pycom09g16580

Pentatricopeptide repeat-containing protein At2g20710, mitochondrial-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
pyrus_communis
Chr9
OG0018494
Physical Location & Seq
Reverse (-)
16898087 .. 16900415
2329 bp
Loading structure...
UTR
Exon/CDS
Intron
pycom09g16580.1

Sequence Viewer

Length: 1518 bp
ATGAAGCTTAATTGCATGAGCAAGCTCATCTCCTTCTCCCTTCAAAACCCTCGAAAAAATTACACTCTTTTCAATTCAATCCGCCCTTCTTCTTCTTCTTCTTCGTCTTCTTCTTCGCCTTCGTGGTCGAATTCTCTCCATGACCGCATAAAGGTCATCAGAGACCCAAAAGCCTCAGTTCTGCCGGTGCTGGAACAATGGGTCAGTGAGGGTCAGGCTGTTGAGAAGCAGCAGCTTCAGTCGCTCGTTCGGCTCTTGAAGGACTTTAGACGCTTCAATCACGCTCTTGAGATATCCCAATGGATGACGGATCATAGATATTTTGATTTATCTCCAAGTGATGCTGCTGCTAGATTGAACTTAATCCACAGAGTTCATGGACTAGACCATGCAGAAAATTACTTCAACAATCTGTCAAAAAGTTTAAAATCGCTTAACGCATATGGCGCCCTTCTATGCATTTATGTGCAAGAGCGGTCTGTTGAGAAAGCGGAAGCGACCATGCAGAAGATGAAGAAGATGGGTATGGCAAAAACCTCATTCCCTTACAACATGTTGATCAATCTTTACTCCCAAAATGGACAATATGAGAAGATCAACATACTGATGCAAGAAATGGAAGAGAATGGAATTCCAATTGACAAGTACACATTGAGAAATCGAATGATGGCATATATTGCAGCATCTGACATGCCTGGGATGGAAGCTATCCTAAATAGGATGGAGGAAGACCCAAACTTAATTGTCGACTGGAAAATATATTCAATGGCAGCAAATGGGTATCTAAAAGTCGGGTTAACAGAGAAGGCTATTTCAATGCTGAAGATGCTGGAGGGATTGATGCCTCTGCAAGGGAGGAAATCAGTAGAATTTCTTCTGACTCTTTATGCAAGTACTGGCAATAAAGAGGAGCTCTACAGAGTTTGGGATACATACAAGCCATCGAATGAACCAGTGGATGTACCATATGGCTGCATGATCTCATCTCTGGCAAAGTTGGATGATATTGAGGGGGCTGAAGGGATATTTGAGGAATGGGAGTCACAATGCAAAATATACGACTTTCGGGTGCTGAACAGGCTTCTTGTTGCCTATTGCAAAAGGGGTCTTTTTGATAAGGCAGAATCAGTTGTAAACAAGGCCACGGAAGGAAGAATCCCTTATGCCAGCACATGGAATGTGTTAGCAATAGGTTATACAGAGAAGCAGCAAATGCCTAAAGCAGTTGAAATGTTGAAGAAGGCACTCTCAGTTGGTAGGCGAGGCTGGGTGCCGCATTCCCCAACTTTGACGGCCTGTTTGGATTATTTGGAAGGGCAGGGAGATATTGAAGGAATTGAAGAGATAATAAGTTTACTAAAAAACTTGGGTCCTTTGTCCGAGGATTTGTATCACAGACTTCTGAGGGCTAGTGTTGCAGCTGGAAAATCAGTTGCTATAATTCTTGATCAGATGAAAGTGGATGGGTTTACTGCTGATGAAGAAGCATATAAGGTCATTGAAACAAGCCCAAGTTAG
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
PPR

Protein Analysis

506

Amino Acids

57.25

Weight (kDa)

6.74

Isoelectric Point (pI)

48.09

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 182 - 217 1.9e-07 PPR repeat family
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: OG0018494)

