MD16G1250400.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0008661
Physical Location & Seq
Forward (+)
28045081 .. 28046069
989 bp
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UTR
Exon/CDS
Intron
MD16G1250400.v1.1.491

Sequence Viewer

Length: 867 bp
ATGGTGGATAAAGGCATAAGATCAGATACAATTAGCCATACTATTACGATATGTGGGTTTTCCAAGCTAGGAGATGTAGAAAAGGCGCTTGGTTTTGTGATAAAGATGAGGAAAGGTGGATTAGAACCCAATTTGATTACGTATACTGCCATCATGTCGGGGTTCTGCAAGAAAGGAAAAATGGAGGAGGCATTTGCTATTTTCAAGATGGTTGAAGATTTGGGAATTGAAGTTGATGAGTTTATATATGCAACTTTAATTCACGGGTCTTGCATTATAGGGGATCTCGATGGTGTTTTTGATTTGCTACATGAAATGGTGAAAAGGGGGATTAATCCAAGCATTGTCACATACAATACTGTAATGAATGGATTATGCAAATCTGGGAGGACATCCGAGGCCAATGAGATCTCAAAGGGTATACTTGGAGATACAATAACATATTGTACATTGCTACATGGATATATTGAGGAAGAAAATATCACTGGGATTCTGGAAACGAAGATGAGATTGGAGGAAGCTGGAGTCTACATAGATGTTGTTATGTGTAACATACTTAATAAAGCACTGTTCATGGTGGGGGCATTTGAGGATGCTGGTATCTATAAAATTCTGTTGAAAGCAATTTTTGAAGAAAAAAGTTCAGCTGGAGTTTTAAATTTGGTTCGACGAATTGATAAAATGGAGATAGAAGTGTATGATATTATAAGCAATGATGCTATCAGTTTCTTGTGCAAGAGAGGTTTTCCTGAGTCTGCATGTGAAGTGTATTTGGTGATGAGGAGGAAAGGGTCAATTACCACAAGAAAAACTTACCATACAATTTTAAAAGGTCTAATTGGTGATGGGAAAGATTCACTAACTTAG

Protein Analysis

289

Amino Acids

31.89

Weight (kDa)

5.67

Isoelectric Point (pI)

