Rw4G029410

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr4
OG0016702
Physical Location & Seq
Reverse (-)
56096187 .. 56098285
2099 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G029410.1

Sequence Viewer

Length: 1542 bp
ATGGGTTATGCCCACCAGGTGTTCGATCAAATTCCTGAACCAAATTTTGCTCTATGGAATGCATTGTTGAGAGGGTATGCAAAGAATGAGAGTCATAGGGAGCATGGACATAATGCCAATTGCTATACATTCCCCGTTGTGATTAAATGTTGTGGGAGATTGAGTAGGTTGGTAGAAGGTGAAGAGGTGCATTGTGTTGTGATAAAATGTGGGTTCAGAGCAAACCCCTTTGTGGGAACGACGCTGATCGAAATGTATGCGGCTGGGGGAGTAATTGGAGCTGCTTATAAGGTGTTTGGTGAGATGTTTGAGAGAAATGTGGTTGCTTGGACTTCCATGATTAATGGCTACGTTTTGGGTGGTGATATGGTTTCTGCACAGCGCCTTTTTGATTTGGCGCCAGAACGAGATGTTGTGTTGTGGAACACTATGGTTTCTGGTTATATTGAGCAGCGGGATATGGTAACGGCTAGAAAACTTTTTGATAAGATGCCGAGAAGAGATGTTATTTGCTGGAATACGGTATTGAATGGCTATGCAAGTAATCAAGACATTGAGGCTTGTGAGGATTTGTTTGAGAAGATGCCTGAGAGGAACGTTTTCTCGTGGAATGGATTGATTGGCGGGTATGCACGCAATGGACGTTTCATTGAAGTTCTGGAATCTTTCAAGCGGATGCTTACTGAGGCGTGTGCGAGATTAGGAGCTCTTGATTTGGGTAAGTGGGTGCATGTATATGCAGAGAACATAGGATACAAGAGAAATGTATATGTTGGGAATGCGTTGATTGACATGTATGCAAAATGTGGTGTTGTTGACAATGCAGTAGATGTCTTCAAGAACATGGATAAGAAAGATTTAATTACTTGGAACACTATAATATGTGGCTTAGCAACACATGGACGCGGGGGTGATGCCTTAAAGTTGTTTTCAAAGATGAAGACTTCTGGATTAAAACCAGATGGGATCACCTTCATAGGCATTCTGTGCTCTTGTACACATCTAGGATTAGTCGAAGATGGCCTGTTGTATTTCCAATCAATGGTTAGTGACTATTCAATTGTGCCTCAAATTGAGCATTATGGTTGTATGGTTGATCTGTTTGGACGAGCCGGTCTTTTGGAACAGGCTGTGGAGTTTGTGAGGCAGATGCCAATAGAGGCAGATGTTGTCATTTGGGCTGCCTTACTTGGAGCATGTCGAACTTACAAGAACATTGAGTTGGCTGAGTTGGCTCTTGAACGGCTCATTGAACTTGAACCGAAAAACCCTGCCAATTATGTCATGCTTTCGAATATATATGGTGATCTTGGGAGATGGAAAGATGTGGCAAGATTAAAAGTTGCAATCAGGGATACCGGGTTCAAAAAATTCCCCGGTATTAGCTCTATTGAGGCCAATCATGGTGTGGTTGAATTTTGTTCCTTGGATAAGAGGCATCCTGAGACCGAGGAAATATATGAAGCCTTGAAGGGATTGACCAGTGCGCTAAGATCATCTGGATATGTACCAGACATTCTGGAGCTTGGGCATGGAGACTAG
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
DYW_deaminase PPR PPR_2

Protein Analysis

513

Amino Acids

57.41

Weight (kDa)

5.82

Isoelectric Point (pI)