Species Orthologous Gene IDs
malus_domestica MD09G1248900.v1.1
prunus_persica Prupe.3G136700_v2.0.a1
pyrus_communis pycom09g16580
rosa_chinensis RchiOBHm_Chr2g0126311
rosa_laevigata RLG00000018900
rosa_multiflora Rmu_ssc0000264.1_g000039
rosa_roxburghii Rroxscaffold_2G00117250
rosa_samantha Rh2AG319400 Rh2BG327800 Rh2DG347500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 2 cut(s) 446, 1270
AccB7I CCANNNNNTGG 1 cut(s) 1173
AccBSI CCGCTC 1 cut(s) 475
AccI GTMKAC 1 cut(s) 747
AciI CCGC 5 cut(s) 82, 145, 475, 491, 1274
AclWI GGATC 1 cut(s) 318
AcsI RAATTY 3 cut(s) 130, 630, 869
AcuI CTGAAG 3 cut(s) 221, 842, 1038
AcyI GRCGYC 1 cut(s) 447
AfaI GTAC 3 cut(s) 647, 895, 963
AfiI CCNNNNNNNGG 3 cut(s) 151, 851, 1173
AflIII ACRYGT 1 cut(s) 552
AjnI CCWGG 1 cut(s) 694
AluBI AGCT 6 cut(s) 7, 25, 235, 707, 913, 1421
AluI AGCT 6 cut(s) 7, 25, 235, 707, 913, 1421
Alw21I GWGCWC 1 cut(s) 915
Alw26I GTCTC 1 cut(s) 156
AlwI GGATC 1 cut(s) 318
AlwNI CAGNNNCTG 1 cut(s) 686
AoxI GGCC 2 cut(s) 1140, 1293
ApeKI GCWGC 9 cut(s) 229, 232, 344, 347, 680, 770, 972, 1207, 1418
ApoI RAATTY 3 cut(s) 130, 630, 869
ArsI GACNNNNNNTTYG 2 cut(s) 1282, 1314
Asp700I GAANNNNTTC 1 cut(s) 873
AspLEI GCGC 1 cut(s) 449
AspS9I GGNCC 1 cut(s) 1370
AvaII GGWCC 1 cut(s) 1370
BanI GGYRCC 2 cut(s) 446, 1270
BanII GRGCYC 1 cut(s) 915
BarI GAAGNNNNNNTAC 2 cut(s) 858, 890
BbsI GAAGAC 2 cut(s) 99, 735
Bbv12I GWGCWC 1 cut(s) 915
BbvI GCAGC 9 cut(s) 241, 244, 331, 334, 692, 782, 959, 1219, 1430
BccI CCATC 6 cut(s) 514, 661, 694, 715, 949, 1457
BceAI ACGGC 1 cut(s) 1308
BciT130I CCWGG 1 cut(s) 696
BciVI GTATCC 1 cut(s) 922
BclI TGATCA 2 cut(s) 558, 1447
BcoDI GTCTC 1 cut(s) 156
BfaI CTAG 3 cut(s) 351, 383, 1410
BfmI CTRYAG 1 cut(s) 916
BfoI RGCGCY 1 cut(s) 450
BfuI GTATCC 1 cut(s) 922
BmcAI AGTACT 1 cut(s) 895
Bme1390I CCNGG 1 cut(s) 696
Bme18I GGWCC 1 cut(s) 1370
BmgT120I GGNCC 1 cut(s) 1370
BmiI GGNNCC 3 cut(s) 448, 1272, 1371
BmrFI CCNGG 1 cut(s) 696
BmsI GCATC 5 cut(s) 331, 597, 692, 816, 831
BpiI GAAGAC 2 cut(s) 99, 735
BpmI CTGGAG 1 cut(s) 851
