MD16G1063600.v1.1

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr16
OG0016835
Physical Location & Seq
Reverse (-)
4517276 .. 4518194
919 bp
Loading structure...
UTR
Exon/CDS
Intron
MD16G1063600.v1.1.491

Sequence Viewer

Length: 708 bp
ATGTTAAAAGCTTCACTGCTCAGAAACGAACTCATCCTGACCGTCGGTGTATTTACCGAGATGTTGCAGAATGGGATGTGCCCAGGTAATTATACCCTCCCTTATTTGCTAAAGGCTTGTGCGAGGATGCAAAGGTGTCGTCTTGGGGAATTGGTTCATGGGTTCTGTTTGAAATTGGGTTTTGTTTCTGATATCTTTGTGGGTAACTCTCTGATTGTTATGTACTGTGCGTTTGATGACGTGAAGAGAGCACTGTACGTGTTCGATGAAATGCCTAGCCTAAGTGCAGTTTCAAGGATGGTCATGATTTCTGGGTTTGCAAAGGTGGGCAATCTTGACATGGCGAGATTGCTCTTTGATGAAGCTCCGGATACAGAACCCGATGAGGCGATTTTTGTTAGTGTTTTATGTGCTTGTGCTCATTTGGGAGCTCTGGATATTGGGATTTGGATTCACTCGTATTTGAATCGGCTTCGGTTGCGGTTGAGTGTTCGATTGACCACTGGTCTGATTGACATGTATGCCAAATGTAGGAGATTGGAGTTAGCTAGAGGATTGCTTGCTGAAATGCTGCAAAGAGACACGGATATACACGTTGAGCCAAAAAGCAAACACTACGGATGTATCGTTGACCTTCTAAGCCGTGCCGGGTTCTTCGAAGAAGCAAAGGAGATAATTCAAAGTATACCCAGTTGCCAGTTCAAGTAA
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

Protein Analysis

236

Amino Acids

26.43

Weight (kDa)

6.93

Isoelectric Point (pI)

36.28

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this protein.
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: OG0016835)

Species Orthologous Gene IDs
fragaria_vesca FvH4_4g30430
malus_domestica MD16G1063600.v1.1
prunus_persica Prupe.1G282900_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0438721
rosa_laevigata RLG00000006334
rosa_multiflora Rmu_sc0000144.1_g000047 Rmu_sc0002505.1_g000006
rosa_roxburghii Rroxscaffold_5G00379760
rosa_rugosa Rorug04G0312800
rosa_samantha Rh4AG363400 Rh4BG374800 Rh4CG389000
rosa_wichuraiana Rw0G007190 Rw0G016740

