MD12G1196700.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr12
OG0009745
Physical Location & Seq
Forward (+)
27785945 .. 27786472
528 bp
Loading structure...
UTR
Exon/CDS
Intron
MD12G1196700.v1.1.491

Sequence Viewer

Length: 528 bp
ATGCGGAGCGATGGCCTCACCAACAATGCAGTCAAGATGTTCGACGCATTGTCCAAAGACGGATTGACCCACGAGGCGTTGGAGCTCTTTGCTCAGATCAAGGACAAGGGTCAAATGCCCGACGTAGTTTCGCACACCGCCGTCATTGAAGCCTACGCCAATGCCGGAAAGACGAAGGAGGCTCTCAAGGTATACATGCGGATGTTGGCCTCTGGGGTGGCCCCGAACGCCTACACTTACAGTGTGATGATCAAGGCGCTGGCGGCTGACCTCAGTGGCAATTTTCTTGGGGATGCCAAGAAATACTTGCTGGATATGGTGGGCAAGGGAAAGCGGCCTAATGCCGGTACTTACACAGCAGTGTTTGAGGGGTTTGCAAGGCTGGAGAAGGCGGAGGAGGGGAGGGAGCTACTGGAGGAGATGAAAGGGAAGGGGTTCATGCCAGAGGAGACGGCAGTGAAGGAGGTTCTCAAGAGCAAGAGAGGACCTGTAGTTAGAACCGTCATCAACATTCTATTTGGTAAGTAG
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 PPR_2 Ribosomal_L15e

Protein Analysis

176

Amino Acids

19.08

Weight (kDa)

9.13

Isoelectric Point (pI)

