Rw1G001840

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0004347
Physical Location & Seq
Forward (+)
3282157 .. 3285851
3695 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G001840.1

Sequence Viewer

Length: 1038 bp
ATGATGCTTGGAAAGTGCAAGCAACCTGAGCAGGCTGGCTTACTTTTCGAGCTCATGTTAACTGATGGGCTCAAACCAACTGTTGACGTCTACACAGCTCTTGTTAGTGTTTATGGCAAAAGTGGCCTCTTTGACAAGGCATTCTCTACTGTTGATGATATGAAGTCAATTTCTGACTGCAAACCAGATGTATATACATATTCAATTCTTATAAATTGCTGCACCAAATTCAGTCGCTATGATCTGATTGAGCAAGTTCTGGCTGAAATGTCATATCTGGGAATTGGATGTAACACAGTCATATACAATACTCTTATCGATGGATATGGTAAAGCTGAGATGTTTGAACTGATGGAGGACTCATTGACAGATATGATTGACAGTGGCAGCTGCCTTCCTGATGTTTTCACATTCAATTCTTTTCTTGGCGCTTATGGGAAAAGTGGGCAGATAGACAAGATGGAGAAGTGGTATGATGAATTTCAGCTAATGGGAATAAAGCCAGACCTTAAGACATTTAATGTCCTGATTAAATCATATGGGAAAGCAAGAATGTATGAAAAGATGGGATCTGTTATGGAGTTTATGGAGAAAAGGTATTTCACCCCAACTGTTGTTACTTATAACATAGTAATTGAGGTATTTGGGAAAGCTGGAAATATTGTGAAGATGGAGGAATACTTCAGAAAAATGAAGCACCAAGGAATGAAGCCTAGCTCTATTACTTATTGTTCCCTCGTTAGTGCGTACAGCAAAGCTGGGAATATAAATAAAGTTGATTCCATTTTGAGGCAAGTAGAGAATTCAGATGTTATACTTGATACAGCTTTTTTCAACTGTATTATTAGTGCTTATGGTCAGGCTGGTGATATAAATAAGATGGGTGAATTATTTTTGACCATGGAAGAGAAAAAATGTGTTCCTGATCATATCACCTTTGCTACCATGATCCAAGCCTGCAATGCACTAGGCATGACTGCAGCTGTCGAAGATTTAAAAAACAGGATGATTACCACCAATGACAGTTCAGGTATCTAA

Protein Analysis

345

Amino Acids

38.68

Weight (kDa)

5.04

Isoelectric Point (pI)

