Rw4G036550

Pentatricopeptide repeat-containing protein At5g13770

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0008792
Physical Location & Seq
Reverse (-)
63363911 .. 63364747
837 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G036550.1

Sequence Viewer

Length: 750 bp
ATGTCAAAGGGCATTTCTTTGGACTCTTCGAAGATATATTCTGTTTTGATCAGTTCATTTGCGAGCATTCGAGAAGTGAAGGTAGCTGAAGAGCTGTTTGAAGAAGCAGAAACCAAGAAAATGTTGAGGAATCCGACTGTATTTTTGAGACTGATCACAATGTATGTTGAAGAAGGGTTGGTGGATAAGACTCTTGAAATAGTCAAGACAATGAAGGGTGCCAATATCAGAGTTTCCGATAACATATGCTGCGCAGTTGTGACATACGCTTTGATTATCAATGTGTATTGTCGTCTTGGGCTTCATTCTAAGGCTGAGATGGTGTTTAGAGATATGGAAGAAAAAGGGTTTGATAAATGTGTTGTGGCGTATTCAAGCATGGTTGTAATGTATGGGAAGACAGGAAGGTCAAGAGAGGCAATGAGGCTTGTGGCCAAGATGAAAGAAAGAGGGTGTAAGCCGAATGTGTGGATTTACAATTCTTTGATGGATATGCATGGAAGGGATAATAATACGAGGCAAGTTGCAAAGCTATGGAGCGAAATGAAGAGAAGGAAGGTAGCACCTGATAAGGTGAGCTACACAACTGTTATAGGTGCTTATAACAAGGCAGGGGACTTTGATATGTGCTTGAGATTTTACAATGAGTATAGGACTCATGGCGGTGTTTTGGACAAGGCTATGGCTGGAATGATGGTTGGTGTTTTCTCCAAGAGTGATCGTGTTGACGAGTTGGTGAAGCTTCTTTGA

Protein Analysis

249

Amino Acids

28.34

Weight (kDa)

9.25

Isoelectric Point (pI)

