Rorug04G0013900

No description available

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0018328
Physical Location & Seq
Reverse (-)
2272533 .. 2272913
381 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0013900.1

Sequence Viewer

Length: 381 bp
ATGAGATGCCAAAGAGTTGATCTTGTCTCTTGGAACACTATGATTGGTGCTCTGGTCCAAGAGAGCAAGTTTGGGGAAGCAATTGAACTTTTCCGGGTGATGAGGACTGAGGGAATAAAAGGAGATAGGGTGACCATGGTGGAGGTTGCATCTGCCTGCGGATATCTAGGAGCTCTTGATCTTGCAAAGTGGACTCATGCTTATTTCGAAAAAAATGAAATTAACTGTGACATGTGGCTCGGGACAGCTTTAGTTGACATGTTTGCTAGATGTGGTGAACCTCAAAGTGCAATGAAGGGGTTCAATAACATGGCAAGAAGAGATGTTTCTGCTTTGACTGCAGCCATTGGAGCAATGGCCATTATGGGAAATGGGGAATGA
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
No domains found.

Protein Analysis

126

Amino Acids

13.86

Weight (kDa)

5.44

Isoelectric Point (pI)

22.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 7 - 46 8.5e-09 PPR repeat family
PPR PF01535 9 - 39 1.2e-07 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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Orthologous Genes (Group: OG0018328)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G19320
fragaria_vesca FvH4_4g06990
prunus_persica Prupe.1G073300_v2.0.a1
rosa_chinensis RchiOBHm_Chr7g0214671
rosa_multiflora Rmu_sc0003033.1_g000070
rosa_roxburghii Rroxscaffold_5G00344070
rosa_rugosa Rorug04G0013900
rosa_samantha Rh4BG089800 Rh4DG084400
rosa_wichuraiana Rw4G007580

