Rroxscaffold_2G00113990

Pentatricopeptide repeat-containing protein At5g66520-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0005202
Physical Location & Seq
Forward (+)
39829328 .. 39830228
901 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00113990.1

Sequence Viewer

Length: 444 bp
ATGGAGCACTCGCAATCTCAAAATGACAACAAGGGCAAAGCCATCGCACCACCTTATCGGAATCCGAATGGGAGGAGCCCTTCACAGAGGAAGACCTCGAAGCCATTGAAGCCGCATTCGAAGCCGCCGCGACTTCTTCTCTCTCCAAAAGCGACGCTCCAATCCGTACGACGAAGACACAGACTGGGCCCCGCAGTGCCCGGCGCCGACCGCCGAGTTCGCTCTCGCTCTCCAAAGATCCAAACGCCTTCGCTCTCTCGCCTTGTCGTCAAGGTCGATTTTTATGCAAAATGTGGATTCATTAAAGATGTCGAAGAGATATTTGATAAGATGCCGCGTAAAGATGTAACTACTTGGAGTGCTATGATCATAGGATATGCTATTAATGGTGAGAATGATATAGGGCTTGAACTTTTTGCTGAAATGGAAAAGAAGGGATTATAA
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
PPR PPR_2

Protein Analysis

147

Amino Acids

16.56

Weight (kDa)

10.38

Isoelectric Point (pI)