44.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 136 - 168 2.5e-06 PPR repeat family
PPR_2 PF13041 167 - 200 1.1e-06 PPR repeat family
PPR PF01535 171 - 200 7.7e-06 PPR repeat
PPR PF01535 201 - 228 9e-06 PPR repeat
PPR_2 PF13041 286 - 332 3e-11 PPR repeat family
PPR PF01535 288 - 318 2.2e-06 PPR repeat
E_motif PF20431 403 - 465 1.1e-22 E motif
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: OG0016702)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G13410
fragaria_vesca FvH4_4g27250 FvH4_4g27250 FvH4_4g27250
malus_domestica MD15G1390900.v1.1
prunus_persica Prupe.1G312300_v2.0.a1
pyrus_communis pycom15g35000
rosa_chinensis RchiOBHm_Chr4g0435031
rosa_laevigata RLG00000006626
rosa_multiflora Rmu_sc0000400.1_g000012
rosa_roxburghii Rroxscaffold_5G00376240
rosa_rugosa Rorug04G0281900
rosa_samantha Rh4BG345300
rosa_wichuraiana Rw4G029410

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 288
AasI GACNNNNNNGTC 1 cut(s) 1113
AccB1I GGYRCC 1 cut(s) 397
AccB7I CCANNNNNTGG 1 cut(s) 1042
AccII CGCG 1 cut(s) 906
AciI CCGC 5 cut(s) 260, 454, 624, 673, 906
AclI AACGTT 1 cut(s) 597
AclWI GGATC 1 cut(s) 974
AcsI RAATTY 4 cut(s) 30, 43, 1370, 1415
AcyI GRCGYC 1 cut(s) 398
AdeI CACNNNGTG 1 cut(s) 19
AfaI GTAC 2 cut(s) 997, 1509
AfiI CCNNNNNNNGG 3 cut(s) 232, 233, 1042
AflIII ACRYGT 1 cut(s) 792
AjnI CCWGG 1 cut(s) 15
AjuI GAANNNNNNNTTGG 2 cut(s) 1205, 1237
AloI GAACNNNNNNTCC 2 cut(s) 1346, 1378
AluBI AGCT 4 cut(s) 281, 707, 1386, 1525
AluI AGCT 4 cut(s) 281, 707, 1386, 1525
Alw21I GWGCWC 2 cut(s) 709, 992
Alw26I GTCTC 2 cut(s) 1439, 1530
AlwI GGATC 1 cut(s) 974
AoxI GGCC 2 cut(s) 1021, 1395
ApeKI GCWGC 3 cut(s) 281, 451, 1181
ApoI RAATTY 4 cut(s) 30, 43, 1370, 1415
AseI ATTAAT 1 cut(s) 342
Asp700I GAANNNNTTC 1 cut(s) 599
AspLEI GCGC 3 cut(s) 384, 400, 1489
AsuC2I CCSGG 2 cut(s) 1360, 1377
AsuHPI GGTGA 6 cut(s) 191, 311, 374, 923, 961, 1316
AsuII TTCGAA 1 cut(s) 1292
BanI GGYRCC 1 cut(s) 397
BanII GRGCYC 1 cut(s) 709
BauI CACGAG 1 cut(s) 604
BbsI GAAGAC 2 cut(s) 826, 947
Bbv12I GWGCWC 2 cut(s) 709, 992
BbvI GCAGC 3 cut(s) 268, 463, 1168
BccI CCATC 3 cut(s) 956, 1013, 1311
BceAI ACGGC 2 cut(s) 483, 1259
