Rh7AG228600

RAI1 like PD-(D/E)XK nuclease

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7A
OG0022543
Physical Location & Seq
Reverse (-)
21627513 .. 21629764
2252 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7AG228600.1

Sequence Viewer

Length: 573 bp
ATGGATCGTCGAAGGTGTTACTGGGGATACTGTTTTGAGAGTCTTGCCACTGAAGATCCAGGAAGAGGTGATGGAGAGTTGATACATCACGTCGATGCCAATATTGAATACTGTTCAGTGATCAAAACCAATTTAGGGGCTCATCGTATTCTGATGGGCGCTGAAATGGATTGCTGCGATTCAACTGATGATGGAAGGAGATTTTACGTGGAGTTAAAGACAAGTCGTGAGTTGGAGTACCATACTGAGAGAAAGAAGCTCCTCAAATTTTGGATTCAATCATTCTTAGCAGGCATTCCCTATATTGTAATTGGTTTTAGGGATGATTCAGGTCGACTTGTCCGCACAGAGAGACTAAGAACCAAAGATATAACACAGAGAGTGAAAACGAAGAACTACTGGCAGGGAGGAGTTTGCTTGGCATTTGCTGATGAGGTATTATGCTGGCTGTATGGAGCAGTTAAAGAGAATGAAGATTACATATTGCAGTTTGCTCCTCCTTTCCAGCGTTTGGAGCTTCTACAAGCGCAATCTTGCCCAGAGGCAATCACTAACCACGTTGAGCAGTTGTAG
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

190

Amino Acids

22.14

Weight (kDa)

5.77

Isoelectric Point (pI)