35.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 86 - 117 4.7e-06 PPR repeat family
PPR PF01535 87 - 117 2.1e-07 PPR repeat
TPR_24 PF23276 92 - 216 6.9e-06 Fungal tetratrico peptide repeats
PPR_3 PF13812 108 - 167 4.5e-12 Pentatricopeptide repeat domain
PPR_2 PF13041 120 - 156 1.9e-08 PPR repeat family
PPR PF01535 122 - 152 3.5e-06 PPR repeat
PPR_long PF17177 138 - 217 5.2e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 154 - 200 3.5e-12 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 603
AasI GACNNNNNNGTC 1 cut(s) 406
Acc16I TGCGCA 1 cut(s) 253
AccB1I GGYRCC 1 cut(s) 218
AciI CCGC 1 cut(s) 663
AcoI YGGCCR 1 cut(s) 432
AcuI CTGAAG 1 cut(s) 108
AgsI TTSAA 4 cut(s) 101, 170, 197, 375
AluBI AGCT 5 cut(s) 86, 94, 532, 579, 742
AluI AGCT 5 cut(s) 86, 94, 532, 579, 742
Alw26I GTCTC 1 cut(s) 142
AoxI GGCC 1 cut(s) 432
ApeKI GCWGC 1 cut(s) 249
ArsI GACNNNNNNTTYG 4 cut(s) 127, 159, 253, 285
AspLEI GCGC 1 cut(s) 254
AsuHPI GGTGA 2 cut(s) 586, 748
AsuII TTCGAA 1 cut(s) 29
BalI TGGCCA 1 cut(s) 434
BanI GGYRCC 1 cut(s) 218
BbsI GAAGAC 1 cut(s) 404
BbvI GCAGC 1 cut(s) 236
BccI CCATC 3 cut(s) 313, 481, 688
BclI TGATCA 2 cut(s) 48, 153
BcoDI GTCTC 1 cut(s) 142
BisI GCNGC 1 cut(s) 250
BlsI GCNGC 1 cut(s) 251
BmiI GGNNCC 1 cut(s) 220
BpiI GAAGAC 1 cut(s) 404
Bpu14I TTCGAA 1 cut(s) 29
BpuEI CTTGAG 1 cut(s) 652
Bse3DI GCAATG 1 cut(s) 426
BseMI GCAATG 1 cut(s) 426
BseMII CTCAG 1 cut(s) 306
BseXI GCAGC 1 cut(s) 236
BshFI GGCC 1 cut(s) 434
BshNI GGYRCC 1 cut(s) 218
BslFI GGGAC 1 cut(s) 629
BsmAI GTCTC 1 cut(s) 142
BsmFI GGGAC 1 cut(s) 629
BsmI GAATGC 1 cut(s) 66
BsnI GGCC 1 cut(s) 434
Bsp119I TTCGAA 1 cut(s) 29
Bsp143I GATC 3 cut(s) 48, 153, 718
BspACI CCGC 1 cut(s) 663
BspANI GGCC 1 cut(s) 434
BspCNI CTCAG 1 cut(s) 307
BspLI GGNNCC 1 cut(s) 220
BspQI GCTCTTC 1 cut(s) 84
BspT104I TTCGAA 1 cut(s) 29
BspT107I GGYRCC 1 cut(s) 218
BsrDI GCAATG 1 cut(s) 426
BssMI GATC 3 cut(s) 48, 153, 718
Bst4CI ACNGT 2 cut(s) 139, 589
Bst6I CTCTTC 3 cut(s) 31, 84, 542
BstBI TTCGAA 1 cut(s) 29
BstC8I GCNNGC 1 cut(s) 64
BstDEI CTNAG 2 cut(s) 309, 315
BstHHI GCGC 1 cut(s) 254
BstKTI GATC 3 cut(s) 51, 156, 721
BstMAI GTCTC 1 cut(s) 142
BstMBI GATC 3 cut(s) 48, 153, 718
BstV1I GCAGC 1 cut(s) 236
BstV2I GAAGAC 1 cut(s) 404
BsuRI GGCC 1 cut(s) 434
Cac8I GCNNGC 1 cut(s) 64
CfoI GCGC 1 cut(s) 254
CviAII CATG 3 cut(s) 379, 497, 659
DdeI CTNAG 2 cut(s) 309, 315
DpnI GATC 3 cut(s) 50, 155, 720
DpnII GATC 3 cut(s) 48, 153, 718
DrdI GACNNNNNNGTC 1 cut(s) 406
DseDI GACNNNNNNGTC 1 cut(s) 406
EaeI YGGCCR 1 cut(s) 432
Eam1104I CTCTTC 3 cut(s) 31, 84, 542
EarI CTCTTC 3 cut(s) 31, 84, 542
Eco57I CTGAAG 1 cut(s) 108