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 159
AcoI YGGCCR 1 cut(s) 357
AflIII ACRYGT 2 cut(s) 231, 258
AgsI TTSAA 2 cut(s) 86, 304
AluBI AGCT 2 cut(s) 173, 248
AluI AGCT 2 cut(s) 173, 248
Alw21I GWGCWC 2 cut(s) 52, 175
Alw26I GTCTC 1 cut(s) 31
Ama87I CYCGRG 1 cut(s) 239
AoxI GGCC 1 cut(s) 357
ApeKI GCWGC 1 cut(s) 341
Asp700I GAANNNNTTC 1 cut(s) 299
AspS9I GGNCC 1 cut(s) 55
AsuC2I CCSGG 1 cut(s) 95
AsuHPI GGTGA 3 cut(s) 109, 142, 287
AsuII TTCGAA 1 cut(s) 207
AvaI CYCGRG 1 cut(s) 239
AvaII GGWCC 1 cut(s) 55
BalI TGGCCA 1 cut(s) 359
BanII GRGCYC 1 cut(s) 175
Bbv12I GWGCWC 2 cut(s) 52, 175
BbvI GCAGC 1 cut(s) 353
BcnI CCSGG 1 cut(s) 95
BcoDI GTCTC 1 cut(s) 31
BfaI CTAG 2 cut(s) 167, 267
BfmI CTRYAG 1 cut(s) 339
BisI GCNGC 1 cut(s) 342
BlsI GCNGC 1 cut(s) 343
Bme1390I CCNGG 1 cut(s) 95
Bme18I GGWCC 1 cut(s) 55
BmeT110I CYCGRG 1 cut(s) 239
BmgT120I GGNCC 1 cut(s) 55
BmrFI CCNGG 1 cut(s) 95
BmsI GCATC 1 cut(s) 158
Bpu14I TTCGAA 1 cut(s) 207
BpuMI CCSGG 1 cut(s) 95
BsaJI CCNNGG 1 cut(s) 135
BsaXI ACNNNNNCTCC 2 cut(s) 114, 144
Bse3DI GCAATG 2 cut(s) 297, 360
BseDI CCNNGG 1 cut(s) 135
BseMI GCAATG 2 cut(s) 297, 360
BseMII CTCAG 1 cut(s) 99
BseXI GCAGC 1 cut(s) 353
BshFI GGCC 1 cut(s) 359
BsiHKAI GWGCWC 2 cut(s) 52, 175
BsiHKCI CYCGRG 1 cut(s) 239
BsiSI CCGG 1 cut(s) 94
BslFI GGGAC 1 cut(s) 256
BsmAI GTCTC 1 cut(s) 31
BsmFI GGGAC 1 cut(s) 256
BsnI GGCC 1 cut(s) 359
BsoBI CYCGRG 1 cut(s) 239
Bsp119I TTCGAA 1 cut(s) 207
Bsp1286I GDGCHC 2 cut(s) 52, 175
Bsp143I GATC 2 cut(s) 19, 178
Bsp19I CCATGG 1 cut(s) 135
BspACI CCGC 1 cut(s) 159
BspANI GGCC 1 cut(s) 359
BspCNI CTCAG 1 cut(s) 100
BspMAI CTGCAG 1 cut(s) 343
BspT104I TTCGAA 1 cut(s) 207
BsrDI GCAATG 2 cut(s) 297, 360
BssECI CCNNGG 1 cut(s) 135
BssMI GATC 2 cut(s) 19, 178
BssT1I CCWWGG 1 cut(s) 135
Bst4CI ACNGT 1 cut(s) 227
Bst6I CTCTTC 1 cut(s) 313
BstBI TTCGAA 1 cut(s) 207
BstC8I GCNNGC 1 cut(s) 157
BstDEI CTNAG 1 cut(s) 108
BstDSI CCRYGG 1 cut(s) 135
BstEII GGTNACC 1 cut(s) 130
BstKTI GATC 2 cut(s) 22, 181
BstMAI GTCTC 1 cut(s) 31
BstMBI GATC 2 cut(s) 19, 178
BstMWI GCNNNNNNNGC 2 cut(s) 338, 350
BstNSI RCATGY 2 cut(s) 235, 262
BstPI GGTNACC 1 cut(s) 130
BstSCI CCNGG 1 cut(s) 93
BstSFI CTRYAG 1 cut(s) 339
BstV1I GCAGC 1 cut(s) 353
BsuRI GGCC 1 cut(s) 359
BtgI CCRYGG 1 cut(s) 135
Cac8I GCNNGC 1 cut(s) 157
Cfr13I GGNCC 1 cut(s) 55
CviAII CATG 5 cut(s) 136, 197, 232, 259, 310
CviJI RGCY 5 cut(s) 173, 238, 248, 344, 359
CviKI_1 RGCY 5 cut(s) 173, 238, 248, 344, 359
DdeI CTNAG 1 cut(s) 108
DpnI GATC 2 cut(s) 21, 180
DpnII GATC 2 cut(s) 19, 178
EaeI YGGCCR 1 cut(s) 357
Eam1104I CTCTTC 1 cut(s) 313
EarI CTCTTC 1 cut(s) 313
Ecl136II GAGCTC 1 cut(s) 173
Eco130I CCWWGG 1 cut(s) 135
Eco24I GRGCYC 1 cut(s) 175
Eco32I GATATC 1 cut(s) 164
Eco47I GGWCC 1 cut(s) 55
Eco53kI GAGCTC 1 cut(s) 173
Eco88I CYCGRG 1 cut(s) 239
Eco91I GGTNACC 1 cut(s) 130
EcoICRI GAGCTC 1 cut(s) 173
EcoO65I GGTNACC 1 cut(s) 130
EcoRV GATATC 1 cut(s) 164
EcoT14I CCWWGG 1 cut(s) 135
EcoT38I GRGCYC 1 cut(s) 175
