Rw5G004020

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0003805
Physical Location & Seq
Reverse (-)
4047243 .. 4048389
1147 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G004020.1

Sequence Viewer

Length: 1101 bp
ATGTCGTTTGGTCGCCTCCTCCGCCGTGCATTCTCCACCGCCGCCACCCAGCCCAAACCCACAACCGCCAAGAGCATCAGAGCCATCTCCGCCGACCTCGACAGAGAGCGCAACCTCAAACGCCTCGTCAAGAAGTTCAAAGAGTCCTCAGAGCTCTACCGCTTCCGAACCAAAACCCCCATTTACGAAGAGACCGTTCGCCGCCTCACCAACGCCAAGCGCTTCCGTGCGATCGAAGAAATCCTAGAGGACCAGAAGAAGTACCCGGATTTCTCCGACGAGGGTTTCGCCGTCCGAATCCTTTCCCTTTATGGAAAGGCGAAACTGCGGCCGCACCGTGTTGTCTTTCAATGCCTCCTGGGGGCCTGCGTGAACTCCAAGAAGTTTGATATGGTTGAGAAGATTTTCGGGGAGGTACCGGAGAAGTTGTCGATTGAGCCGGATTTGGTGTCGTACAATACTGTGATCAAGGCCTTTTGCAAGATGGGTTCGTTTGACTCTGCGGTTTCGGTGATTGATGTGATGGAGAAGAAGGGTGTGAAGCCGGATGTAATCACGTTCAATACGATTTTGGATTGCTTGTATGGGAATAAGCGGTTTTTGGATGCTGAGAAGATATGGGGTCAAATGGTGGAGCAGAATGTCGTTCCTAATATTAGGAGCTACAATGCCAAATTGCTGGGGTTTGCTTTGGAGAAGAGGAGTGAAGAAGGGGCTCAGTTAGTTGAAGAGTTGAGGAATATTGGAGTGAAACCTGATGTGTTCACCTTCAATGCCTTGATTAAGGGCTTTGTGAATGAGGGGAACTTGGGTGAAGCTAAGCGGTGGTATGGTTTAATAGAGAAGAGTAGTTGTGCTCCGGATAAATGCACTTTCGAGACGCTTGTTCCCTTTGTTTGTGAGAAGGATGATGTTGAGTTTTCTTTTGAGCTGTGCAAGGACATTTTCCAAAGGCGCCGCCTTGTGAGTGCGGCACTGTTGCAGCCTGTGGTGGATGGACTGGTCAAGGCCTCCATGATTGAGGAGGCAAAGGAACTTGTCAAACTTGGGAACACTAATAACTACAGACGTTTTAATCTGAAGCTGACTTCAGACAAATAG

Protein Analysis

366

Amino Acids

41.82

Weight (kDa)

9.24

Isoelectric Point (pI)