46.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RAI1 PF08652 2 - 177 3.1e-52 RAI1 like PD-(D/E)XK nuclease
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) 511
AccI GTMKAC 1 cut(s) 334
AciI CCGC 1 cut(s) 343
AclWI GGATC 2 cut(s) 12, 50
AcsI RAATTY 1 cut(s) 266
AcuI CTGAAG 1 cut(s) 72
AfaI GTAC 1 cut(s) 239
AfiI CCNNNNNNNGG 3 cut(s) 65, 135, 511
AgsI TTSAA 3 cut(s) 107, 183, 278
AjiI CACGTC 1 cut(s) 91
AjnI CCWGG 1 cut(s) 58
AluBI AGCT 2 cut(s) 259, 517
AluI AGCT 2 cut(s) 259, 517
Alw26I GTCTC 1 cut(s) 346
AlwI GGATC 2 cut(s) 12, 50
ApeKI GCWGC 1 cut(s) 174
ApoI RAATTY 1 cut(s) 266
AspLEI GCGC 2 cut(s) 161, 529
AsuHPI GGTGA 1 cut(s) 80
BanII GRGCYC 1 cut(s) 142
BbvI GCAGC 1 cut(s) 161
BccI CCATC 3 cut(s) 65, 148, 185
BciT130I CCWGG 1 cut(s) 60
BciVI GTATCC 1 cut(s) 20
BclI TGATCA 1 cut(s) 120
BcoDI GTCTC 1 cut(s) 346
BfoI RGCGCY 1 cut(s) 162
BfuI GTATCC 1 cut(s) 20
BisI GCNGC 1 cut(s) 175
BlsI GCNGC 1 cut(s) 176
Bme1390I CCNGG 1 cut(s) 60
BmgBI CACGTC 1 cut(s) 91
BmrFI CCNGG 1 cut(s) 60
BmrI ACTGGG 1 cut(s) 31
BmsI GCATC 1 cut(s) 85
BmuI ACTGGG 1 cut(s) 31
BsaAI YACGTR 1 cut(s) 208
Bsc4I CCNNNNNNNGG 3 cut(s) 65, 135, 511
Bse1I ACTGG 2 cut(s) 26, 404
BseBI CCWGG 1 cut(s) 60
BseGI GGATG 1 cut(s) 328
BseLI CCNNNNNNNGG 3 cut(s) 65, 135, 511
BseMII CTCAG 1 cut(s) 237
BseNI ACTGG 2 cut(s) 26, 404
BseRI GAGGAG 3 cut(s) 251, 423, 486
BseXI GCAGC 1 cut(s) 161
BslI CCNNNNNNNGG 3 cut(s) 65, 135, 511
BsmAI GTCTC 1 cut(s) 346
BsmI GAATGC 1 cut(s) 294
Bsp1286I GDGCHC 1 cut(s) 142
Bsp143I GATC 3 cut(s) 4, 55, 120
BspACI CCGC 1 cut(s) 343
BspCNI CTCAG 1 cut(s) 238
BspPI GGATC 2 cut(s) 12, 50
BsrI ACTGG 2 cut(s) 26, 404
BssMI GATC 3 cut(s) 4, 55, 120
Bst2UI CCWGG 1 cut(s) 60
Bst4CI ACNGT 2 cut(s) 32, 113
Bst6I CTCTTC 1 cut(s) 58
BstBAI YACGTR 1 cut(s) 208
BstC8I GCNNGC 2 cut(s) 292, 446
BstDEI CTNAG 3 cut(s) 246, 286, 356
BstF5I GGATG 1 cut(s) 328
BstH2I RGCGCY 1 cut(s) 162
BstHHI GCGC 2 cut(s) 161, 529
BstKTI GATC 3 cut(s) 7, 58, 123
BstMAI GTCTC 1 cut(s) 346
BstMBI GATC 3 cut(s) 4, 55, 120
BstMWI GCNNNNNNNGC 1 cut(s) 514
BstNI CCWGG 1 cut(s) 60
BstSCI CCNGG 1 cut(s) 58
BstV1I GCAGC 1 cut(s) 161
BstX2I RGATCY 1 cut(s) 55
BstYI RGATCY 1 cut(s) 55
BsuI GTATCC 1 cut(s) 20
BtrI CACGTC 1 cut(s) 91
BtsCI GGATG 1 cut(s) 328
BtsIMutI CAGTG 2 cut(s) 48, 123
Cac8I GCNNGC 2 cut(s) 292, 446
CfoI GCGC 2 cut(s) 161, 529
Csp6I GTAC 1 cut(s) 238
CviJI RGCY 4 cut(s) 140, 259, 448, 517
CviKI_1 RGCY 4 cut(s) 140, 259, 448, 517
CviQI GTAC 1 cut(s) 238
DdeI CTNAG 3 cut(s) 246, 286, 356
DpnI GATC 3 cut(s) 6, 57, 122
DpnII GATC 3 cut(s) 4, 55, 120
Eam1104I CTCTTC 1 cut(s) 58
EarI CTCTTC 1 cut(s) 58
Eco24I GRGCYC 1 cut(s) 142
Eco57I CTGAAG 1 cut(s) 72
EcoRII CCWGG 1 cut(s) 58
EcoT38I GRGCYC 1 cut(s) 142
FaiI YATR 6 cut(s) 243, 303, 371, 442, 453, 482