EcoT22I ATGCAT 1 cut(s) 498
FaeI CATG 3 cut(s) 382, 500, 662
FaqI GGGAC 1 cut(s) 629
FatI CATG 3 cut(s) 378, 496, 658
FauNDI CATATG 1 cut(s) 245
FbaI TGATCA 2 cut(s) 48, 153
Fnu4HI GCNGC 1 cut(s) 250
Fsp4HI GCNGC 1 cut(s) 250
FspI TGCGCA 1 cut(s) 253
GlaI GCGC 1 cut(s) 253
GluI GCNGC 1 cut(s) 250
HaeIII GGCC 1 cut(s) 434
HhaI GCGC 1 cut(s) 254
Hin1II CATG 3 cut(s) 382, 500, 662
Hin6I GCGC 1 cut(s) 252
HinP1I GCGC 1 cut(s) 252
HincII GTYRAC 1 cut(s) 727
HindII GTYRAC 1 cut(s) 727
HindIII AAGCTT 1 cut(s) 740
HinfI GANTC 4 cut(s) 23, 130, 190, 655
HphI GGTGA 2 cut(s) 586, 748
Hpy166II GTNNAC 1 cut(s) 727
Hpy188I TCNGA 3 cut(s) 135, 230, 238
Hpy188III TCNNGA 4 cut(s) 71, 194, 205, 411
Hpy8I GTNNAC 1 cut(s) 727
HpyAV CCTTC 7 cut(s) 73, 167, 208, 399, 495, 546, 550
HpyCH4III ACNGT 2 cut(s) 139, 589
HpyCH4V TGCA 2 cut(s) 496, 527
HpyF3I CTNAG 2 cut(s) 309, 315
Hsp92II CATG 3 cut(s) 382, 500, 662
HspAI GCGC 1 cut(s) 252
Ksp22I TGATCA 2 cut(s) 48, 153
Kzo9I GATC 3 cut(s) 48, 153, 718
LguI GCTCTTC 1 cut(s) 84
LmnI GCTCC 1 cut(s) 537
LpnPI CCDG 4 cut(s) 387, 579, 597, 672
Lsp1109I GCAGC 1 cut(s) 236
MaeIII GTNAC 1 cut(s) 259
MalI GATC 3 cut(s) 50, 155, 720
MboI GATC 3 cut(s) 48, 153, 718
MboII GAAGA 8 cut(s) 18, 43, 101, 113, 182, 350, 409, 559
MlsI TGGCCA 1 cut(s) 434
MluCI AATT 1 cut(s) 478
MluNI TGGCCA 1 cut(s) 434
MlyI GAGTC 3 cut(s) 17, 184, 649
MmeI TCCRAC 1 cut(s) 158
MnlI CCTC 5 cut(s) 120, 409, 417, 443, 510
Mox20I TGGCCA 1 cut(s) 434
Mph1103I ATGCAT 1 cut(s) 498
MscI TGGCCA 1 cut(s) 434
MslI CAYNNNNRTG 1 cut(s) 663
Msp20I TGGCCA 1 cut(s) 434
Mva1269I GAATGC 1 cut(s) 66
NdeI CATATG 1 cut(s) 245
NdeII GATC 3 cut(s) 48, 153, 718
NlaIII CATG 3 cut(s) 382, 500, 662
NlaIV GGNNCC 1 cut(s) 220
NmuCI GTSAC 1 cut(s) 259
NsbI TGCGCA 1 cut(s) 253
NsiI ATGCAT 1 cut(s) 498
NspV TTCGAA 1 cut(s) 29
PciSI GCTCTTC 1 cut(s) 84
PctI GAATGC 1 cut(s) 66
PfeI GAWTC 1 cut(s) 130
PkrI GCNGC 1 cut(s) 251
PleI GAGTC 3 cut(s) 17, 184, 649
PpsI GAGTC 3 cut(s) 17, 184, 649
PsiI TTATAA 1 cut(s) 603
PspN4I GGNNCC 1 cut(s) 220
RseI CAYNNNNRTG 1 cut(s) 663
SapI GCTCTTC 1 cut(s) 84
SatI GCNGC 1 cut(s) 250
Sau3AI GATC 3 cut(s) 48, 153, 718
SchI GAGTC 3 cut(s) 17, 184, 649
SfuI TTCGAA 1 cut(s) 29
SmiMI CAYNNNNRTG 1 cut(s) 663
SmlI CTYRAG 1 cut(s) 631
SmoI CTYRAG 1 cut(s) 631
Sse9I AATT 1 cut(s) 478
SsiI CCGC 1 cut(s) 663
TaaI ACNGT 2 cut(s) 139, 589
TaqI TCGA 2 cut(s) 29, 70
TasI AATT 1 cut(s) 478
TfiI GAWTC 1 cut(s) 130
TseFI GTSAC 1 cut(s) 259
TseI GCWGC 1 cut(s) 249
Tsp45I GTSAC 1 cut(s) 259
TspDTI ATGAA 5 cut(s) 45, 227, 293, 455, 560
Zsp2I ATGCAT 1 cut(s) 498
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.