BcgI CGANNNNNNTGC 2 cut(s) 239, 273
BciT130I CCWGG 1 cut(s) 17
BciVI GTATCC 2 cut(s) 746, 1348
BcnI CCSGG 2 cut(s) 1360, 1377
BcoDI GTCTC 2 cut(s) 1439, 1530
BfaI CTAG 3 cut(s) 471, 1004, 1540
BfoI RGCGCY 2 cut(s) 385, 401
BfuI GTATCC 2 cut(s) 746, 1348
BisI GCNGC 4 cut(s) 261, 282, 452, 1182
BlpI GCTNAGC 1 cut(s) 889
BlsI GCNGC 4 cut(s) 262, 283, 453, 1183
Bme1390I CCNGG 3 cut(s) 17, 1360, 1377
BmiI GGNNCC 1 cut(s) 399
BmrFI CCNGG 3 cut(s) 17, 1360, 1377
BmsI GCATC 6 cut(s) 480, 573, 666, 904, 1140, 1447
BpiI GAAGAC 2 cut(s) 826, 947
BpmI CTGGAG 1 cut(s) 1541
Bpu1102I GCTNAGC 1 cut(s) 889
Bpu14I TTCGAA 1 cut(s) 1292
BpuMI CCSGG 2 cut(s) 1360, 1377
BsaHI GRCGYC 1 cut(s) 398
BsaI GGTCTC 1 cut(s) 1439
BsaJI CCNNGG 3 cut(s) 1375, 1425, 1449
BsaXI ACNNNNNCTCC 2 cut(s) 148, 178
Bsc4I CCNNNNNNNGG 3 cut(s) 232, 233, 1042
Bse118I RCCGGY 1 cut(s) 1112
Bse1I ACTGG 1 cut(s) 1482
Bse3DI GCAATG 1 cut(s) 643
BseBI CCWGG 1 cut(s) 17
BseDI CCNNGG 3 cut(s) 1375, 1425, 1449
BseGI GGATG 2 cut(s) 681, 1438
BseLI CCNNNNNNNGG 3 cut(s) 232, 233, 1042
BseMI GCAATG 1 cut(s) 643
BseMII CTCAG 4 cut(s) 579, 675, 1218, 1434
BseNI ACTGG 1 cut(s) 1482
BseXI GCAGC 3 cut(s) 268, 463, 1168
BseYI CCCAGC 1 cut(s) 263
BsgI GTGCAG 1 cut(s) 360
Bsh1236I CGCG 1 cut(s) 906
BshFI GGCC 2 cut(s) 1023, 1397
BshNI GGYRCC 1 cut(s) 397
BsiHKAI GWGCWC 2 cut(s) 709, 992
BsiSI CCGG 3 cut(s) 1113, 1359, 1377
BslI CCNNNNNNNGG 3 cut(s) 232, 233, 1042
BsmAI GTCTC 2 cut(s) 1439, 1530
BsmI GAATGC 3 cut(s) 64, 784, 981
BsnI GGCC 2 cut(s) 1023, 1397
Bso31I GGTCTC 1 cut(s) 1439
Bsp119I TTCGAA 1 cut(s) 1292
Bsp1286I GDGCHC 2 cut(s) 709, 992
Bsp1407I TGTACA 1 cut(s) 995
Bsp143I GATC 6 cut(s) 25, 246, 966, 1096, 1306, 1493
Bsp1720I GCTNAGC 1 cut(s) 889
BspACI CCGC 5 cut(s) 260, 454, 624, 673, 906
BspANI GGCC 2 cut(s) 1023, 1397
BspCNI CTCAG 4 cut(s) 580, 676, 1219, 1435
BspFNI CGCG 1 cut(s) 906
BspLI GGNNCC 1 cut(s) 399
BspPI GGATC 1 cut(s) 974
BspT104I TTCGAA 1 cut(s) 1292
BspT107I GGYRCC 1 cut(s) 397
BspTNI GGTCTC 1 cut(s) 1439
BsrDI GCAATG 1 cut(s) 643
BsrFI RCCGGY 1 cut(s) 1112
BsrGI TGTACA 1 cut(s) 995
BsrI ACTGG 1 cut(s) 1482
BssAI RCCGGY 1 cut(s) 1112
BssECI CCNNGG 3 cut(s) 1375, 1425, 1449