48.83

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 110 - 161 6.2e-06 Pentatricopeptide repeat domain
PPR_3 PF13812 142 - 193 6.3e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 145 - 176 1.8e-09 PPR repeat
PPR_2 PF13041 147 - 194 6.7e-16 PPR repeat family
TPR_24 PF23276 147 - 203 3e-06 Fungal tetratrico peptide repeats
PPR PF01535 150 - 180 1.4e-07 PPR repeat
PPR_3 PF13812 171 - 224 1.2e-08 Pentatricopeptide repeat domain
PPR_2 PF13041 182 - 228 2.3e-09 PPR repeat family
PPR_2 PF13041 217 - 266 1.6e-07 PPR repeat family
PPR_3 PF13812 241 - 295 1.6e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 249 - 274 1.9e-06 PPR repeat
PPR_2 PF13041 252 - 296 3.4e-09 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)
Acc65I GGTACC 1 cut(s) 415
AccB1I GGYRCC 2 cut(s) 415, 954
AccIII TCCGGA 1 cut(s) 859
AcoI YGGCCR 1 cut(s) 329
AcuI CTGAAG 2 cut(s) 1074, 1100
AcyI GRCGYC 1 cut(s) 955
AfaI GTAC 3 cut(s) 263, 417, 455
AfeI AGCGCT 1 cut(s) 221
AfiI CCNNNNNNNGG 1 cut(s) 361
AgsI TTSAA 5 cut(s) 139, 350, 562, 728, 772
AjnI CCWGG 1 cut(s) 357
AluBI AGCT 5 cut(s) 154, 663, 818, 931, 1084
AluI AGCT 5 cut(s) 154, 663, 818, 931, 1084
Alw21I GWGCWC 2 cut(s) 156, 859
Alw26I GTCTC 2 cut(s) 185, 872
Aor13HI TCCGGA 1 cut(s) 859
Aor51HI AGCGCT 1 cut(s) 221
AoxI GGCC 4 cut(s) 329, 363, 471, 1008
ApeKI GCWGC 1 cut(s) 982
ArsI GACNNNNNNTTYG 4 cut(s) 111, 143, 269, 301
Asp700I GAANNNNTTC 2 cut(s) 301, 404
Asp718I GGTACC 1 cut(s) 415
AspLEI GCGC 3 cut(s) 111, 222, 957
AspS9I GGNCC 2 cut(s) 250, 363
AsuC2I CCSGG 1 cut(s) 266
AsuHPI GGTGA 4 cut(s) 199, 523, 757, 824
AvaII GGWCC 1 cut(s) 250
BanI GGYRCC 2 cut(s) 415, 954
BanII GRGCYC 2 cut(s) 156, 718
Bbv12I GWGCWC 2 cut(s) 156, 859
BbvI GCAGC 1 cut(s) 994
BccI CCATC 4 cut(s) 92, 478, 517, 989
BceAI ACGGC 2 cut(s) 9, 275
BciT130I CCWGG 1 cut(s) 359
BclI TGATCA 1 cut(s) 465
BcnI CCSGG 1 cut(s) 266
BcoDI GTCTC 2 cut(s) 185, 872
BfaI CTAG 1 cut(s) 245
BfmI CTRYAG 1 cut(s) 1063
BfoI RGCGCY 2 cut(s) 223, 958
BisI GCNGC 7 cut(s) 42, 202, 329, 332, 958, 972, 983
BlpI GCTNAGC 1 cut(s) 819
BlsI GCNGC 7 cut(s) 43, 203, 330, 333, 959, 973, 984
Bme1390I CCNGG 2 cut(s) 266, 359
Bme18I GGWCC 1 cut(s) 250
BmgT120I GGNCC 2 cut(s) 250, 363
BmiI GGNNCC 3 cut(s) 364, 417, 956
BmrFI CCNGG 2 cut(s) 266, 359
BmsI GCATC 2 cut(s) 84, 595
Bpu1102I GCTNAGC 1 cut(s) 819
BpuMI CCSGG 1 cut(s) 266
