Rroxscaffold_2G00127020

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0008656
Physical Location & Seq
Forward (+)
62445119 .. 62448786
3668 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00127020.1

Sequence Viewer

Length: 309 bp
ATGGATGATCGAAAGGAGAAAAATGCCCCATGGTTATCAGTGCCACAATTTGGGGACTGGGATCAGAAGGGCGGCCAAGTGCCAGACTACTCCCTTGATTTCTCCAAGATCAGGGAAATGAGGAAGCAAAACAAAAGAGATGTGTCCAGAGCAAGTCTTGGAAATGAAGAAGAGCTCATTGCCTCAAACACTGTCAATGTGGGTGTTGCCCACAATGACATTCACCACCCTCATTACGATCAGAGCACCCACTCCCCAACTGCTCGACGAAGCATATTCAGCTACTTCAACTGTTGCATAAAAGCTTGA
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
AvrRpt-cleavage

Protein Analysis

102

Amino Acids

11.72

Weight (kDa)

6.96

Isoelectric Point (pI)

53.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
AvrRpt-cleavage PF05627 11 - 42 8.3e-09 Cleavage site for pathogenic type III effector avirulence factor Avr
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 50
AciI CCGC 1 cut(s) 72
AclWI GGATC 1 cut(s) 69
AcoI YGGCCR 1 cut(s) 73
AfiI CCNNNNNNNGG 2 cut(s) 50, 111
AgsI TTSAA 1 cut(s) 289
AluBI AGCT 3 cut(s) 175, 282, 305
AluI AGCT 3 cut(s) 175, 282, 305
Alw21I GWGCWC 2 cut(s) 177, 248
AlwI GGATC 1 cut(s) 69
AoxI GGCC 1 cut(s) 73
AsuHPI GGTGA 1 cut(s) 215
BanII GRGCYC 1 cut(s) 177
Bbv12I GWGCWC 2 cut(s) 177, 248
BisI GCNGC 1 cut(s) 73
BlsI GCNGC 1 cut(s) 74
BmrI ACTGGG 1 cut(s) 67
BmuI ACTGGG 1 cut(s) 67
BsaJI CCNNGG 1 cut(s) 29
Bsc4I CCNNNNNNNGG 2 cut(s) 50, 111
Bse1I ACTGG 1 cut(s) 62
Bse3DI GCAATG 1 cut(s) 177
BseDI CCNNGG 1 cut(s) 29
BseGI GGATG 1 cut(s) 10
BseLI CCNNNNNNNGG 2 cut(s) 50, 111
BseMI GCAATG 1 cut(s) 177
BseNI ACTGG 1 cut(s) 62
BshFI GGCC 1 cut(s) 75
BsiHKAI GWGCWC 2 cut(s) 177, 248
BslFI GGGAC 1 cut(s) 68
BslI CCNNNNNNNGG 2 cut(s) 50, 111
BsmFI GGGAC 1 cut(s) 68
BsnI GGCC 1 cut(s) 75
Bsp1286I GDGCHC 2 cut(s) 177, 248
Bsp143I GATC 4 cut(s) 7, 61, 108, 238
Bsp19I CCATGG 1 cut(s) 29
BspACI CCGC 1 cut(s) 72
BspANI GGCC 1 cut(s) 75
BspPI GGATC 1 cut(s) 69
BspQI GCTCTTC 1 cut(s) 165
BsrDI GCAATG 1 cut(s) 177
BsrI ACTGG 1 cut(s) 62
BssECI CCNNGG 1 cut(s) 29
BssMI GATC 4 cut(s) 7, 61, 108, 238
BssT1I CCWWGG 1 cut(s) 29
Bst4CI ACNGT 2 cut(s) 193, 293
Bst6I CTCTTC 1 cut(s) 165
BstDSI CCRYGG 1 cut(s) 29
BstF5I GGATG 1 cut(s) 10
BstKTI GATC 4 cut(s) 10, 64, 111, 241