32.73

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 26 - 75 7.6e-13 PPR repeat family
PPR_3 PF13812 52 - 111 6.3e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 98 - 141 2.2e-07 PPR repeat family
PPR_2 PF13041 133 - 181 1.3e-11 PPR repeat family
PPR_3 PF13812 159 - 217 4.5e-10 Pentatricopeptide repeat domain
PPR_2 PF13041 172 - 213 7.8e-08 PPR repeat family
TPR_24 PF23276 191 - 296 1.8e-08 Fungal tetratrico peptide repeats
PPR_2 PF13041 203 - 252 8.6e-12 PPR repeat family
PPR PF01535 206 - 235 3.8e-06 PPR repeat
PPR_3 PF13812 261 - 320 1.9e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 274 - 320 1.4e-10 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 2 cut(s) 212, 624
AatII GACGTC 1 cut(s) 90
AccI GTMKAC 1 cut(s) 90
AclWI GGATC 2 cut(s) 577, 943
AcsI RAATTY 3 cut(s) 227, 479, 802
AcuI CTGAAG 1 cut(s) 667
AcyI GRCGYC 1 cut(s) 87
AfaI GTAC 1 cut(s) 749
AfiI CCNNNNNNNGG 1 cut(s) 789
AflII CTTAAG 1 cut(s) 509
AgsI TTSAA 4 cut(s) 204, 347, 415, 835
Alw21I GWGCWC 1 cut(s) 54
AlwI GGATC 2 cut(s) 577, 943
AoxI GGCC 1 cut(s) 124
ApeKI GCWGC 4 cut(s) 219, 387, 390, 980
ApoI RAATTY 3 cut(s) 227, 479, 802
AspLEI GCGC 1 cut(s) 431
AsuHPI GGTGA 4 cut(s) 595, 878, 896, 925
BanII GRGCYC 2 cut(s) 54, 72
Bbv12I GWGCWC 1 cut(s) 54
BbvI GCAGC 4 cut(s) 206, 377, 399, 992
BccI CCATC 7 cut(s) 59, 314, 346, 454, 559, 664, 874
BclI TGATCA 1 cut(s) 925
BfaI CTAG 2 cut(s) 714, 968
BfmI CTRYAG 1 cut(s) 978
BfoI RGCGCY 1 cut(s) 432
BfrI CTTAAG 1 cut(s) 509
BisI GCNGC 4 cut(s) 220, 388, 391, 981
BlsI GCNGC 4 cut(s) 221, 389, 392, 982
Bpu10I CCTNAGC 1 cut(s) 27
Bsa29I ATCGAT 1 cut(s) 318
BsaHI GRCGYC 1 cut(s) 87
BsaJI CCNNGG 2 cut(s) 700, 900
BsaXI ACNNNNNCTCC 4 cut(s) 455, 485, 581, 611
Bsc4I CCNNNNNNNGG 1 cut(s) 789
Bse3DI GCAATG 1 cut(s) 967
BseCI ATCGAT 1 cut(s) 318
BseDI CCNNGG 2 cut(s) 700, 900
BseGI GGATG 2 cut(s) 293, 1011
BseLI CCNNNNNNNGG 1 cut(s) 789
BseMI GCAATG 1 cut(s) 967
BseMII CTCAG 2 cut(s) 18, 327
BseXI GCAGC 4 cut(s) 206, 377, 399, 992
BseYI CCCAGC 1 cut(s) 758
BsgI GTGCAG 1 cut(s) 205
BshFI GGCC 1 cut(s) 126
BshVI ATCGAT 1 cut(s) 318
BsiHKAI GWGCWC 1 cut(s) 54
BslI CCNNNNNNNGG 1 cut(s) 789
BsmI GAATGC 1 cut(s) 140
BsnI GGCC 1 cut(s) 126
Bsp1286I GDGCHC 2 cut(s) 54, 72
Bsp143I GATC 4 cut(s) 241, 569, 925, 948
Bsp19I CCATGG 1 cut(s) 900
BspANI GGCC 1 cut(s) 126
BspCNI CTCAG 2 cut(s) 19, 328
BspDI ATCGAT 1 cut(s) 318
BspMAI CTGCAG 1 cut(s) 982
BspPI GGATC 2 cut(s) 577, 943