BsaHI GRCGYC 1 cut(s) 955
BsaI GGTCTC 1 cut(s) 185
BsaJI CCNNGG 1 cut(s) 358
BsaWI WCCGGW 2 cut(s) 418, 859
BsaXI ACNNNNNCTCC 2 cut(s) 413, 443
Bsc4I CCNNNNNNNGG 1 cut(s) 361
Bse1I ACTGG 1 cut(s) 1005
BseAI TCCGGA 1 cut(s) 859
BseBI CCWGG 1 cut(s) 359
BseDI CCNNGG 1 cut(s) 358
BseGI GGATG 4 cut(s) 553, 610, 913, 1000
BseLI CCNNNNNNNGG 1 cut(s) 361
BseMII CTCAG 3 cut(s) 162, 600, 731
BseNI ACTGG 1 cut(s) 1005
BseRI GAGGAG 3 cut(s) 8, 715, 1037
BseX3I CGGCCG 1 cut(s) 329
BseXI GCAGC 1 cut(s) 994
BseYI CCCAGC 2 cut(s) 48, 679
Bsh1285I CGRYCG 2 cut(s) 234, 332
BshFI GGCC 4 cut(s) 331, 365, 473, 1010
BshNI GGYRCC 2 cut(s) 415, 954
BsiEI CGRYCG 2 cut(s) 234, 332
BsiHKAI GWGCWC 2 cut(s) 156, 859
BsiSI CCGG 5 cut(s) 266, 419, 440, 545, 860
BslI CCNNNNNNNGG 1 cut(s) 361
BsmAI GTCTC 2 cut(s) 185, 872
BsmBI CGTCTC 1 cut(s) 872
BsmI GAATGC 1 cut(s) 29
BsnI GGCC 4 cut(s) 331, 365, 473, 1010
Bso31I GGTCTC 1 cut(s) 185
Bsp1286I GDGCHC 3 cut(s) 156, 718, 859
Bsp13I TCCGGA 1 cut(s) 859
Bsp143I GATC 2 cut(s) 231, 465
Bsp1720I GCTNAGC 1 cut(s) 819
BspANI GGCC 4 cut(s) 331, 365, 473, 1010
BspCNI CTCAG 3 cut(s) 161, 601, 730
BspEI TCCGGA 1 cut(s) 859
BspLI GGNNCC 3 cut(s) 364, 417, 956
BspT107I GGYRCC 2 cut(s) 415, 954
BspTNI GGTCTC 1 cut(s) 185
BsrI ACTGG 1 cut(s) 1005
BssECI CCNNGG 1 cut(s) 358
BssMI GATC 2 cut(s) 231, 465
BssNI GRCGYC 1 cut(s) 955
Bst2UI CCWGG 1 cut(s) 359
Bst4CI ACNGT 4 cut(s) 196, 338, 463, 978
Bst6I CTCTTC 4 cut(s) 183, 692, 723, 839
BstACI GRCGYC 1 cut(s) 955
BstC8I GCNNGC 1 cut(s) 367
BstDEI CTNAG 4 cut(s) 148, 609, 717, 819
BstF5I GGATG 4 cut(s) 553, 610, 913, 1000
BstH2I RGCGCY 2 cut(s) 223, 958
BstHHI GCGC 3 cut(s) 111, 222, 957
BstKTI GATC 2 cut(s) 234, 468
BstMAI GTCTC 2 cut(s) 185, 872
BstMBI GATC 2 cut(s) 231, 465
BstMCI CGRYCG 2 cut(s) 234, 332
BstMWI GCNNNNNNNGC 2 cut(s) 21, 89
BstNI CCWGG 1 cut(s) 359
BstSCI CCNGG 2 cut(s) 264, 357
BstSFI CTRYAG 1 cut(s) 1063
BstV1I GCAGC 1 cut(s) 994
BstXI CCANNNNNNTGG 1 cut(s) 679
BstZI CGGCCG 1 cut(s) 329
BsuRI GGCC 4 cut(s) 331, 365, 473, 1010
BtsCI GGATG 4 cut(s) 553, 610, 913, 1000
BtsIMutI CAGTG 1 cut(s) 974
Cac8I GCNNGC 1 cut(s) 367
CciNI GCGGCCGC 1 cut(s) 329
CfoI GCGC 3 cut(s) 111, 222, 957
Cfr13I GGNCC 2 cut(s) 250, 363
CseI GACGC 1 cut(s) 889
Csp6I GTAC 3 cut(s) 262, 416, 454
CviAII CATG 1 cut(s) 1015
CviQI GTAC 3 cut(s) 262, 416, 454
DdeI CTNAG 4 cut(s) 148, 609, 717, 819