BpuEI CTTGAG 1 cut(s) 308
BsaBI GATNNNNATC 1 cut(s) 1389
BsaHI GRCGYC 1 cut(s) 447
BsaI GGTCTC 1 cut(s) 156
BsaJI CCNNGG 3 cut(s) 695, 1143, 1380
Bsc4I CCNNNNNNNGG 3 cut(s) 151, 851, 1173
Bse118I RCCGGY 1 cut(s) 184
Bse1I ACTGG 3 cut(s) 755, 901, 953
Bse8I GATNNNNATC 1 cut(s) 1389
BseBI CCWGG 1 cut(s) 696
BseDI CCNNGG 3 cut(s) 695, 1143, 1380
BseGI GGATG 6 cut(s) 309, 705, 726, 964, 1006, 1468
BseJI GATNNNNATC 1 cut(s) 1389
BseLI CCNNNNNNNGG 3 cut(s) 151, 851, 1173
BseMII CTCAG 3 cut(s) 189, 1263, 1394
BseNI ACTGG 3 cut(s) 755, 901, 953
BseRI GAGGAG 1 cut(s) 923
BseXI GCAGC 9 cut(s) 241, 244, 331, 334, 692, 782, 959, 1219, 1430
BseYI CCCAGC 1 cut(s) 1266
BshFI GGCC 2 cut(s) 1142, 1295
BshNI GGYRCC 2 cut(s) 446, 1270
BsiHKAI GWGCWC 1 cut(s) 915
BsiSI CCGG 1 cut(s) 185
BslI CCNNNNNNNGG 3 cut(s) 151, 851, 1173
BsmAI GTCTC 1 cut(s) 156
BsmI GAATGC 1 cut(s) 1276
BsnI GGCC 2 cut(s) 1142, 1295
Bso31I GGTCTC 1 cut(s) 156
Bsp1286I GDGCHC 1 cut(s) 915
Bsp143I GATC 5 cut(s) 310, 558, 594, 978, 1447
BspACI CCGC 5 cut(s) 82, 145, 475, 491, 1274
BspANI GGCC 2 cut(s) 1142, 1295
BspCNI CTCAG 3 cut(s) 188, 1262, 1395
BspLI GGNNCC 3 cut(s) 448, 1272, 1371
BspPI GGATC 1 cut(s) 318
BspT107I GGYRCC 2 cut(s) 446, 1270
BspTNI GGTCTC 1 cut(s) 156
BsrBI CCGCTC 1 cut(s) 475
BsrFI RCCGGY 1 cut(s) 184
BsrI ACTGG 3 cut(s) 755, 901, 953
BssAI RCCGGY 1 cut(s) 184
BssECI CCNNGG 3 cut(s) 695, 1143, 1380
BssMI GATC 5 cut(s) 310, 558, 594, 978, 1447
BssNI GRCGYC 1 cut(s) 447
Bst2UI CCWGG 1 cut(s) 696
Bst6I CTCTTC 2 cut(s) 615, 1335
BstACI GRCGYC 1 cut(s) 447
BstAPI GCANNNNNTGC 2 cut(s) 677, 1213
BstC8I GCNNGC 2 cut(s) 23, 1168
BstDEI CTNAG 3 cut(s) 175, 1249, 1403
BstDSI CCRYGG 1 cut(s) 1143
BstENI CCTNNNNNAGG 1 cut(s) 849
BstF5I GGATG 6 cut(s) 309, 705, 726, 964, 1006, 1468
BstH2I RGCGCY 1 cut(s) 450
BstHHI GCGC 1 cut(s) 449
BstKTI GATC 5 cut(s) 313, 561, 597, 981, 1450
BstMAI GTCTC 1 cut(s) 156
BstMBI GATC 5 cut(s) 310, 558, 594, 978, 1447
BstMWI GCNNNNNNNGC 8 cut(s) 241, 250, 446, 677, 826, 1078, 1213, 1415
BstNI CCWGG 1 cut(s) 696