65.07

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR PF01535 118 - 147 3.8e-06 PPR repeat
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 442
AccB1I GGYRCC 1 cut(s) 203
AccII CGCG 2 cut(s) 130, 337
AciI CCGC 6 cut(s) 113, 125, 128, 192, 211, 335
AclWI GGATC 1 cut(s) 232
AcyI GRCGYC 1 cut(s) 204
AfaI GTAC 1 cut(s) 168
AgsI TTSAA 2 cut(s) 109, 410
Alw21I GWGCWC 1 cut(s) 9
AlwI GGATC 1 cut(s) 232
AoxI GGCC 1 cut(s) 187
ApaI GGGCCC 1 cut(s) 191
AseI ATTAAT 1 cut(s) 384
AspLEI GCGC 1 cut(s) 206
AspS9I GGNCC 2 cut(s) 187, 188
AsuC2I CCSGG 1 cut(s) 201
AsuHPI GGTGA 1 cut(s) 401
AsuII TTCGAA 1 cut(s) 119
BaeGI GKGCMC 2 cut(s) 191, 201
BanI GGYRCC 1 cut(s) 203
BanII GRGCYC 2 cut(s) 80, 191
BbsI GAAGAC 2 cut(s) 98, 181
Bbv12I GWGCWC 1 cut(s) 9
BccI CCATC 1 cut(s) 50
BcgI CGANNNNNNTGC 4 cut(s) 25, 59, 266, 300
BclI TGATCA 1 cut(s) 366
BcnI CCSGG 1 cut(s) 201
BfoI RGCGCY 1 cut(s) 207
BisI GCNGC 4 cut(s) 113, 125, 128, 335
BlsI GCNGC 4 cut(s) 114, 126, 129, 336
Bme1390I CCNGG 1 cut(s) 201
BmgT120I GGNCC 2 cut(s) 187, 188
BmiI GGNNCC 4 cut(s) 77, 189, 190, 205
BmrFI CCNGG 1 cut(s) 201
BmrI ACTGGG 1 cut(s) 194
BmsI GCATC 1 cut(s) 321
BmuI ACTGGG 1 cut(s) 194
BpiI GAAGAC 2 cut(s) 98, 181
Bpu14I TTCGAA 1 cut(s) 119
BpuMI CCSGG 1 cut(s) 201
BsaHI GRCGYC 1 cut(s) 204
Bse1I ACTGG 1 cut(s) 189
BseNI ACTGG 1 cut(s) 189
BseRI GAGGAG 1 cut(s) 88
BseSI GKGCMC 2 cut(s) 191, 201
Bsh1236I CGCG 2 cut(s) 130, 337
Bsh1285I CGRYCG 1 cut(s) 211
BshFI GGCC 1 cut(s) 189
BshNI GGYRCC 1 cut(s) 203
BsiEI CGRYCG 1 cut(s) 211
BsiHKAI GWGCWC 1 cut(s) 9
BsiSI CCGG 1 cut(s) 201
BsiWI CGTACG 1 cut(s) 166
BsmI GAATGC 1 cut(s) 115
BsnI GGCC 1 cut(s) 189
Bsp119I TTCGAA 1 cut(s) 119
Bsp120I GGGCCC 1 cut(s) 187
Bsp1286I GDGCHC 4 cut(s) 9, 80, 191, 201
Bsp143I GATC 2 cut(s) 237, 366
BspACI CCGC 6 cut(s) 113, 125, 128, 192, 211, 335
BspANI GGCC 1 cut(s) 189
BspFNI CGCG 2 cut(s) 130, 337
BspLI GGNNCC 4 cut(s) 77, 189, 190, 205
BspPI GGATC 1 cut(s) 232
BspT104I TTCGAA 1 cut(s) 119
BspT107I GGYRCC 1 cut(s) 203
BsrI ACTGG 1 cut(s) 189
BssMI GATC 2 cut(s) 237, 366
BssNI GRCGYC 1 cut(s) 204
Bst6I CTCTTC 1 cut(s) 309
BstACI GRCGYC 1 cut(s) 204
BstBI TTCGAA 1 cut(s) 119
BstFNI CGCG 2 cut(s) 130, 337
BstH2I RGCGCY 1 cut(s) 207
BstHHI GCGC 1 cut(s) 206
BstKTI GATC 2 cut(s) 240, 369
BstMBI GATC 2 cut(s) 237, 366
BstMCI CGRYCG 1 cut(s) 211
BstMWI GCNNNNNNNGC 4 cut(s) 109, 121, 210, 219
BstSCI CCNGG 1 cut(s) 199
BstSLI GKGCMC 2 cut(s) 191, 201
BstUI CGCG 2 cut(s) 130, 337
BstV2I GAAGAC 2 cut(s) 98, 181
BstX2I RGATCY 1 cut(s) 237
BstYI RGATCY 1 cut(s) 237
BsuRI GGCC 1 cut(s) 189
BtgZI GCGATG 1 cut(s) 28
BtsI GCAGTG 1 cut(s) 201
BtsIMutI CAGTG 1 cut(s) 201
CfoI GCGC 1 cut(s) 206
Cfr13I GGNCC 2 cut(s) 187, 188
CseI GACGC 1 cut(s) 163
Csp6I GTAC 1 cut(s) 167
CviJI RGCY 7 cut(s) 41, 78, 103, 112, 124, 189, 406
CviKI_1 RGCY 7 cut(s) 41, 78, 103, 112, 124, 189, 406
CviQI GTAC 1 cut(s) 167
DinI GGCGCC 1 cut(s) 205
DpnI GATC 2 cut(s) 239, 368