DinI GGCGCC 1 cut(s) 956
DpnI GATC 2 cut(s) 233, 467
DpnII GATC 2 cut(s) 231, 465
EaeI YGGCCR 1 cut(s) 329
EagI CGGCCG 1 cut(s) 329
Eam1104I CTCTTC 4 cut(s) 183, 692, 723, 839
EarI CTCTTC 4 cut(s) 183, 692, 723, 839
EciI GGCGGA 2 cut(s) 11, 79
Ecl136II GAGCTC 1 cut(s) 154
EclXI CGGCCG 1 cut(s) 329
Eco147I AGGCCT 2 cut(s) 473, 1010
Eco24I GRGCYC 2 cut(s) 156, 718
Eco31I GGTCTC 1 cut(s) 185
Eco47I GGWCC 1 cut(s) 250
Eco47III AGCGCT 1 cut(s) 221
Eco52I CGGCCG 1 cut(s) 329
Eco53kI GAGCTC 1 cut(s) 154
Eco57I CTGAAG 2 cut(s) 1074, 1100
EcoICRI GAGCTC 1 cut(s) 154
EcoO109I RGGNCCY 1 cut(s) 363
EcoRII CCWGG 1 cut(s) 357
EcoT38I GRGCYC 2 cut(s) 156, 718
EgeI GGCGCC 1 cut(s) 956
EheI GGCGCC 1 cut(s) 956
Esp3I CGTCTC 1 cut(s) 872
FaeI CATG 1 cut(s) 1018
FaiI YATR 6 cut(s) 312, 392, 585, 619, 831, 1016
FatI CATG 1 cut(s) 1014
FbaI TGATCA 1 cut(s) 465
Fnu4HI GCNGC 7 cut(s) 42, 202, 329, 332, 958, 972, 983
FokI GGATG 4 cut(s) 560, 617, 920, 1007
FriOI GRGCYC 2 cut(s) 156, 718
Fsp4HI GCNGC 7 cut(s) 42, 202, 329, 332, 958, 972, 983
FspBI CTAG 1 cut(s) 245
GlaI GCGC 3 cut(s) 110, 221, 956
GluI GCNGC 7 cut(s) 42, 202, 329, 332, 958, 972, 983
GsaI CCCAGC 2 cut(s) 52, 683
HaeII RGCGCY 2 cut(s) 223, 958
HaeIII GGCC 4 cut(s) 331, 365, 473, 1010
HapII CCGG 5 cut(s) 266, 419, 440, 545, 860
HgaI GACGC 1 cut(s) 889
HhaI GCGC 3 cut(s) 111, 222, 957
Hin1I GRCGYC 1 cut(s) 955
Hin1II CATG 1 cut(s) 1018
Hin6I GCGC 3 cut(s) 109, 220, 955
HinP1I GCGC 3 cut(s) 109, 220, 955
HinfI GANTC 3 cut(s) 143, 297, 497
HpaII CCGG 5 cut(s) 266, 419, 440, 545, 860
HphI GGTGA 4 cut(s) 199, 523, 757, 824
Hpy166II GTNNAC 2 cut(s) 373, 765
Hpy188I TCNGA 7 cut(s) 80, 151, 167, 277, 296, 1080, 1093
Hpy188III TCNNGA 3 cut(s) 130, 860, 877
Hpy8I GTNNAC 2 cut(s) 373, 765
Hpy99I CGWCG 1 cut(s) 281
HpyAV CCTTC 4 cut(s) 526, 704, 778, 898
HpyCH4III ACNGT 4 cut(s) 196, 338, 463, 978
HpyCH4IV ACGT 2 cut(s) 557, 1069
HpyCH4V TGCA 5 cut(s) 29, 480, 870, 936, 982
HpyF10VI GCNNNNNNNGC 2 cut(s) 21, 89
HpyF3I CTNAG 4 cut(s) 148, 609, 717, 819
HpySE526I ACGT 2 cut(s) 557, 1069
Hsp92I GRCGYC 1 cut(s) 955
Hsp92II CATG 1 cut(s) 1018
HspAI GCGC 3 cut(s) 109, 220, 955
KasI GGCGCC 1 cut(s) 954
Kpn2I TCCGGA 1 cut(s) 859
KpnI GGTACC 1 cut(s) 419
Ksp22I TGATCA 1 cut(s) 465
Kzo9I GATC 2 cut(s) 231, 465
LmnI GCTCC 3 cut(s) 634, 660, 862
Lsp1109I GCAGC 1 cut(s) 994
LweI GCATC 2 cut(s) 84, 595