BspTI CTTAAG 1 cut(s) 509
BsrDI GCAATG 1 cut(s) 967
BssECI CCNNGG 2 cut(s) 700, 900
BssMI GATC 4 cut(s) 241, 569, 925, 948
BssNI GRCGYC 1 cut(s) 87
BssT1I CCWWGG 2 cut(s) 700, 900
Bst4CI ACNGT 7 cut(s) 82, 151, 298, 383, 613, 839, 1025
Bst6I CTCTTC 1 cut(s) 900
BstACI GRCGYC 1 cut(s) 87
BstAFI CTTAAG 1 cut(s) 509
BstC8I GCNNGC 4 cut(s) 20, 33, 37, 958
BstDEI CTNAG 2 cut(s) 27, 336
BstDSI CCRYGG 1 cut(s) 900
BstF5I GGATG 2 cut(s) 293, 1011
BstH2I RGCGCY 1 cut(s) 432
BstHHI GCGC 1 cut(s) 431
BstKTI GATC 4 cut(s) 244, 572, 928, 951
BstMBI GATC 4 cut(s) 241, 569, 925, 948
BstMWI GCNNNNNNNGC 3 cut(s) 28, 123, 962
BstSFI CTRYAG 1 cut(s) 978
BstV1I GCAGC 4 cut(s) 206, 377, 399, 992
BstX2I RGATCY 1 cut(s) 569
BstYI RGATCY 1 cut(s) 569
Bsu15I ATCGAT 1 cut(s) 318
BsuRI GGCC 1 cut(s) 126
BsuTUI ATCGAT 1 cut(s) 318
BtgI CCRYGG 1 cut(s) 900
BtsCI GGATG 2 cut(s) 293, 1011
BtsIMutI CAGTG 1 cut(s) 388
Cac8I GCNNGC 4 cut(s) 20, 33, 37, 958
CfoI GCGC 1 cut(s) 431
ClaI ATCGAT 1 cut(s) 318
Csp6I GTAC 1 cut(s) 748
CviAII CATG 4 cut(s) 55, 901, 946, 973
CviQI GTAC 1 cut(s) 748
DdeI CTNAG 2 cut(s) 27, 336
DpnI GATC 4 cut(s) 243, 571, 927, 950
DpnII GATC 4 cut(s) 241, 569, 925, 948
DraI TTTAAA 1 cut(s) 996
Eam1104I CTCTTC 1 cut(s) 900
EarI CTCTTC 1 cut(s) 900
Ecl136II GAGCTC 1 cut(s) 52
Eco130I CCWWGG 2 cut(s) 700, 900
Eco24I GRGCYC 2 cut(s) 54, 72
Eco53kI GAGCTC 1 cut(s) 52
Eco57I CTGAAG 1 cut(s) 667
EcoICRI GAGCTC 1 cut(s) 52
EcoRI GAATTC 1 cut(s) 802
EcoT14I CCWWGG 2 cut(s) 700, 900
EcoT38I GRGCYC 2 cut(s) 54, 72
ErhI CCWWGG 2 cut(s) 700, 900
FaeI CATG 4 cut(s) 58, 904, 949, 976
FatI CATG 4 cut(s) 54, 900, 945, 972
FauNDI CATATG 1 cut(s) 538
FbaI TGATCA 1 cut(s) 925
FblI GTMKAC 1 cut(s) 90
Fnu4HI GCNGC 4 cut(s) 220, 388, 391, 981
FokI GGATG 2 cut(s) 300, 1018
FriOI GRGCYC 2 cut(s) 54, 72
Fsp4HI GCNGC 4 cut(s) 220, 388, 391, 981
FspBI CTAG 2 cut(s) 714, 968
GlaI GCGC 1 cut(s) 430
GluI GCNGC 4 cut(s) 220, 388, 391, 981
GsaI CCCAGC 1 cut(s) 762
HaeII RGCGCY 1 cut(s) 432
HaeIII GGCC 1 cut(s) 126
HhaI GCGC 1 cut(s) 431
Hin1I GRCGYC 1 cut(s) 87
Hin1II CATG 4 cut(s) 58, 904, 949, 976
Hin6I GCGC 1 cut(s) 429
HinP1I GCGC 1 cut(s) 429
HincII GTYRAC 2 cut(s) 60, 85
HindII GTYRAC 2 cut(s) 60, 85
HinfI GANTC 2 cut(s) 359, 779
HpaI GTTAAC 1 cut(s) 60
HphI GGTGA 4 cut(s) 595, 878, 896, 925
Hpy166II GTNNAC 3 cut(s) 60, 85, 91
Hpy188I TCNGA 4 cut(s) 175, 246, 686, 808
Hpy188III TCNNGA 3 cut(s) 398, 526, 923