BstMBI GATC 4 cut(s) 7, 61, 108, 238
BstMWI GCNNNNNNNGC 1 cut(s) 279
BsuRI GGCC 1 cut(s) 75
BtgI CCRYGG 1 cut(s) 29
BtsCI GGATG 1 cut(s) 10
BtsIMutI CAGTG 2 cut(s) 45, 189
CviAII CATG 1 cut(s) 30
CviJI RGCY 4 cut(s) 75, 175, 282, 305
CviKI_1 RGCY 4 cut(s) 75, 175, 282, 305
DpnI GATC 4 cut(s) 9, 63, 110, 240
DpnII GATC 4 cut(s) 7, 61, 108, 238
EaeI YGGCCR 1 cut(s) 73
Eam1104I CTCTTC 1 cut(s) 165
EarI CTCTTC 1 cut(s) 165
Ecl136II GAGCTC 1 cut(s) 175
Eco130I CCWWGG 1 cut(s) 29
Eco24I GRGCYC 1 cut(s) 177
Eco53kI GAGCTC 1 cut(s) 175
EcoICRI GAGCTC 1 cut(s) 175
EcoT14I CCWWGG 1 cut(s) 29
EcoT38I GRGCYC 1 cut(s) 177
ErhI CCWWGG 1 cut(s) 29
FaeI CATG 1 cut(s) 33
FaiI YATR 3 cut(s) 31, 275, 299
FaqI GGGAC 1 cut(s) 68
FatI CATG 1 cut(s) 29
Fnu4HI GCNGC 1 cut(s) 73
FokI GGATG 1 cut(s) 17
FriOI GRGCYC 1 cut(s) 177
Fsp4HI GCNGC 1 cut(s) 73
GluI GCNGC 1 cut(s) 73
HaeIII GGCC 1 cut(s) 75
Hin1II CATG 1 cut(s) 33
HindIII AAGCTT 1 cut(s) 303
HphI GGTGA 1 cut(s) 215
Hpy188I TCNGA 2 cut(s) 66, 243
Hpy188III TCNNGA 1 cut(s) 147
Hpy99I CGWCG 1 cut(s) 270
HpyAV CCTTC 1 cut(s) 61
HpyCH4III ACNGT 2 cut(s) 193, 293
HpyCH4V TGCA 1 cut(s) 297
HpyF10VI GCNNNNNNNGC 1 cut(s) 279
Hsp92II CATG 1 cut(s) 33
Kzo9I GATC 4 cut(s) 7, 61, 108, 238
LguI GCTCTTC 1 cut(s) 165
LpnPI CCDG 4 cut(s) 43, 96, 97, 160
MalI GATC 4 cut(s) 9, 63, 110, 240
MboI GATC 4 cut(s) 7, 61, 108, 238
MboII GAAGA 2 cut(s) 179, 182
MhlI GDGCHC 2 cut(s) 177, 248
MluCI AATT 1 cut(s) 47
MnlI CCTC 3 cut(s) 114, 193, 240
MwoI GCNNNNNNNGC 1 cut(s) 279
NcoI CCATGG 1 cut(s) 29
NdeII GATC 4 cut(s) 7, 61, 108, 238
NlaIII CATG 1 cut(s) 33
PciSI GCTCTTC 1 cut(s) 165
PflMI CCANNNNNTGG 1 cut(s) 50
PkrI GCNGC 1 cut(s) 74
Psp124BI GAGCTC 1 cut(s) 177
SacI GAGCTC 1 cut(s) 177
SapI GCTCTTC 1 cut(s) 165
SatI GCNGC 1 cut(s) 73
Sau3AI GATC 4 cut(s) 7, 61, 108, 238
SduI GDGCHC 2 cut(s) 177, 248
SetI ASST 3 cut(s) 177, 284, 307
Sse9I AATT 1 cut(s) 47
SsiI CCGC 1 cut(s) 72
SstI GAGCTC 1 cut(s) 177
StyI CCWWGG 1 cut(s) 29
TaaI ACNGT 2 cut(s) 193, 293
TaqI TCGA 2 cut(s) 10, 265
TasI AATT 1 cut(s) 47
TauI GCSGC 1 cut(s) 75
TscAI CASTG 2 cut(s) 45, 196
TspDTI ATGAA 1 cut(s) 180
TspRI CASTG 2 cut(s) 45, 196
Van91I CCANNNNNTGG 1 cut(s) 50
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.