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 685
AccIII TCCGGA 1 cut(s) 367
AciI CCGC 1 cut(s) 481
AfaI GTAC 2 cut(s) 224, 257
AfiI CCNNNNNNNGG 1 cut(s) 531
AflIII ACRYGT 3 cut(s) 258, 516, 592
AgsI TTSAA 5 cut(s) 172, 294, 466, 680, 703
AhdI GACNNNNNGTC 1 cut(s) 504
AjiI CACGTC 1 cut(s) 241
AjnI CCWGG 1 cut(s) 82
AluBI AGCT 4 cut(s) 11, 365, 431, 548
AluI AGCT 4 cut(s) 11, 365, 431, 548
Alw21I GWGCWC 3 cut(s) 253, 421, 433
Alw26I GTCTC 1 cut(s) 573
Aor13HI TCCGGA 1 cut(s) 367
ApeKI GCWGC 1 cut(s) 571
ArsI GACNNNNNNTTYG 2 cut(s) 124, 156
Asp700I GAANNNNTTC 1 cut(s) 153
AsuC2I CCSGG 1 cut(s) 649
AsuII TTCGAA 1 cut(s) 657
BaeGI GKGCMC 1 cut(s) 83
BaeI ACNNNNGTAYC 2 cut(s) 607, 640
BanII GRGCYC 1 cut(s) 433
Bbv12I GWGCWC 3 cut(s) 253, 421, 433
BbvI GCAGC 1 cut(s) 558
BccI CCATC 1 cut(s) 292
BceAI ACGGC 1 cut(s) 627
BcgI CGANNNNNNTGC 2 cut(s) 119, 153
BciT130I CCWGG 1 cut(s) 84
BciVI GTATCC 1 cut(s) 364
BcnI CCSGG 1 cut(s) 649
BcoDI GTCTC 1 cut(s) 573
BfaI CTAG 2 cut(s) 276, 549
BfuI GTATCC 1 cut(s) 364
BisI GCNGC 1 cut(s) 572
BlsI GCNGC 1 cut(s) 573
Bme1390I CCNGG 2 cut(s) 84, 649
BmeRI GACNNNNNGTC 1 cut(s) 504
BmgBI CACGTC 1 cut(s) 241
BmrFI CCNGG 2 cut(s) 84, 649
BmrI ACTGGG 1 cut(s) 684
BmsI GCATC 1 cut(s) 117
BmuI ACTGGG 1 cut(s) 684
Bpu14I TTCGAA 1 cut(s) 657
BpuMI CCSGG 1 cut(s) 649
BsaAI YACGTR 1 cut(s) 259
BsaJI CCNNGG 1 cut(s) 82
BsaWI WCCGGW 1 cut(s) 367
Bsc4I CCNNNNNNNGG 1 cut(s) 531
Bse1I ACTGG 3 cut(s) 508, 690, 697
BseAI TCCGGA 1 cut(s) 367
BseBI CCWGG 1 cut(s) 84
BseDI CCNNGG 1 cut(s) 82
BseGI GGATG 5 cut(s) 33, 81, 132, 303, 626
BseLI CCNNNNNNNGG 1 cut(s) 531
BseMII CTCAG 1 cut(s) 34
BseNI ACTGG 3 cut(s) 508, 690, 697
BseSI GKGCMC 1 cut(s) 83
BseXI GCAGC 1 cut(s) 558
BsgI GTGCAG 1 cut(s) 306
BsiHKAI GWGCWC 3 cut(s) 253, 421, 433
BsiSI CCGG 2 cut(s) 368, 648
BslI CCNNNNNNNGG 1 cut(s) 531
BsmAI GTCTC 1 cut(s) 573
Bsp119I TTCGAA 1 cut(s) 657
Bsp1286I GDGCHC 4 cut(s) 83, 253, 421, 433
Bsp13I TCCGGA 1 cut(s) 367
BspACI CCGC 1 cut(s) 481
BspCNI CTCAG 1 cut(s) 33
BspEI TCCGGA 1 cut(s) 367
BspHI TCATGA 1 cut(s) 303
BspT104I TTCGAA 1 cut(s) 657
BsrI ACTGG 3 cut(s) 508, 690, 697
BssECI CCNNGG 1 cut(s) 82
BssNAI GTATAC 1 cut(s) 686
Bst1107I GTATAC 1 cut(s) 686
Bst2UI CCWGG 1 cut(s) 84
Bst4CI ACNGT 3 cut(s) 43, 227, 255
Bst6I CTCTTC 1 cut(s) 239
BstBAI YACGTR 1 cut(s) 259
BstBI TTCGAA 1 cut(s) 657
BstC8I GCNNGC 1 cut(s) 561
BstDEI CTNAG 3 cut(s) 20, 281, 638
BstF5I GGATG 5 cut(s) 33, 81, 132, 303, 626
BstMAI GTCTC 1 cut(s) 573
BstMWI GCNNNNNNNGC 1 cut(s) 478
BstNI CCWGG 1 cut(s) 84
BstNSI RCATGY 1 cut(s) 520
BstSCI CCNGG 2 cut(s) 82, 647
BstSLI GKGCMC 1 cut(s) 83
BstV1I GCAGC 1 cut(s) 558
BstZ17I GTATAC 1 cut(s) 686
BsuI GTATCC 1 cut(s) 364
BtrI CACGTC 1 cut(s) 241
BtsCI GGATG 5 cut(s) 33, 81, 132, 303, 626
BtsI GCAGTG 1 cut(s) 14
BtsIMutI CAGTG 3 cut(s) 14, 251, 501
Cac8I GCNNGC 1 cut(s) 561
CciI TCATGA 1 cut(s) 303
Csp6I GTAC 2 cut(s) 223, 256
CviAII CATG 4 cut(s) 158, 304, 340, 517
CviJI RGCY 9 cut(s) 11, 116, 279, 365, 431, 472, 548, 601, 642
CviKI_1 RGCY 9 cut(s) 11, 116, 279, 365, 431, 472, 548, 601, 642
CviQI GTAC 2 cut(s) 223, 256
DdeI CTNAG 3 cut(s) 20, 281, 638
DriI GACNNNNNGTC 1 cut(s) 504
Eam1104I CTCTTC 1 cut(s) 239