42.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 1 - 55 1.1e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 9 - 57 5.1e-11 PPR repeat family
PPR_long PF17177 17 - 105 1.3e-08 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 40 - 69 1e-10 PPR repeat
PPR_2 PF13041 44 - 91 1.2e-10 PPR repeat family
PPR PF01535 46 - 76 8.8e-08 PPR repeat
PPR_long PF17177 62 - 139 8.5e-06 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 67 - 123 7.3e-10 Pentatricopeptide repeat domain
PPR_2 PF13041 79 - 127 2.4e-14 PPR repeat family
PPR_1 PF12854 109 - 135 1e-08 PPR repeat
PPR_2 PF13041 113 - 155 4.2e-08 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 1 cut(s) 707
AccI GTMKAC 3 cut(s) 143, 421, 528
AclWI GGATC 1 cut(s) 291
AcsI RAATTY 2 cut(s) 609, 658
AfaI GTAC 1 cut(s) 448
AgsI TTSAA 5 cut(s) 205, 215, 230, 619, 632
AjuI GAANNNNNNNTTGG 4 cut(s) 72, 104, 494, 526
AluBI AGCT 3 cut(s) 67, 521, 647
AluI AGCT 3 cut(s) 67, 521, 647
AlwI GGATC 1 cut(s) 291
AoxI GGCC 1 cut(s) 399
ApoI RAATTY 2 cut(s) 609, 658
AseI ATTAAT 1 cut(s) 333
AspLEI GCGC 1 cut(s) 88
AsuHPI GGTGA 3 cut(s) 331, 787, 854
BccI CCATC 4 cut(s) 158, 202, 284, 839
BfaI CTAG 1 cut(s) 68
BfoI RGCGCY 1 cut(s) 89
BglII AGATCT 1 cut(s) 408
BmrI ACTGGG 1 cut(s) 495
BmsI GCATC 2 cut(s) 583, 706
BmuI ACTGGG 1 cut(s) 495
BpmI CTGGAG 2 cut(s) 543, 669
BsaAI YACGTR 1 cut(s) 141
BsaJI CCNNGG 1 cut(s) 396
Bse1I ACTGG 1 cut(s) 490
Bse3DI GCAATG 2 cut(s) 449, 718
BseDI CCNNGG 1 cut(s) 396
BseGI GGATG 2 cut(s) 392, 598
BseMI GCAATG 2 cut(s) 449, 718
BseMII CTCAG 1 cut(s) 741
BseNI ACTGG 1 cut(s) 490
BseRI GAGGAG 2 cut(s) 200, 796
BshFI GGCC 1 cut(s) 401
BsnI GGCC 1 cut(s) 401
Bsp1407I TGTACA 1 cut(s) 446
Bsp143I GATC 3 cut(s) 20, 283, 408
BspANI GGCC 1 cut(s) 401
BspCNI CTCAG 1 cut(s) 742
BspPI GGATC 1 cut(s) 291
BsrDI GCAATG 2 cut(s) 449, 718
BsrGI TGTACA 1 cut(s) 446
BsrI ACTGG 1 cut(s) 490
BssECI CCNNGG 1 cut(s) 396
BssMI GATC 3 cut(s) 20, 283, 408
BssNAI GTATAC 2 cut(s) 144, 422
Bst1107I GTATAC 2 cut(s) 144, 422
Bst4CI ACNGT 2 cut(s) 361, 570
BstAUI TGTACA 1 cut(s) 446
BstBAI YACGTR 1 cut(s) 141
BstDEI CTNAG 2 cut(s) 750, 864
BstF5I GGATG 2 cut(s) 392, 598
BstH2I RGCGCY 1 cut(s) 89
BstHHI GCGC 1 cut(s) 88
BstKTI GATC 3 cut(s) 23, 286, 411
BstMBI GATC 3 cut(s) 20, 283, 408
BstNSI RCATGY 1 cut(s) 762
BstSNI TACGTA 1 cut(s) 141
BstX2I RGATCY 2 cut(s) 283, 408
BstYI RGATCY 2 cut(s) 283, 408
BstZ17I GTATAC 2 cut(s) 144, 422
BsuRI GGCC 1 cut(s) 401
BtsCI GGATG 2 cut(s) 392, 598
BtsIMutI CAGTG 2 cut(s) 483, 566
CfoI GCGC 1 cut(s) 88
Csp6I GTAC 1 cut(s) 447
CviAII CATG 5 cut(s) 154, 311, 458, 574, 759
CviJI RGCY 5 cut(s) 36, 67, 401, 521, 647
CviKI_1 RGCY 5 cut(s) 36, 67, 401, 521, 647
CviQI GTAC 1 cut(s) 447