28.76

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 13 - 54 1.2e-06 PPR repeat family
PPR_long PF17177 18 - 158 7.9e-09 Pentacotripeptide-repeat region of PRORP
TPR_24 PF23276 19 - 133 5.6e-09 Fungal tetratrico peptide repeats
PPR_3 PF13812 29 - 87 5.7e-12 Pentatricopeptide repeat domain
PPR_2 PF13041 40 - 88 1.9e-15 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)
AccI GTMKAC 1 cut(s) 192
AciI CCGC 6 cut(s) 4, 138, 199, 263, 334, 392
AfaI GTAC 1 cut(s) 349
AfiI CCNNNNNNNGG 1 cut(s) 344
AgsI TTSAA 1 cut(s) 149
AhdI GACNNNNNGTC 1 cut(s) 49
AleI CACNNNNGTG 1 cut(s) 359
AluBI AGCT 2 cut(s) 85, 409
AluI AGCT 2 cut(s) 85, 409
Alw21I GWGCWC 1 cut(s) 87
Alw26I GTCTC 1 cut(s) 443
AoxI GGCC 4 cut(s) 13, 207, 219, 335
Asp700I GAANNNNTTC 1 cut(s) 434
AspLEI GCGC 1 cut(s) 259
AspS9I GGNCC 2 cut(s) 220, 485
AsuHPI GGTGA 1 cut(s) 10
AvaII GGWCC 1 cut(s) 485
BanII GRGCYC 1 cut(s) 87
BauI CACGAG 1 cut(s) 71
Bbv12I GWGCWC 1 cut(s) 87
BccI CCATC 1 cut(s) 5
BceAI ACGGC 2 cut(s) 125, 468
BclI TGATCA 1 cut(s) 249
BcoDI GTCTC 1 cut(s) 443
BfmI CTRYAG 1 cut(s) 489
BfoI RGCGCY 1 cut(s) 260
BisI GCNGC 2 cut(s) 264, 335
BlsI GCNGC 2 cut(s) 265, 336
Bme18I GGWCC 1 cut(s) 485
BmeRI GACNNNNNGTC 1 cut(s) 49
BmgT120I GGNCC 2 cut(s) 220, 485
BmiI GGNNCC 1 cut(s) 222
BmsI GCATC 1 cut(s) 283
BoxI GACNNNNGTC 1 cut(s) 108
BpmI CTGGAG 2 cut(s) 404, 434
BpuEI CTTGAG 2 cut(s) 170, 455
Bsc4I CCNNNNNNNGG 1 cut(s) 344
Bse118I RCCGGY 1 cut(s) 344
Bse1I ACTGG 1 cut(s) 417
BseGI GGATG 2 cut(s) 207, 298
BseLI CCNNNNNNNGG 1 cut(s) 344
BseMII CTCAG 2 cut(s) 107, 286
BseNI ACTGG 1 cut(s) 417
BseRI GAGGAG 3 cut(s) 410, 431, 461
BshFI GGCC 4 cut(s) 15, 209, 221, 337
BsiHKAI GWGCWC 1 cut(s) 87
BsiSI CCGG 2 cut(s) 165, 345
BslI CCNNNNNNNGG 1 cut(s) 344
BsmAI GTCTC 1 cut(s) 443
BsmBI CGTCTC 1 cut(s) 443
BsnI GGCC 4 cut(s) 15, 209, 221, 337
Bsp1286I GDGCHC 1 cut(s) 87
Bsp143I GATC 2 cut(s) 96, 249
BspACI CCGC 6 cut(s) 4, 138, 199, 263, 334, 392
BspANI GGCC 4 cut(s) 15, 209, 221, 337
BspCNI CTCAG 2 cut(s) 106, 285
BspLI GGNNCC 1 cut(s) 222
BsrFI RCCGGY 1 cut(s) 344
BsrI ACTGG 1 cut(s) 417
BssAI RCCGGY 1 cut(s) 344
BssMI GATC 2 cut(s) 96, 249
BssNAI GTATAC 1 cut(s) 193
BssSI CACGAG 1 cut(s) 71
Bst1107I GTATAC 1 cut(s) 193
Bst2BI CACGAG 1 cut(s) 71
Bst4CI ACNGT 2 cut(s) 242, 502
BstC8I GCNNGC 1 cut(s) 261
BstDEI CTNAG 2 cut(s) 93, 272
BstF5I GGATG 2 cut(s) 207, 298
BstH2I RGCGCY 1 cut(s) 260
BstHHI GCGC 1 cut(s) 259
BstKTI GATC 2 cut(s) 99, 252
BstMAI GTCTC 1 cut(s) 443
BstMBI GATC 2 cut(s) 96, 249
BstMWI GCNNNNNNNGC 2 cut(s) 227, 263
BstNSI RCATGY 1 cut(s) 199
BstPAI GACNNNNGTC 1 cut(s) 108
BstSFI CTRYAG 1 cut(s) 489
BstZ17I GTATAC 1 cut(s) 193
BsuRI GGCC 4 cut(s) 15, 209, 221, 337
BtgZI GCGATG 1 cut(s) 24
BtsCI GGATG 2 cut(s) 207, 298
BtsI GCAGTG 2 cut(s) 366, 462
BtsIMutI CAGTG 4 cut(s) 247, 280, 366, 462
Cac8I GCNNGC 1 cut(s) 261
CfoI GCGC 1 cut(s) 259
Cfr10I RCCGGY 1 cut(s) 344
Cfr13I GGNCC 2 cut(s) 220, 485
CseI GACGC 1 cut(s) 53
Csp6I GTAC 1 cut(s) 348
CviAII CATG 2 cut(s) 196, 439
CviQI GTAC 1 cut(s) 348
DdeI CTNAG 2 cut(s) 93, 272
DpnI GATC 2 cut(s) 98, 251
DpnII GATC 2 cut(s) 96, 249
DriI GACNNNNNGTC 1 cut(s) 49