Eam1105I GACNNNNNGTC 1 cut(s) 504
EarI CTCTTC 1 cut(s) 239
Ecl136II GAGCTC 1 cut(s) 431
Eco24I GRGCYC 1 cut(s) 433
Eco32I GATATC 1 cut(s) 193
Eco53kI GAGCTC 1 cut(s) 431
EcoICRI GAGCTC 1 cut(s) 431
EcoRII CCWGG 1 cut(s) 82
EcoRV GATATC 1 cut(s) 193
EcoT38I GRGCYC 1 cut(s) 433
FaeI CATG 4 cut(s) 161, 307, 343, 520
FatI CATG 4 cut(s) 157, 303, 339, 516
FblI GTMKAC 1 cut(s) 685
Fnu4HI GCNGC 1 cut(s) 572
FokI GGATG 5 cut(s) 20, 88, 139, 310, 633
FriOI GRGCYC 1 cut(s) 433
Fsp4HI GCNGC 1 cut(s) 572
FspBI CTAG 2 cut(s) 276, 549
GluI GCNGC 1 cut(s) 572
HapII CCGG 2 cut(s) 368, 648
Hin1II CATG 4 cut(s) 161, 307, 343, 520
HincII GTYRAC 1 cut(s) 631
HindII GTYRAC 1 cut(s) 631
HindIII AAGCTT 1 cut(s) 9
HinfI GANTC 2 cut(s) 451, 466
HpaII CCGG 2 cut(s) 368, 648
Hpy166II GTNNAC 2 cut(s) 631, 686
Hpy188I TCNGA 4 cut(s) 23, 190, 213, 510
Hpy188III TCNNGA 5 cut(s) 37, 304, 335, 368, 434
Hpy8I GTNNAC 2 cut(s) 631, 686
Hpy99I CGWCG 1 cut(s) 47
HpyAV CCTTC 1 cut(s) 644
HpyCH4III ACNGT 3 cut(s) 43, 227, 255
HpyCH4IV ACGT 3 cut(s) 240, 258, 594
HpyCH4V TGCA 5 cut(s) 67, 130, 287, 320, 574
HpyF10VI GCNNNNNNNGC 1 cut(s) 478
HpyF3I CTNAG 3 cut(s) 20, 281, 638
HpySE526I ACGT 3 cut(s) 240, 258, 594
Hsp92II CATG 4 cut(s) 161, 307, 343, 520
Kpn2I TCCGGA 1 cut(s) 367
LmnI GCTCC 2 cut(s) 370, 428
LpnPI CCDG 9 cut(s) 50, 69, 96, 297, 381, 419, 489, 661, 703
Lsp1109I GCAGC 1 cut(s) 558
LweI GCATC 1 cut(s) 117
MaeI CTAG 2 cut(s) 276, 549
MaeII ACGT 3 cut(s) 240, 258, 594
MaeIII GTNAC 1 cut(s) 203
MboII GAAGA 3 cut(s) 256, 646, 671
MhlI GDGCHC 4 cut(s) 83, 253, 421, 433
MluCI AATT 4 cut(s) 88, 149, 173, 675
MnlI CCTC 4 cut(s) 107, 117, 379, 545
MroI TCCGGA 1 cut(s) 367
MroXI GAANNNNTTC 1 cut(s) 153
MseI TTAA 1 cut(s) 5
MspI CCGG 2 cut(s) 368, 648
MspR9I CCNGG 2 cut(s) 84, 649
MvaI CCWGG 1 cut(s) 84
MwoI GCNNNNNNNGC 1 cut(s) 478
NciI CCSGG 1 cut(s) 649
NlaIII CATG 4 cut(s) 161, 307, 343, 520
NspI RCATGY 1 cut(s) 520
NspV TTCGAA 1 cut(s) 657
PagI TCATGA 1 cut(s) 303
PciI ACATGT 1 cut(s) 516
PcsI WCGNNNNNNNCGW 1 cut(s) 624
PdmI GAANNNNTTC 1 cut(s) 153
PfeI GAWTC 2 cut(s) 451, 466
PkrI GCNGC 1 cut(s) 573
Ppu21I YACGTR 1 cut(s) 259
PscI ACATGT 1 cut(s) 516
Psp124BI GAGCTC 1 cut(s) 433
Psp6I CCWGG 1 cut(s) 82
PspGI CCWGG 1 cut(s) 82
RsaI GTAC 2 cut(s) 224, 257
RsaNI GTAC 2 cut(s) 223, 256
SacI GAGCTC 1 cut(s) 433
SaqAI TTAA 1 cut(s) 5
SatI GCNGC 1 cut(s) 572
ScrFI CCNGG 2 cut(s) 84, 649
SduI GDGCHC 4 cut(s) 83, 253, 421, 433
SfaNI GCATC 1 cut(s) 117
SfuI TTCGAA 1 cut(s) 657
Sse9I AATT 4 cut(s) 88, 149, 173, 675
SsiI CCGC 1 cut(s) 481
SspMI CTAG 2 cut(s) 276, 549
SstI GAGCTC 1 cut(s) 433
StyD4I CCNGG 2 cut(s) 82, 647
TaaI ACNGT 3 cut(s) 43, 227, 255
TaiI ACGT 3 cut(s) 243, 261, 597
TaqI TCGA 3 cut(s) 264, 493, 657
TasI AATT 4 cut(s) 88, 149, 173, 675
TatI WGTACW 1 cut(s) 222
TfiI GAWTC 2 cut(s) 451, 466
Tru1I TTAA 1 cut(s) 5
Tru9I TTAA 1 cut(s) 5
TscAI CASTG 3 cut(s) 21, 258, 508
TseI GCWGC 1 cut(s) 571
TspDTI ATGAA 3 cut(s) 146, 282, 375
TspGWI ACGGA 2 cut(s) 599, 633
TspRI CASTG 3 cut(s) 21, 258, 508
XceI RCATGY 1 cut(s) 520
XmiI GTMKAC 1 cut(s) 685
XmnI GAANNNNTTC 1 cut(s) 153
XspI CTAG 2 cut(s) 276, 549
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.