BstNSI RCATGY 2 cut(s) 556, 694
BstSCI CCNGG 1 cut(s) 694
BstSFI CTRYAG 1 cut(s) 916
BstV1I GCAGC 9 cut(s) 241, 244, 331, 334, 692, 782, 959, 1219, 1430
BstV2I GAAGAC 2 cut(s) 99, 735
BsuI GTATCC 1 cut(s) 922
BsuRI GGCC 2 cut(s) 1142, 1295
BtgI CCRYGG 1 cut(s) 1143
BtsCI GGATG 6 cut(s) 309, 705, 726, 964, 1006, 1468
BtsIMutI CAGTG 2 cut(s) 211, 960
Cac8I GCNNGC 2 cut(s) 23, 1168
CaiI CAGNNNCTG 1 cut(s) 686
CfoI GCGC 1 cut(s) 449
Cfr10I RCCGGY 1 cut(s) 184
Cfr13I GGNCC 1 cut(s) 1370
CseI GACGC 1 cut(s) 279
Csp6I GTAC 3 cut(s) 646, 894, 962
CviAII CATG 9 cut(s) 16, 140, 377, 389, 502, 553, 691, 976, 1173
CviQI GTAC 3 cut(s) 646, 894, 962
DdeI CTNAG 3 cut(s) 175, 1249, 1403
DinI GGCGCC 1 cut(s) 448
DpnI GATC 5 cut(s) 312, 560, 596, 980, 1449
DpnII GATC 5 cut(s) 310, 558, 594, 978, 1447
DraI TTTAAA 1 cut(s) 426
Eam1104I CTCTTC 2 cut(s) 615, 1335
EarI CTCTTC 2 cut(s) 615, 1335
EciI GGCGGA 1 cut(s) 71
Ecl136II GAGCTC 1 cut(s) 913
Eco24I GRGCYC 1 cut(s) 915
Eco31I GGTCTC 1 cut(s) 156
Eco32I GATATC 1 cut(s) 294
Eco47I GGWCC 1 cut(s) 1370
Eco53kI GAGCTC 1 cut(s) 913
Eco57I CTGAAG 3 cut(s) 221, 842, 1038
EcoICRI GAGCTC 1 cut(s) 913
EcoNI CCTNNNNNAGG 1 cut(s) 849
EcoO109I RGGNCCY 1 cut(s) 1370
EcoRI GAATTC 2 cut(s) 130, 630
EcoRII CCWGG 1 cut(s) 694
EcoRV GATATC 1 cut(s) 294
EcoT22I ATGCAT 1 cut(s) 461
EcoT38I GRGCYC 1 cut(s) 915
EgeI GGCGCC 1 cut(s) 448
EheI GGCGCC 1 cut(s) 448
FaeI CATG 9 cut(s) 19, 143, 380, 392, 505, 556, 694, 979, 1176
FalI AAGNNNNNCTT 2 cut(s) 1144, 1176
FatI CATG 9 cut(s) 15, 139, 376, 388, 501, 552, 690, 975, 1172
FauNDI CATATG 2 cut(s) 442, 967
FbaI TGATCA 2 cut(s) 558, 1447
FblI GTMKAC 1 cut(s) 747
FokI GGATG 6 cut(s) 316, 712, 733, 971, 1013, 1475
FriOI GRGCYC 1 cut(s) 915
FspBI CTAG 3 cut(s) 351, 383, 1410
GlaI GCGC 1 cut(s) 448
GsaI CCCAGC 1 cut(s) 1270
GsuI CTGGAG 1 cut(s) 851
HaeII RGCGCY 1 cut(s) 450
HaeIII GGCC 2 cut(s) 1142, 1295
HapII CCGG 1 cut(s) 185
HgaI GACGC 1 cut(s) 279
HhaI GCGC 1 cut(s) 449
Hin1I GRCGYC 1 cut(s) 447
Hin1II CATG 9 cut(s) 19, 143, 380, 392, 505, 556, 694, 979, 1176