DdeI CTNAG 2 cut(s) 750, 864
DpnI GATC 3 cut(s) 22, 285, 410
DpnII GATC 3 cut(s) 20, 283, 408
DraI TTTAAA 2 cut(s) 657, 828
Eco105I TACGTA 1 cut(s) 141
FaeI CATG 5 cut(s) 157, 314, 461, 577, 762
FalI AAGNNNNNCTT 2 cut(s) 796, 828
FatI CATG 5 cut(s) 153, 310, 457, 573, 758
FblI GTMKAC 3 cut(s) 143, 421, 528
FokI GGATG 2 cut(s) 379, 605
FspBI CTAG 1 cut(s) 68
GlaI GCGC 1 cut(s) 87
GsuI CTGGAG 2 cut(s) 543, 669
HaeII RGCGCY 1 cut(s) 89
HaeIII GGCC 1 cut(s) 401
HhaI GCGC 1 cut(s) 88
Hin1II CATG 5 cut(s) 157, 314, 461, 577, 762
Hin6I GCGC 1 cut(s) 86
HinP1I GCGC 1 cut(s) 86
HinfI GANTC 4 cut(s) 490, 525, 752, 854
HphI GGTGA 3 cut(s) 331, 787, 854
Hpy166II GTNNAC 3 cut(s) 144, 422, 529
Hpy188I TCNGA 2 cut(s) 25, 397
Hpy188III TCNNGA 4 cut(s) 205, 287, 494, 749
Hpy8I GTNNAC 3 cut(s) 144, 422, 529
Hpy99I CGWCG 1 cut(s) 672
HpyCH4III ACNGT 2 cut(s) 361, 570
HpyCH4IV ACGT 1 cut(s) 140
HpyCH4V TGCA 6 cut(s) 168, 251, 273, 378, 735, 758
HpyF3I CTNAG 2 cut(s) 750, 864
HpySE526I ACGT 1 cut(s) 140
Hsp92II CATG 5 cut(s) 157, 314, 461, 577, 762
HspAI GCGC 1 cut(s) 86
Kzo9I GATC 3 cut(s) 20, 283, 408
LpnPI CCDG 7 cut(s) 369, 471, 479, 507, 582, 633, 762
LweI GCATC 2 cut(s) 583, 706
MaeI CTAG 1 cut(s) 68
MaeII ACGT 1 cut(s) 140
MaeIII GTNAC 2 cut(s) 346, 548
MalI GATC 3 cut(s) 22, 285, 410
MboI GATC 3 cut(s) 20, 283, 408
MboII GAAGA 4 cut(s) 227, 485, 514, 644
MflI RGATCY 2 cut(s) 283, 408
MlyI GAGTC 2 cut(s) 534, 761
MseI TTAA 5 cut(s) 257, 333, 558, 656, 827
MspA1I CMGCKG 1 cut(s) 647
NdeII GATC 3 cut(s) 20, 283, 408
NlaIII CATG 5 cut(s) 157, 314, 461, 577, 762
NmuCI GTSAC 1 cut(s) 346
NspI RCATGY 1 cut(s) 762
PfeI GAWTC 2 cut(s) 490, 854
PleI GAGTC 2 cut(s) 533, 760
PpsI GAGTC 2 cut(s) 533, 760
Ppu21I YACGTR 1 cut(s) 141
PshBI ATTAAT 1 cut(s) 333
PsiI TTATAA 1 cut(s) 707
PsuI RGATCY 2 cut(s) 283, 408
PvuII CAGCTG 1 cut(s) 647
RsaI GTAC 1 cut(s) 448
RsaNI GTAC 1 cut(s) 447
SaqAI TTAA 5 cut(s) 257, 333, 558, 656, 827
Sau3AI GATC 3 cut(s) 20, 283, 408
SchI GAGTC 2 cut(s) 534, 761
SetI ASST 7 cut(s) 69, 118, 143, 523, 649, 745, 835
SfaNI GCATC 2 cut(s) 583, 706
SnaBI TACGTA 1 cut(s) 141
SspMI CTAG 1 cut(s) 68
TaaI ACNGT 2 cut(s) 361, 570
TaiI ACGT 1 cut(s) 143
TaqI TCGA 2 cut(s) 288, 667
TatI WGTACW 1 cut(s) 446
TfiI GAWTC 2 cut(s) 490, 854
Tru1I TTAA 5 cut(s) 257, 333, 558, 656, 827
Tru9I TTAA 5 cut(s) 257, 333, 558, 656, 827
TscAI CASTG 2 cut(s) 490, 573
TseFI GTSAC 1 cut(s) 346
Tsp45I GTSAC 1 cut(s) 346
TspDTI ATGAA 3 cut(s) 327, 380, 562
TspRI CASTG 2 cut(s) 490, 573
VspI ATTAAT 1 cut(s) 333
XapI RAATTY 2 cut(s) 609, 658
XceI RCATGY 1 cut(s) 762
XmiI GTMKAC 3 cut(s) 143, 421, 528
XspI CTAG 1 cut(s) 68
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.