Eam1105I GACNNNNNGTC 1 cut(s) 49
EciI GGCGGA 1 cut(s) 407
Ecl136II GAGCTC 1 cut(s) 85
Eco24I GRGCYC 1 cut(s) 87
Eco47I GGWCC 1 cut(s) 485
Eco53kI GAGCTC 1 cut(s) 85
EcoICRI GAGCTC 1 cut(s) 85
EcoO109I RGGNCCY 1 cut(s) 485
EcoT38I GRGCYC 1 cut(s) 87
Esp3I CGTCTC 1 cut(s) 443
FaeI CATG 2 cut(s) 199, 442
FaiI YATR 4 cut(s) 193, 197, 317, 440
FalI AAGNNNNNCTT 2 cut(s) 290, 322
FatI CATG 2 cut(s) 195, 438
FbaI TGATCA 1 cut(s) 249
FblI GTMKAC 1 cut(s) 192
Fnu4HI GCNGC 2 cut(s) 264, 335
FokI GGATG 2 cut(s) 214, 305
FriOI GRGCYC 1 cut(s) 87
Fsp4HI GCNGC 2 cut(s) 264, 335
GlaI GCGC 1 cut(s) 258
GluI GCNGC 2 cut(s) 264, 335
GsuI CTGGAG 2 cut(s) 404, 434
HaeII RGCGCY 1 cut(s) 260
HaeIII GGCC 4 cut(s) 15, 209, 221, 337
HapII CCGG 2 cut(s) 165, 345
HgaI GACGC 1 cut(s) 53
HhaI GCGC 1 cut(s) 259
Hin1II CATG 2 cut(s) 199, 442
Hin6I GCGC 1 cut(s) 257
HinP1I GCGC 1 cut(s) 257
HpaII CCGG 2 cut(s) 165, 345
HphI GGTGA 1 cut(s) 10
Hpy166II GTNNAC 1 cut(s) 193
Hpy188I TCNGA 1 cut(s) 96
Hpy188III TCNNGA 2 cut(s) 34, 472
Hpy8I GTNNAC 1 cut(s) 193
Hpy99I CGWCG 2 cut(s) 47, 125
HpyAV CCTTC 4 cut(s) 169, 382, 424, 454
HpyCH4III ACNGT 2 cut(s) 242, 502
HpyCH4IV ACGT 1 cut(s) 123
HpyCH4V TGCA 2 cut(s) 29, 377
HpyF10VI GCNNNNNNNGC 2 cut(s) 227, 263
HpyF3I CTNAG 2 cut(s) 93, 272
HpySE526I ACGT 1 cut(s) 123
Hsp92II CATG 2 cut(s) 199, 442
HspAI GCGC 1 cut(s) 257
Ksp22I TGATCA 1 cut(s) 249
Kzo9I GATC 2 cut(s) 96, 249
LmnI GCTCC 3 cut(s) 6, 82, 406
LpnPI CCDG 9 cut(s) 178, 198, 245, 296, 358, 368, 398, 456, 501
LweI GCATC 1 cut(s) 283
MaeII ACGT 1 cut(s) 123
MalI GATC 2 cut(s) 98, 251
MboI GATC 2 cut(s) 96, 249
MhlI GDGCHC 1 cut(s) 87
MluCI AATT 1 cut(s) 280
MmeI TCCRAC 1 cut(s) 60
MroXI GAANNNNTTC 1 cut(s) 434
MslI CAYNNNNRTG 2 cut(s) 200, 359
MspI CCGG 2 cut(s) 165, 345
MwoI GCNNNNNNNGC 2 cut(s) 227, 263
NdeII GATC 2 cut(s) 96, 249
NlaIII CATG 2 cut(s) 199, 442
NlaIV GGNNCC 1 cut(s) 222
NspI RCATGY 1 cut(s) 199
OliI CACNNNNGTG 1 cut(s) 359
PdmI GAANNNNTTC 1 cut(s) 434
PkrI GCNGC 2 cut(s) 265, 336
PpuMI RGGWCCY 1 cut(s) 485
PshAI GACNNNNGTC 1 cut(s) 108
Psp124BI GAGCTC 1 cut(s) 87
Psp5II RGGWCCY 1 cut(s) 485
PspN4I GGNNCC 1 cut(s) 222
PspPI GGNCC 2 cut(s) 220, 485
PspPPI RGGWCCY 1 cut(s) 485
RsaI GTAC 1 cut(s) 349
RsaNI GTAC 1 cut(s) 348
RseI CAYNNNNRTG 2 cut(s) 200, 359
SacI GAGCTC 1 cut(s) 87
SatI GCNGC 2 cut(s) 264, 335
Sau3AI GATC 2 cut(s) 96, 249
Sau96I GGNCC 2 cut(s) 220, 485
SduI GDGCHC 1 cut(s) 87
SetI ASST 7 cut(s) 87, 126, 192, 273, 411, 468, 490
SfaNI GCATC 1 cut(s) 283
SfcI CTRYAG 1 cut(s) 489
SinI GGWCC 1 cut(s) 485
SmiMI CAYNNNNRTG 2 cut(s) 200, 359
SmlI CTYRAG 2 cut(s) 185, 470
SmoI CTYRAG 2 cut(s) 185, 470
Sse9I AATT 1 cut(s) 280
SsiI CCGC 6 cut(s) 4, 138, 199, 263, 334, 392
SstI GAGCTC 1 cut(s) 87
TaaI ACNGT 2 cut(s) 242, 502
TaiI ACGT 1 cut(s) 126
TaqI TCGA 1 cut(s) 42
TasI AATT 1 cut(s) 280
TauI GCSGC 2 cut(s) 266, 337
TscAI CASTG 4 cut(s) 247, 280, 366, 462
TspDTI ATGAA 2 cut(s) 427, 437
TspGWI ACGGA 1 cut(s) 75
TspRI CASTG 4 cut(s) 247, 280, 366, 462
VpaK11BI GGWCC 1 cut(s) 485
XceI RCATGY 1 cut(s) 199
XmiI GTMKAC 1 cut(s) 192
XmnI GAANNNNTTC 1 cut(s) 434
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.