BssMI GATC 6 cut(s) 25, 246, 966, 1096, 1306, 1493
BssNI GRCGYC 1 cut(s) 398
BssSI CACGAG 1 cut(s) 604
BssT1I CCWWGG 1 cut(s) 1425
Bst2BI CACGAG 1 cut(s) 604
Bst2UI CCWGG 1 cut(s) 17
Bst4CI ACNGT 1 cut(s) 523
Bst6I CTCTTC 2 cut(s) 177, 493
BstACI GRCGYC 1 cut(s) 398
BstAPI GCANNNNNTGC 1 cut(s) 987
BstAUI TGTACA 1 cut(s) 995
BstBI TTCGAA 1 cut(s) 1292
BstC8I GCNNGC 1 cut(s) 634
BstDEI CTNAG 6 cut(s) 588, 684, 889, 1227, 1443, 1490
BstF5I GGATG 2 cut(s) 681, 1438
BstFNI CGCG 1 cut(s) 906
BstH2I RGCGCY 2 cut(s) 385, 401
BstHHI GCGC 3 cut(s) 384, 400, 1489
BstKTI GATC 6 cut(s) 28, 249, 969, 1099, 1309, 1496
BstMAI GTCTC 2 cut(s) 1439, 1530
BstMBI GATC 6 cut(s) 25, 246, 966, 1096, 1306, 1493
BstMWI GCNNNNNNNGC 2 cut(s) 987, 1232
BstNI CCWGG 1 cut(s) 17
BstNSI RCATGY 3 cut(s) 734, 796, 1200
BstSCI CCNGG 3 cut(s) 15, 1358, 1375
BstUI CGCG 1 cut(s) 906
BstV1I GCAGC 3 cut(s) 268, 463, 1168
BstV2I GAAGAC 2 cut(s) 826, 947
BsuI GTATCC 2 cut(s) 746, 1348
BsuRI GGCC 2 cut(s) 1023, 1397
BtsCI GGATG 2 cut(s) 681, 1438
BtsIMutI CAGTG 1 cut(s) 1489
Cac8I GCNNGC 1 cut(s) 634
CfoI GCGC 3 cut(s) 384, 400, 1489
Cfr10I RCCGGY 1 cut(s) 1112
CseI GACGC 2 cut(s) 250, 912
CsiI ACCWGGT 1 cut(s) 15
Csp6I GTAC 2 cut(s) 996, 1508
CviQI GTAC 2 cut(s) 996, 1508
DdeI CTNAG 6 cut(s) 588, 684, 889, 1227, 1443, 1490
DinI GGCGCC 1 cut(s) 399
DpnI GATC 6 cut(s) 27, 248, 968, 1098, 1308, 1495
DpnII GATC 6 cut(s) 25, 246, 966, 1096, 1306, 1493
DraIII CACNNNGTG 1 cut(s) 19
DrdI GACNNNNNNGTC 1 cut(s) 1113
DseDI GACNNNNNNGTC 1 cut(s) 1113
Eam1104I CTCTTC 2 cut(s) 177, 493
EarI CTCTTC 2 cut(s) 177, 493
Ecl136II GAGCTC 1 cut(s) 707
Eco130I CCWWGG 1 cut(s) 1425
Eco24I GRGCYC 1 cut(s) 709
Eco31I GGTCTC 1 cut(s) 1439
Eco53kI GAGCTC 1 cut(s) 707
EcoICRI GAGCTC 1 cut(s) 707
EcoRII CCWGG 1 cut(s) 15
EcoT14I CCWWGG 1 cut(s) 1425
EcoT22I ATGCAT 1 cut(s) 64
EcoT38I GRGCYC 1 cut(s) 709
EgeI GGCGCC 1 cut(s) 399
EheI GGCGCC 1 cut(s) 399
ErhI CCWWGG 1 cut(s) 1425
FauI CCCGC 3 cut(s) 447, 617, 899
Fnu4HI GCNGC 4 cut(s) 261, 282, 452, 1182
FokI GGATG 2 cut(s) 688, 1425
FriOI GRGCYC 1 cut(s) 709
Fsp4HI GCNGC 4 cut(s) 261, 282, 452, 1182
FspBI CTAG 3 cut(s) 471, 1004, 1540
