 4 cut(s) 73, 320, 589, 638
DdeI CTNAG 2 cut(s) 597, 677
DpnI GATC 5 cut(s) 33, 44, 357, 408, 473
DpnII GATC 5 cut(s) 31, 42, 355, 406, 471
EaeI YGGCCR 1 cut(s) 246
Eam1104I CTCTTC 2 cut(s) 93, 409
EarI CTCTTC 2 cut(s) 93, 409
Eco130I CCWWGG 1 cut(s) 272
Eco24I GRGCYC 1 cut(s) 493
Eco47I GGWCC 1 cut(s) 175
Eco57I CTGAAG 1 cut(s) 423
EcoRII CCWGG 2 cut(s) 171, 409
EcoT14I CCWWGG 1 cut(s) 272
EcoT38I GRGCYC 1 cut(s) 493
ErhI CCWWGG 1 cut(s) 272
FaeI CATG 3 cut(s) 43, 235, 269
FaqI GGGAC 1 cut(s) 38
FatI CATG 3 cut(s) 39, 231, 265
FbaI TGATCA 2 cut(s) 42, 471
FblI GTMKAC 1 cut(s) 655
Fnu4HI GCNGC 1 cut(s) 526
FokI GGATG 2 cut(s) 145, 656
FriOI GRGCYC 1 cut(s) 493
Fsp4HI GCNGC 1 cut(s) 526
GlaI GCGC 1 cut(s) 511
GluI GCNGC 1 cut(s) 526
HaeII RGCGCY 1 cut(s) 513
HaeIII GGCC 2 cut(s) 248, 340
HapII CCGG 1 cut(s) 332
HhaI GCGC 1 cut(s) 512
Hin1II CATG 3 cut(s) 43, 235, 269
Hin6I GCGC 1 cut(s) 510
HinP1I GCGC 1 cut(s) 510
HincII GTYRAC 1 cut(s) 656
HindII GTYRAC 1 cut(s) 656
HinfI GANTC 4 cut(s) 26, 391, 530, 647
HpaII CCGG 1 cut(s) 332
HphI GGTGA 1 cut(s) 431
Hpy166II GTNNAC 2 cut(s) 656, 736
Hpy188I TCNGA 2 cut(s) 31, 504
Hpy188III TCNNGA 5 cut(s) 40, 232, 314, 332, 578
Hpy8I GTNNAC 2 cut(s) 656, 736
Hpy99I CGWCG 2 cut(s) 363, 446
HpyAV CCTTC 3 cut(s) 172, 357, 540
HpyCH4III ACNGT 4 cut(s) 205, 383, 464, 781
HpyCH4IV ACGT 2 cut(s) 441, 558
HpyCH4V TGCA 4 cut(s) 58, 289, 398, 808
HpyF10VI GCNNNNNNNGC 3 cut(s) 132, 192, 835
HpyF3I CTNAG 2 cut(s) 597, 677
HpySE526I ACGT 2 cut(s) 441, 558
Hsp92II CATG 3 cut(s) 43, 235, 269
HspAI GCGC 1 cut(s) 510
Kpn2I TCCGGA 1 cut(s) 331
Ksp22I TGATCA 2 cut(s) 42, 471
Kzo9I GATC 5 cut(s) 31, 42, 355, 406, 471
LmnI GCTCC 3 cut(s) 627, 820, 835
Lsp1109I GCAGC 1 cut(s) 512
LweI GCATC 3 cut(s) 144, 167, 436
MaeII ACGT 2 cut(s) 441, 558
MaeIII GTNAC 1 cut(s) 368
MalI GATC 5 cut(s) 33, 44, 357, 408, 473
MboI GATC 5 cut(s) 31, 42, 355, 406, 471
MboII GAAGA 5 cut(s) 110, 416, 426, 724, 806
MflI RGATCY 1 cut(s) 406
MhlI GDGCHC 1 cut(s) 493
MlsI TGGCCA 1 cut(s) 248
MluCI AATT 5 cut(s) 105, 198, 482, 629, 809