Hpy8I GTNNAC 3 cut(s) 60, 85, 91
HpyAV CCTTC 1 cut(s) 404
HpyCH4III ACNGT 7 cut(s) 82, 151, 298, 383, 613, 839, 1025
HpyCH4IV ACGT 1 cut(s) 87
HpyCH4V TGCA 6 cut(s) 18, 180, 222, 960, 965, 980
HpyF10VI GCNNNNNNNGC 3 cut(s) 28, 123, 962
HpyF3I CTNAG 2 cut(s) 27, 336
HpySE526I ACGT 1 cut(s) 87
Hsp92I GRCGYC 1 cut(s) 87
Hsp92II CATG 4 cut(s) 58, 904, 949, 976
HspAI GCGC 1 cut(s) 429
Ksp22I TGATCA 1 cut(s) 925
KspAI GTTAAC 1 cut(s) 60
Kzo9I GATC 4 cut(s) 241, 569, 925, 948
Lsp1109I GCAGC 4 cut(s) 206, 377, 399, 992
MaeI CTAG 2 cut(s) 714, 968
MaeII ACGT 1 cut(s) 87
MaeIII GTNAC 2 cut(s) 290, 616
MalI GATC 4 cut(s) 243, 571, 927, 950
MboI GATC 4 cut(s) 241, 569, 925, 948
MboII GAAGA 3 cut(s) 679, 917, 1001
MflI RGATCY 1 cut(s) 569
MhlI GDGCHC 2 cut(s) 54, 72
MlyI GAGTC 1 cut(s) 353
MnlI CCTC 6 cut(s) 137, 349, 631, 667, 746, 783
MseI TTAA 5 cut(s) 59, 510, 519, 531, 995
MspA1I CMGCKG 2 cut(s) 390, 983
MspCI CTTAAG 1 cut(s) 509
Mva1269I GAATGC 1 cut(s) 140
MwoI GCNNNNNNNGC 3 cut(s) 28, 123, 962
NcoI CCATGG 1 cut(s) 900
NdeI CATATG 1 cut(s) 538
NdeII GATC 4 cut(s) 241, 569, 925, 948
NlaIII CATG 4 cut(s) 58, 904, 949, 976
PctI GAATGC 1 cut(s) 140
PfeI GAWTC 1 cut(s) 779
PkrI GCNGC 4 cut(s) 221, 389, 392, 982
PleI GAGTC 1 cut(s) 353
PpsI GAGTC 1 cut(s) 353
PsiI TTATAA 2 cut(s) 212, 624
Psp124BI GAGCTC 1 cut(s) 54
PspFI CCCAGC 1 cut(s) 758
PstI CTGCAG 1 cut(s) 982
PsuI RGATCY 1 cut(s) 569
PvuII CAGCTG 2 cut(s) 390, 983
RsaI GTAC 1 cut(s) 749
RsaNI GTAC 1 cut(s) 748
SacI GAGCTC 1 cut(s) 54
SaqAI TTAA 5 cut(s) 59, 510, 519, 531, 995
SatI GCNGC 4 cut(s) 220, 388, 391, 981
Sau3AI GATC 4 cut(s) 241, 569, 925, 948
SchI GAGTC 1 cut(s) 353
SduI GDGCHC 2 cut(s) 54, 72
SfcI CTRYAG 1 cut(s) 978
SmlI CTYRAG 1 cut(s) 509
SmoI CTYRAG 1 cut(s) 509
SspI AATATT 1 cut(s) 661
SspMI CTAG 2 cut(s) 714, 968
SstI GAGCTC 1 cut(s) 54
StyI CCWWGG 2 cut(s) 700, 900
TaaI ACNGT 7 cut(s) 82, 151, 298, 383, 613, 839, 1025
TaiI ACGT 1 cut(s) 90
TaqI TCGA 3 cut(s) 48, 318, 987
TfiI GAWTC 1 cut(s) 779
Tru1I TTAA 5 cut(s) 59, 510, 519, 531, 995
Tru9I TTAA 5 cut(s) 59, 510, 519, 531, 995
TscAI CASTG 1 cut(s) 388
TseI GCWGC 4 cut(s) 219, 387, 390, 980
TspDTI ATGAA 5 cut(s) 176, 492, 573, 707, 722
TspRI CASTG 1 cut(s) 388
Vha464I CTTAAG 1 cut(s) 509
XapI RAATTY 3 cut(s) 227, 479, 802
XmiI GTMKAC 1 cut(s) 90
XspI CTAG 2 cut(s) 714, 968
ZraI GACGTC 1 cut(s) 88
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.