MaeI CTAG 1 cut(s) 245
MaeII ACGT 2 cut(s) 557, 1069
MalI GATC 2 cut(s) 233, 467
MboI GATC 2 cut(s) 231, 465
MhlI GDGCHC 3 cut(s) 156, 718, 859
MluCI AATT 1 cut(s) 674
Mly113I GGCGCC 1 cut(s) 955
MlyI GAGTC 2 cut(s) 152, 491
MmeI TCCRAC 1 cut(s) 300
MroI TCCGGA 1 cut(s) 859
MroXI GAANNNNTTC 2 cut(s) 301, 404
MseI TTAA 3 cut(s) 783, 836, 1074
MspI CCGG 5 cut(s) 266, 419, 440, 545, 860
MspR9I CCNGG 2 cut(s) 266, 359
Mva1269I GAATGC 1 cut(s) 29
MvaI CCWGG 1 cut(s) 359
MwoI GCNNNNNNNGC 2 cut(s) 21, 89
NarI GGCGCC 1 cut(s) 955
NciI CCSGG 1 cut(s) 266
NdeII GATC 2 cut(s) 231, 465
NlaIII CATG 1 cut(s) 1018
NlaIV GGNNCC 3 cut(s) 364, 417, 956
NotI GCGGCCGC 1 cut(s) 329
PceI AGGCCT 2 cut(s) 473, 1010
PcsI WCGNNNNNNNCGW 2 cut(s) 192, 563
PctI GAATGC 1 cut(s) 29
PdmI GAANNNNTTC 2 cut(s) 301, 404
PfeI GAWTC 1 cut(s) 297
PkrI GCNGC 7 cut(s) 43, 203, 330, 333, 959, 973, 984
Ple19I CGATCG 1 cut(s) 234
PleI GAGTC 2 cut(s) 151, 491
PluTI GGCGCC 1 cut(s) 958
PpsI GAGTC 2 cut(s) 151, 491
Psp124BI GAGCTC 1 cut(s) 156
Psp6I CCWGG 1 cut(s) 357
PspFI CCCAGC 2 cut(s) 48, 679
PspGI CCWGG 1 cut(s) 357
PspN4I GGNNCC 3 cut(s) 364, 417, 956
PspPI GGNCC 2 cut(s) 250, 363
PvuI CGATCG 1 cut(s) 234
RsaI GTAC 3 cut(s) 263, 417, 455
RsaNI GTAC 3 cut(s) 262, 416, 454
SacI GAGCTC 1 cut(s) 156
SaqAI TTAA 3 cut(s) 783, 836, 1074
SatI GCNGC 7 cut(s) 42, 202, 329, 332, 958, 972, 983
Sau3AI GATC 2 cut(s) 231, 465
Sau96I GGNCC 2 cut(s) 250, 363
SchI GAGTC 2 cut(s) 152, 491
ScrFI CCNGG 2 cut(s) 266, 359
SduI GDGCHC 3 cut(s) 156, 718, 859
SfaNI GCATC 2 cut(s) 84, 595
SfcI CTRYAG 1 cut(s) 1063
SfoI GGCGCC 1 cut(s) 956
SinI GGWCC 1 cut(s) 250
Sse9I AATT 1 cut(s) 674
SseBI AGGCCT 2 cut(s) 473, 1010
SspDI GGCGCC 1 cut(s) 954
SspI AATATT 2 cut(s) 655, 742
SspMI CTAG 1 cut(s) 245
SstI GAGCTC 1 cut(s) 156
StuI AGGCCT 2 cut(s) 473, 1010
StyD4I CCNGG 2 cut(s) 264, 357
TaaI ACNGT 4 cut(s) 196, 338, 463, 978
TaiI ACGT 2 cut(s) 560, 1072
TaqI TCGA 4 cut(s) 99, 234, 431, 876
TasI AATT 1 cut(s) 674
TauI GCSGC 6 cut(s) 44, 204, 331, 334, 960, 974
TfiI GAWTC 1 cut(s) 297
Tru1I TTAA 3 cut(s) 783, 836, 1074
Tru9I TTAA 3 cut(s) 783, 836, 1074
TscAI CASTG 1 cut(s) 981
TseI GCWGC 1 cut(s) 982
TspGWI ACGGA 1 cut(s) 215
TspRI CASTG 1 cut(s) 981
VpaK11BI GGWCC 1 cut(s) 250
XmnI GAANNNNTTC 2 cut(s) 301, 404
XspI CTAG 1 cut(s) 245
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.