GlaI GCGC 3 cut(s) 383, 399, 1488
GluI GCNGC 4 cut(s) 261, 282, 452, 1182
GsaI CCCAGC 1 cut(s) 267
GsuI CTGGAG 1 cut(s) 1541
HaeII RGCGCY 2 cut(s) 385, 401
HaeIII GGCC 2 cut(s) 1023, 1397
HapII CCGG 3 cut(s) 1113, 1359, 1377
HgaI GACGC 2 cut(s) 250, 912
HhaI GCGC 3 cut(s) 384, 400, 1489
Hin1I GRCGYC 1 cut(s) 398
Hin6I GCGC 3 cut(s) 382, 398, 1487
HinP1I GCGC 3 cut(s) 382, 398, 1487
HincII GTYRAC 1 cut(s) 817
HindII GTYRAC 1 cut(s) 817
HinfI GANTC 2 cut(s) 91, 662
HpaII CCGG 3 cut(s) 1113, 1359, 1377
HphI GGTGA 6 cut(s) 191, 311, 374, 923, 961, 1316
Hpy166II GTNNAC 2 cut(s) 817, 998
Hpy188I TCNGA 1 cut(s) 218
Hpy8I GTNNAC 2 cut(s) 817, 998
Hpy99I CGWCG 1 cut(s) 244
HpyAV CCTTC 3 cut(s) 170, 982, 1465
HpyCH4III ACNGT 1 cut(s) 523
HpyCH4IV ACGT 3 cut(s) 351, 597, 643
HpyF10VI GCNNNNNNNGC 2 cut(s) 987, 1232
HpyF3I CTNAG 6 cut(s) 588, 684, 889, 1227, 1443, 1490
HpySE526I ACGT 3 cut(s) 351, 597, 643
Hsp92I GRCGYC 1 cut(s) 398
HspAI GCGC 3 cut(s) 382, 398, 1487
KasI GGCGCC 1 cut(s) 397
Kzo9I GATC 6 cut(s) 25, 246, 966, 1096, 1306, 1493
LmnI GCTCC 5 cut(s) 100, 278, 704, 1193, 1522
Lsp1109I GCAGC 3 cut(s) 268, 463, 1168
LweI GCATC 6 cut(s) 480, 573, 666, 904, 1140, 1447
MabI ACCWGGT 1 cut(s) 15
MaeI CTAG 3 cut(s) 471, 1004, 1540
MaeII ACGT 3 cut(s) 351, 597, 643
MaeIII GTNAC 2 cut(s) 463, 1049
MalI GATC 6 cut(s) 27, 248, 968, 1098, 1308, 1495
MboI GATC 6 cut(s) 25, 246, 966, 1096, 1306, 1493
MboII GAAGA 6 cut(s) 194, 510, 592, 826, 952, 1028
MfeI CAATTG 2 cut(s) 118, 1059
MhlI GDGCHC 2 cut(s) 709, 992
Mly113I GGCGCC 1 cut(s) 398
MlyI GAGTC 1 cut(s) 100
Mph1103I ATGCAT 1 cut(s) 64
MroXI GAANNNNTTC 1 cut(s) 599
MseI TTAA 6 cut(s) 144, 342, 860, 920, 953, 1337
MslI CAYNNNNRTG 1 cut(s) 735
MspA1I CMGCKG 1 cut(s) 454
MspI CCGG 3 cut(s) 1113, 1359, 1377
MspR9I CCNGG 3 cut(s) 17, 1360, 1377
MunI CAATTG 2 cut(s) 118, 1059
Mva1269I GAATGC 3 cut(s) 64, 784, 981
MvaI CCWGG 1 cut(s) 17
MvnI CGCG 1 cut(s) 906
MwoI GCNNNNNNNGC 2 cut(s) 987, 1232
NarI GGCGCC 1 cut(s) 398
NciI CCSGG 2 cut(s) 1360, 1377
NdeII GATC 6 cut(s) 25, 246, 966, 1096, 1306, 1493
NlaIV GGNNCC 1 cut(s) 399
NmeAIII GCCGAG 1 cut(s) 519
NmuCI GTSAC 1 cut(s) 1049