Hin6I GCGC 1 cut(s) 447
HinP1I GCGC 1 cut(s) 447
HincII GTYRAC 2 cut(s) 748, 798
HindII GTYRAC 2 cut(s) 748, 798
HindIII AAGCTT 1 cut(s) 5
HinfI GANTC 4 cut(s) 880, 1040, 1124, 1155
HpaI GTTAAC 1 cut(s) 798
HpaII CCGG 1 cut(s) 185
Hpy166II GTNNAC 6 cut(s) 648, 748, 798, 1135, 1355, 1470
Hpy188I TCNGA 6 cut(s) 161, 688, 879, 1381, 1404, 1452
Hpy188III TCNNGA 3 cut(s) 256, 287, 1445
Hpy8I GTNNAC 6 cut(s) 648, 748, 798, 1135, 1355, 1470
HpyF10VI GCNNNNNNNGC 8 cut(s) 241, 250, 446, 677, 826, 1078, 1213, 1415
HpyF3I CTNAG 3 cut(s) 175, 1249, 1403
Hsp92I GRCGYC 1 cut(s) 447
Hsp92II CATG 9 cut(s) 19, 143, 380, 392, 505, 556, 694, 979, 1176
HspAI GCGC 1 cut(s) 447
KasI GGCGCC 1 cut(s) 446
Ksp22I TGATCA 2 cut(s) 558, 1447
KspAI GTTAAC 1 cut(s) 798
Kzo9I GATC 5 cut(s) 310, 558, 594, 978, 1447
LmnI GCTCC 1 cut(s) 910
Lsp1109I GCAGC 9 cut(s) 241, 244, 331, 334, 692, 782, 959, 1219, 1430
LweI GCATC 5 cut(s) 331, 597, 692, 816, 831
MaeI CTAG 3 cut(s) 351, 383, 1410
MaeIII GTNAC 1 cut(s) 1041
MalI GATC 5 cut(s) 312, 560, 596, 980, 1449
MbiI CCGCTC 1 cut(s) 475
MboI GATC 5 cut(s) 310, 558, 594, 978, 1447
MfeI CAATTG 1 cut(s) 636
MhlI GDGCHC 1 cut(s) 915
Mly113I GGCGCC 1 cut(s) 447
MlyI GAGTC 2 cut(s) 874, 1049
MmeI TCCRAC 1 cut(s) 978
Mph1103I ATGCAT 1 cut(s) 461
MroXI GAANNNNTTC 1 cut(s) 873
MseI TTAA 6 cut(s) 9, 362, 425, 435, 740, 797
MslI CAYNNNNRTG 2 cut(s) 464, 605
MspA1I CMGCKG 1 cut(s) 1421
MspI CCGG 1 cut(s) 185
MspR9I CCNGG 1 cut(s) 696
MunI CAATTG 1 cut(s) 636
Mva1269I GAATGC 1 cut(s) 1276
MvaI CCWGG 1 cut(s) 696
MwoI GCNNNNNNNGC 8 cut(s) 241, 250, 446, 677, 826, 1078, 1213, 1415
NarI GGCGCC 1 cut(s) 447
NdeI CATATG 2 cut(s) 442, 967
NdeII GATC 5 cut(s) 310, 558, 594, 978, 1447
NlaIII CATG 9 cut(s) 19, 143, 380, 392, 505, 556, 694, 979, 1176
NlaIV GGNNCC 3 cut(s) 448, 1272, 1371
NmuCI GTSAC 1 cut(s) 1041
NsiI ATGCAT 1 cut(s) 461
NspI RCATGY 2 cut(s) 556, 694
PciI ACATGT 1 cut(s) 552
PctI GAATGC 1 cut(s) 1276
PdmI GAANNNNTTC 1 cut(s) 873
PfeI GAWTC 2 cut(s) 1124, 1155
PflMI CCANNNNNTGG 1 cut(s) 1173