FbaI TGATCA 1 cut(s) 120
FblI GTMKAC 1 cut(s) 334
Fnu4HI GCNGC 1 cut(s) 175
FokI GGATG 1 cut(s) 335
FriOI GRGCYC 1 cut(s) 142
Fsp4HI GCNGC 1 cut(s) 175
GlaI GCGC 2 cut(s) 160, 528
GluI GCNGC 1 cut(s) 175
HaeII RGCGCY 1 cut(s) 162
HhaI GCGC 2 cut(s) 161, 529
Hin6I GCGC 2 cut(s) 159, 527
HinP1I GCGC 2 cut(s) 159, 527
HincII GTYRAC 1 cut(s) 335
HindII GTYRAC 1 cut(s) 335
HinfI GANTC 4 cut(s) 40, 179, 274, 326
HphI GGTGA 1 cut(s) 80
Hpy166II GTNNAC 1 cut(s) 335
Hpy188I TCNGA 1 cut(s) 153
Hpy188III TCNNGA 1 cut(s) 227
Hpy8I GTNNAC 1 cut(s) 335
Hpy99I CGWCG 2 cut(s) 12, 95
HpyAV CCTTC 2 cut(s) 6, 189
HpyCH4III ACNGT 2 cut(s) 32, 113
HpyCH4IV ACGT 3 cut(s) 90, 207, 558
HpyCH4V TGCA 1 cut(s) 487
HpyF10VI GCNNNNNNNGC 1 cut(s) 514
HpyF3I CTNAG 3 cut(s) 246, 286, 356
HpySE526I ACGT 3 cut(s) 90, 207, 558
HspAI GCGC 2 cut(s) 159, 527
Ksp22I TGATCA 1 cut(s) 120
Kzo9I GATC 3 cut(s) 4, 55, 120
LmnI GCTCC 4 cut(s) 264, 455, 499, 514
Lsp1109I GCAGC 1 cut(s) 161
LweI GCATC 1 cut(s) 85
MaeII ACGT 3 cut(s) 90, 207, 558
MaeIII GTNAC 1 cut(s) 17
MalI GATC 3 cut(s) 6, 57, 122
MboI GATC 3 cut(s) 4, 55, 120
MboII GAAGA 4 cut(s) 65, 75, 403, 485
MflI RGATCY 1 cut(s) 55
MhlI GDGCHC 1 cut(s) 142
MluCI AATT 3 cut(s) 130, 266, 309
MlyI GAGTC 1 cut(s) 49
MmeI TCCRAC 1 cut(s) 213
MnlI CCTC 6 cut(s) 59, 272, 401, 427, 507, 535
MseI TTAA 2 cut(s) 215, 462
MslI CAYNNNNRTG 1 cut(s) 93
MspR9I CCNGG 1 cut(s) 60
Mva1269I GAATGC 1 cut(s) 294
MvaI CCWGG 1 cut(s) 60
MwoI GCNNNNNNNGC 1 cut(s) 514
NdeII GATC 3 cut(s) 4, 55, 120
PctI GAATGC 1 cut(s) 294
PfeI GAWTC 3 cut(s) 179, 274, 326
PflMI CCANNNNNTGG 1 cut(s) 511
PfoI TCCNGGA 1 cut(s) 58
PkrI GCNGC 1 cut(s) 176
PleI GAGTC 1 cut(s) 48
PpsI GAGTC 1 cut(s) 48
Ppu21I YACGTR 1 cut(s) 208
Psp6I CCWGG 1 cut(s) 58
PspGI CCWGG 1 cut(s) 58
PsuI RGATCY 1 cut(s) 55
RsaI GTAC 1 cut(s) 239
RsaNI GTAC 1 cut(s) 238
RseI CAYNNNNRTG 1 cut(s) 93
SalI GTCGAC 1 cut(s) 333
SaqAI TTAA 2 cut(s) 215, 462
SatI GCNGC 1 cut(s) 175
Sau3AI GATC 3 cut(s) 4, 55, 120
SchI GAGTC 1 cut(s) 49
ScrFI CCNGG 1 cut(s) 60
SduI GDGCHC 1 cut(s) 142
SetI ASST 9 cut(s) 17, 70, 93, 210, 261, 334, 438, 519, 561
SfaNI GCATC 1 cut(s) 85
SmiMI CAYNNNNRTG 1 cut(s) 93
Sse9I AATT 3 cut(s) 130, 266, 309
SsiI CCGC 1 cut(s) 343
SspI AATATT 1 cut(s) 103
StyD4I CCNGG 1 cut(s) 58
TaaI ACNGT 2 cut(s) 32, 113
TaiI ACGT 3 cut(s) 93, 210, 561
TaqI TCGA 3 cut(s) 10, 93, 334
TasI AATT 3 cut(s) 130, 266, 309
TfiI GAWTC 3 cut(s) 179, 274, 326
Tru1I TTAA 2 cut(s) 215, 462
Tru9I TTAA 2 cut(s) 215, 462
TscAI CASTG 2 cut(s) 55, 123
TseI GCWGC 1 cut(s) 174
TspDTI ATGAA 1 cut(s) 486
TspRI CASTG 2 cut(s) 55, 123
Van91I CCANNNNNTGG 1 cut(s) 511
XapI RAATTY 1 cut(s) 266
XmiI GTMKAC 1 cut(s) 334
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.