ErhI CCWWGG 1 cut(s) 135
FaeI CATG 5 cut(s) 139, 200, 235, 262, 313
FaiI YATR 7 cut(s) 41, 137, 198, 233, 260, 311, 365
FaqI GGGAC 1 cut(s) 256
FatI CATG 5 cut(s) 135, 196, 231, 258, 309
Fnu4HI GCNGC 1 cut(s) 342
FriOI GRGCYC 1 cut(s) 175
Fsp4HI GCNGC 1 cut(s) 342
FspBI CTAG 2 cut(s) 167, 267
GluI GCNGC 1 cut(s) 342
HaeIII GGCC 1 cut(s) 359
HapII CCGG 1 cut(s) 94
Hin1II CATG 5 cut(s) 139, 200, 235, 262, 313
HincII GTYRAC 1 cut(s) 256
HindII GTYRAC 1 cut(s) 256
HinfI GANTC 1 cut(s) 193
HpaII CCGG 1 cut(s) 94
HphI GGTGA 3 cut(s) 109, 142, 287
Hpy166II GTNNAC 3 cut(s) 192, 256, 278
Hpy188III TCNNGA 2 cut(s) 176, 241
Hpy8I GTNNAC 3 cut(s) 192, 256, 278
HpyAV CCTTC 1 cut(s) 289
HpyCH4III ACNGT 1 cut(s) 227
HpyCH4V TGCA 4 cut(s) 149, 185, 290, 341
HpyF10VI GCNNNNNNNGC 2 cut(s) 338, 350
HpyF3I CTNAG 1 cut(s) 108
Hsp92II CATG 5 cut(s) 139, 200, 235, 262, 313
Kzo9I GATC 2 cut(s) 19, 178
LmnI GCTCC 2 cut(s) 170, 350
LpnPI CCDG 3 cut(s) 38, 107, 169
Lsp1109I GCAGC 1 cut(s) 353
LweI GCATC 1 cut(s) 158
MaeI CTAG 2 cut(s) 167, 267
MaeIII GTNAC 2 cut(s) 130, 227
MalI GATC 2 cut(s) 21, 180
MboI GATC 2 cut(s) 19, 178
MboII GAAGA 1 cut(s) 330
MfeI CAATTG 1 cut(s) 81
MhlI GDGCHC 2 cut(s) 52, 175
MlsI TGGCCA 1 cut(s) 359
MluCI AATT 2 cut(s) 81, 219
MluNI TGGCCA 1 cut(s) 359
MlyI GAGTC 1 cut(s) 187
MnlI CCTC 4 cut(s) 96, 103, 136, 291
Mox20I TGGCCA 1 cut(s) 359
MroXI GAANNNNTTC 1 cut(s) 299
MscI TGGCCA 1 cut(s) 359
MseI TTAA 1 cut(s) 222
Msp20I TGGCCA 1 cut(s) 359
MspI CCGG 1 cut(s) 94
MspR9I CCNGG 1 cut(s) 95
MunI CAATTG 1 cut(s) 81
MwoI GCNNNNNNNGC 2 cut(s) 338, 350
NciI CCSGG 1 cut(s) 95
NcoI CCATGG 1 cut(s) 135
NdeII GATC 2 cut(s) 19, 178
NlaIII CATG 5 cut(s) 139, 200, 235, 262, 313
NmuCI GTSAC 2 cut(s) 130, 227
NspI RCATGY 2 cut(s) 235, 262
NspV TTCGAA 1 cut(s) 207
PciI ACATGT 2 cut(s) 231, 258
PdmI GAANNNNTTC 1 cut(s) 299
PkrI GCNGC 1 cut(s) 343
PleI GAGTC 1 cut(s) 187
PpsI GAGTC 1 cut(s) 187
PscI ACATGT 2 cut(s) 231, 258
Psp124BI GAGCTC 1 cut(s) 175
PspEI GGTNACC 1 cut(s) 130
PspPI GGNCC 1 cut(s) 55
PstI CTGCAG 1 cut(s) 343
SacI GAGCTC 1 cut(s) 175
SaqAI TTAA 1 cut(s) 222
SatI GCNGC 1 cut(s) 342
Sau3AI GATC 2 cut(s) 19, 178
Sau96I GGNCC 1 cut(s) 55
SchI GAGTC 1 cut(s) 187
ScrFI CCNGG 1 cut(s) 95
SduI GDGCHC 2 cut(s) 52, 175
SetI ASST 4 cut(s) 147, 175, 250, 283
SfaNI GCATC 1 cut(s) 158
SfcI CTRYAG 1 cut(s) 339
SfuI TTCGAA 1 cut(s) 207
SinI GGWCC 1 cut(s) 55
Sse9I AATT 2 cut(s) 81, 219
SsiI CCGC 1 cut(s) 159
SspMI CTAG 2 cut(s) 167, 267
SstI GAGCTC 1 cut(s) 175
StyD4I CCNGG 1 cut(s) 93
StyI CCWWGG 1 cut(s) 135
TaaI ACNGT 1 cut(s) 227
TaqI TCGA 1 cut(s) 207
TasI AATT 2 cut(s) 81, 219
Tru1I TTAA 1 cut(s) 222
Tru9I TTAA 1 cut(s) 222
TseFI GTSAC 2 cut(s) 130, 227
TseI GCWGC 1 cut(s) 341
Tsp45I GTSAC 2 cut(s) 130, 227
TspDTI ATGAA 2 cut(s) 231, 308
VpaK11BI GGWCC 1 cut(s) 55
XceI RCATGY 2 cut(s) 235, 262
XcmI CCANNNNNNNNNTGG 1 cut(s) 352
XmnI GAANNNNTTC 1 cut(s) 299
XspI CTAG 2 cut(s) 167, 267
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.