PleI GAGTC 2 cut(s) 874, 1048
PluTI GGCGCC 1 cut(s) 450
PpsI GAGTC 2 cut(s) 874, 1048
PpuMI RGGWCCY 1 cut(s) 1370
PscI ACATGT 1 cut(s) 552
Psp124BI GAGCTC 1 cut(s) 915
Psp5II RGGWCCY 1 cut(s) 1370
Psp6I CCWGG 1 cut(s) 694
PspFI CCCAGC 1 cut(s) 1266
PspGI CCWGG 1 cut(s) 694
PspN4I GGNNCC 3 cut(s) 448, 1272, 1371
PspPI GGNCC 1 cut(s) 1370
PspPPI RGGWCCY 1 cut(s) 1370
PstNI CAGNNNCTG 1 cut(s) 686
PvuII CAGCTG 1 cut(s) 1421
RsaI GTAC 3 cut(s) 647, 895, 963
RsaNI GTAC 3 cut(s) 646, 894, 962
RseI CAYNNNNRTG 2 cut(s) 464, 605
SacI GAGCTC 1 cut(s) 915
SalI GTCGAC 1 cut(s) 746
SaqAI TTAA 6 cut(s) 9, 362, 425, 435, 740, 797
Sau3AI GATC 5 cut(s) 310, 558, 594, 978, 1447
Sau96I GGNCC 1 cut(s) 1370
ScaI AGTACT 1 cut(s) 895
SchI GAGTC 2 cut(s) 874, 1049
ScrFI CCNGG 1 cut(s) 696
SduI GDGCHC 1 cut(s) 915
SfaNI GCATC 5 cut(s) 331, 597, 692, 816, 831
SfcI CTRYAG 1 cut(s) 916
SfoI GGCGCC 1 cut(s) 448
SinI GGWCC 1 cut(s) 1370
SmiMI CAYNNNNRTG 2 cut(s) 464, 605
SmlI CTYRAG 1 cut(s) 287
SmoI CTYRAG 1 cut(s) 287
SsiI CCGC 5 cut(s) 82, 145, 475, 491, 1274
SspDI GGCGCC 1 cut(s) 446
SspMI CTAG 3 cut(s) 351, 383, 1410
SstI GAGCTC 1 cut(s) 915
StyD4I CCNGG 1 cut(s) 694
TaqI TCGA 5 cut(s) 52, 128, 661, 747, 944
TatI WGTACW 2 cut(s) 645, 893
TauI GCSGC 1 cut(s) 1276
TfiI GAWTC 2 cut(s) 1124, 1155
Tru1I TTAA 6 cut(s) 9, 362, 425, 435, 740, 797
Tru9I TTAA 6 cut(s) 9, 362, 425, 435, 740, 797
TscAI CASTG 2 cut(s) 211, 960
TseFI GTSAC 1 cut(s) 1041
TseI GCWGC 9 cut(s) 229, 232, 344, 347, 680, 770, 972, 1207, 1418
Tsp45I GTSAC 1 cut(s) 1041
TspDTI ATGAA 6 cut(s) 17, 365, 527, 963, 1469, 1494
TspGWI ACGGA 2 cut(s) 323, 1160
TspRI CASTG 2 cut(s) 211, 960
Van91I CCANNNNNTGG 1 cut(s) 1173
VpaK11BI GGWCC 1 cut(s) 1370
XagI CCTNNNNNAGG 1 cut(s) 849
XapI RAATTY 3 cut(s) 130, 630, 869
XceI RCATGY 2 cut(s) 556, 694
XcmI CCANNNNNNNNNTGG 1 cut(s) 374
XmiI GTMKAC 1 cut(s) 747
XmnI GAANNNNTTC 1 cut(s) 873
XspI CTAG 3 cut(s) 351, 383, 1410
ZrmI AGTACT 1 cut(s) 895
Zsp2I ATGCAT 1 cut(s) 461
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.