NsiI ATGCAT 1 cut(s) 64
NspI RCATGY 3 cut(s) 734, 796, 1200
NspV TTCGAA 1 cut(s) 1292
PciI ACATGT 1 cut(s) 792
PcsI WCGNNNNNNNCGW 1 cut(s) 640
PctI GAATGC 3 cut(s) 64, 784, 981
PdmI GAANNNNTTC 1 cut(s) 599
PfeI GAWTC 1 cut(s) 662
PflMI CCANNNNNTGG 1 cut(s) 1042
PkrI GCNGC 4 cut(s) 262, 283, 453, 1183
PleI GAGTC 1 cut(s) 99
PluTI GGCGCC 1 cut(s) 401
PpsI GAGTC 1 cut(s) 99
PscI ACATGT 1 cut(s) 792
PshBI ATTAAT 1 cut(s) 342
PsiI TTATAA 1 cut(s) 288
Psp124BI GAGCTC 1 cut(s) 709
Psp1406I AACGTT 1 cut(s) 597
Psp6I CCWGG 1 cut(s) 15
PspFI CCCAGC 1 cut(s) 263
PspGI CCWGG 1 cut(s) 15
PspN4I GGNNCC 1 cut(s) 399
PsrI GAACNNNNNNTAC 2 cut(s) 737, 769
RsaI GTAC 2 cut(s) 997, 1509
RsaNI GTAC 2 cut(s) 996, 1508
RseI CAYNNNNRTG 1 cut(s) 735
SacI GAGCTC 1 cut(s) 709
SaqAI TTAA 6 cut(s) 144, 342, 860, 920, 953, 1337
SatI GCNGC 4 cut(s) 261, 282, 452, 1182
Sau3AI GATC 6 cut(s) 25, 246, 966, 1096, 1306, 1493
SchI GAGTC 1 cut(s) 100
ScrFI CCNGG 3 cut(s) 17, 1360, 1377
SduI GDGCHC 2 cut(s) 709, 992
SexAI ACCWGGT 1 cut(s) 15
SfaNI GCATC 6 cut(s) 480, 573, 666, 904, 1140, 1447
SfoI GGCGCC 1 cut(s) 399
SfuI TTCGAA 1 cut(s) 1292
SmiMI CAYNNNNRTG 1 cut(s) 735
SsiI CCGC 5 cut(s) 260, 454, 624, 673, 906
SspDI GGCGCC 1 cut(s) 397
SspMI CTAG 3 cut(s) 471, 1004, 1540
SstI GAGCTC 1 cut(s) 709
StyD4I CCNGG 3 cut(s) 15, 1358, 1375
StyI CCWWGG 1 cut(s) 1425
TaaI ACNGT 1 cut(s) 523
TaiI ACGT 3 cut(s) 354, 600, 646
TaqI TCGA 5 cut(s) 24, 249, 1014, 1201, 1292
TaqII GACCGA 1 cut(s) 1463
TatI WGTACW 1 cut(s) 995
TauI GCSGC 1 cut(s) 263
TfiI GAWTC 1 cut(s) 662
Tru1I TTAA 6 cut(s) 144, 342, 860, 920, 953, 1337
Tru9I TTAA 6 cut(s) 144, 342, 860, 920, 953, 1337
TscAI CASTG 1 cut(s) 1489
TseFI GTSAC 1 cut(s) 1049
TseI GCWGC 3 cut(s) 281, 451, 1181
Tsp45I GTSAC 1 cut(s) 1049
TspDTI ATGAA 4 cut(s) 637, 953, 964, 1476
TspRI CASTG 1 cut(s) 1489
Van91I CCANNNNNTGG 1 cut(s) 1042
VspI ATTAAT 1 cut(s) 342
XapI RAATTY 4 cut(s) 30, 43, 1370, 1415
XceI RCATGY 3 cut(s) 734, 796, 1200
XcmI CCANNNNNNNNNTGG 1 cut(s) 1405
XmnI GAANNNNTTC 1 cut(s) 599
XspI CTAG 3 cut(s) 471, 1004, 1540
Zsp2I ATGCAT 1 cut(s) 64
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.