DpnII GATC 2 cut(s) 237, 366
Eam1104I CTCTTC 1 cut(s) 309
EarI CTCTTC 1 cut(s) 309
Eco24I GRGCYC 2 cut(s) 80, 191
EcoO109I RGGNCCY 1 cut(s) 188
EcoT38I GRGCYC 2 cut(s) 80, 191
EgeI GGCGCC 1 cut(s) 205
EheI GGCGCC 1 cut(s) 205
FaiI YATR 6 cut(s) 285, 365, 371, 378, 401, 442
FauI CCCGC 1 cut(s) 199
FbaI TGATCA 1 cut(s) 366
Fnu4HI GCNGC 4 cut(s) 113, 125, 128, 335
FriOI GRGCYC 2 cut(s) 80, 191
Fsp4HI GCNGC 4 cut(s) 113, 125, 128, 335
GlaI GCGC 1 cut(s) 205
GluI GCNGC 4 cut(s) 113, 125, 128, 335
HaeII RGCGCY 1 cut(s) 207
HaeIII GGCC 1 cut(s) 189
HapII CCGG 1 cut(s) 201
HgaI GACGC 1 cut(s) 163
HhaI GCGC 1 cut(s) 206
Hin1I GRCGYC 1 cut(s) 204
Hin6I GCGC 1 cut(s) 204
HinP1I GCGC 1 cut(s) 204
HinfI GANTC 2 cut(s) 61, 297
HpaII CCGG 1 cut(s) 201
HphI GGTGA 1 cut(s) 401
Hpy188I TCNGA 2 cut(s) 60, 66
Hpy99I CGWCG 2 cut(s) 157, 174
HpyAV CCTTC 3 cut(s) 90, 258, 427
HpyCH4V TGCA 1 cut(s) 287
HpyF10VI GCNNNNNNNGC 4 cut(s) 109, 121, 210, 219
Hsp92I GRCGYC 1 cut(s) 204
HspAI GCGC 1 cut(s) 204
KasI GGCGCC 1 cut(s) 203
Ksp22I TGATCA 1 cut(s) 366
Kzo9I GATC 2 cut(s) 237, 366
LmnI GCTCC 3 cut(s) 4, 75, 162
LpnPI CCDG 2 cut(s) 170, 214
LweI GCATC 1 cut(s) 321
MaeIII GTNAC 1 cut(s) 346
MalI GATC 2 cut(s) 239, 368
MboI GATC 2 cut(s) 237, 366
MboII GAAGA 4 cut(s) 103, 128, 186, 326
MflI RGATCY 1 cut(s) 237
MhlI GDGCHC 4 cut(s) 9, 80, 191, 201
Mly113I GGCGCC 1 cut(s) 204
MnlI CCTC 3 cut(s) 66, 81, 106
MseI TTAA 2 cut(s) 303, 384
MspI CCGG 1 cut(s) 201
MspR9I CCNGG 1 cut(s) 201
Mva1269I GAATGC 1 cut(s) 115
MvnI CGCG 2 cut(s) 130, 337
MwoI GCNNNNNNNGC 4 cut(s) 109, 121, 210, 219
NarI GGCGCC 1 cut(s) 204
NciI CCSGG 1 cut(s) 201
NdeII GATC 2 cut(s) 237, 366
NlaIV GGNNCC 4 cut(s) 77, 189, 190, 205
NmeAIII GCCGAG 1 cut(s) 239
NspV TTCGAA 1 cut(s) 119
PcsI WCGNNNNNNNCGW 1 cut(s) 273
PctI GAATGC 1 cut(s) 115
PfeI GAWTC 2 cut(s) 61, 297
Pfl23II CGTACG 1 cut(s) 166
PkrI GCNGC 4 cut(s) 114, 126, 129, 336
PluTI GGCGCC 1 cut(s) 207
PshBI ATTAAT 1 cut(s) 384
PsiI TTATAA 1 cut(s) 442
PspLI CGTACG 1 cut(s) 166
PspN4I GGNNCC 4 cut(s) 77, 189, 190, 205
PspOMI GGGCCC 1 cut(s) 187
PspPI GGNCC 2 cut(s) 187, 188
PsuI RGATCY 1 cut(s) 237
RsaI GTAC 1 cut(s) 168
RsaNI GTAC 1 cut(s) 167
SaqAI TTAA 2 cut(s) 303, 384
SatI GCNGC 4 cut(s) 113, 125, 128, 335
Sau3AI GATC 2 cut(s) 237, 366
Sau96I GGNCC 2 cut(s) 187, 188
ScrFI CCNGG 1 cut(s) 201
SduI GDGCHC 4 cut(s) 9, 80, 191, 201
SetI ASST 3 cut(s) 55, 98, 276
SfaNI GCATC 1 cut(s) 321
SfoI GGCGCC 1 cut(s) 205
SfuI TTCGAA 1 cut(s) 119
SsiI CCGC 6 cut(s) 113, 125, 128, 192, 211, 335
SspDI GGCGCC 1 cut(s) 203
StyD4I CCNGG 1 cut(s) 199
TaqI TCGA 4 cut(s) 98, 119, 276, 312
TauI GCSGC 4 cut(s) 115, 127, 130, 337
TfiI GAWTC 2 cut(s) 61, 297
Tru1I TTAA 2 cut(s) 303, 384
Tru9I TTAA 2 cut(s) 303, 384
TscAI CASTG 1 cut(s) 201
TspDTI ATGAA 1 cut(s) 289
TspGWI ACGGA 1 cut(s) 154
TspRI CASTG 1 cut(s) 201
VspI ATTAAT 1 cut(s) 384
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.