MluNI TGGCCA 1 cut(s) 248
MlyI GAGTC 2 cut(s) 20, 400
MmeI TCCRAC 1 cut(s) 564
MnlI CCTC 9 cut(s) 94, 142, 182, 410, 592, 635, 722, 748, 828
Mox20I TGGCCA 1 cut(s) 248
MroI TCCGGA 1 cut(s) 331
MscI TGGCCA 1 cut(s) 248
MseI TTAA 2 cut(s) 566, 783
MslI CAYNNNNRTG 2 cut(s) 140, 444
Msp20I TGGCCA 1 cut(s) 248
MspI CCGG 1 cut(s) 332
MspR9I CCNGG 2 cut(s) 173, 411
Mva1269I GAATGC 1 cut(s) 743
MvaI CCWGG 2 cut(s) 173, 411
MwoI GCNNNNNNNGC 3 cut(s) 132, 192, 835
NdeII GATC 5 cut(s) 31, 42, 355, 406, 471
NlaIII CATG 3 cut(s) 43, 235, 269
PagI TCATGA 2 cut(s) 39, 231
PctI GAATGC 1 cut(s) 743
PfeI GAWTC 2 cut(s) 530, 647
PflMI CCANNNNNTGG 1 cut(s) 832
PfoI TCCNGGA 1 cut(s) 409
PkrI GCNGC 1 cut(s) 527
PleI GAGTC 2 cut(s) 20, 399
PpsI GAGTC 2 cut(s) 20, 399
Ppu21I YACGTR 1 cut(s) 559
Psp6I CCWGG 2 cut(s) 171, 409
PspGI CCWGG 2 cut(s) 171, 409
PspPI GGNCC 1 cut(s) 175
PsuI RGATCY 1 cut(s) 406
RsaI GTAC 4 cut(s) 74, 321, 590, 639
RsaNI GTAC 4 cut(s) 73, 320, 589, 638
RseI CAYNNNNRTG 2 cut(s) 140, 444
SalI GTCGAC 1 cut(s) 654
SaqAI TTAA 2 cut(s) 566, 783
SatI GCNGC 1 cut(s) 526
Sau3AI GATC 5 cut(s) 31, 42, 355, 406, 471
Sau96I GGNCC 1 cut(s) 175
SchI GAGTC 2 cut(s) 20, 400
ScrFI CCNGG 2 cut(s) 173, 411
SduI GDGCHC 1 cut(s) 493
SfaNI GCATC 3 cut(s) 144, 167, 436
SinI GGWCC 1 cut(s) 175
SmiMI CAYNNNNRTG 2 cut(s) 140, 444
Sse9I AATT 5 cut(s) 105, 198, 482, 629, 809
SsiI CCGC 2 cut(s) 184, 664
SspI AATATT 1 cut(s) 454
StyD4I CCNGG 2 cut(s) 171, 409
StyI CCWWGG 1 cut(s) 272
TaaI ACNGT 4 cut(s) 205, 383, 464, 781
TaiI ACGT 2 cut(s) 444, 561
TaqI TCGA 3 cut(s) 361, 444, 655
TasI AATT 5 cut(s) 105, 198, 482, 629, 809
TatI WGTACW 1 cut(s) 319
TfiI GAWTC 2 cut(s) 530, 647
Tru1I TTAA 2 cut(s) 566, 783
Tru9I TTAA 2 cut(s) 566, 783
TscAI CASTG 2 cut(s) 256, 474
TseI GCWGC 1 cut(s) 525
TspDTI ATGAA 1 cut(s) 807
TspGWI ACGGA 1 cut(s) 90
TspRI CASTG 2 cut(s) 256, 474
Van91I CCANNNNNTGG 1 cut(s) 832
VpaK11BI GGWCC 1 cut(s) 175
XapI RAATTY 2 cut(s) 105, 629
XmiI GTMKAC 1 cut(s) 655
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.