MD11G1276100.v1.1

Pentatricopeptide repeat-containing protein At3g14580

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr11
OG0016716
Physical Location & Seq
Reverse (-)
39305250 .. 39306446
1197 bp
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UTR
Exon/CDS
Intron
MD11G1276100.v1.1.491

Sequence Viewer

Length: 1197 bp
ATGATTCCACGTTCTACAAAAGCACTTTTCAAAAAGCCAATCTTTTTCCAATCAACTCAATCCTGCACCTTCATCATCAGAAACCCATCAAATTTCTCCACACACCCATCATCTTCCCCACCCGAAATCCCCAAAAAGCTGCACCACAAAGACTGGTTATCCCCCAACGAAGTCCTGCAAGTCTTCACCTCCGTCAGAGACCCCAATTCAATCCTCACGGCACTCGATCACTACTCCAAACGCAAGGACTACAAACCCAATGAAGCTCTCTACACTTTGATCATCGCCAAGCTCGCCGAGGCCCGCCTCTTCGATGCCATTGATTCCGTCATGGCCCGAATCAAAGGCGAAAGCAAATGCCGATTGTCCGACGACTTTTTCCGGTCCGTTATCAAGGCTTACGGCAATGTGGGTGGTTTTATAAACAGGGCGATTGACACCCTTTACGATATGCCCAGATATGGCTGCTGGCCTTCTGTGAAGACGTTCAATTTCGTGCTGCATTTGCTCGTTTCGACGAAGATGTTCGAAGTGGTTCATGAGGTGTTCCTGGAGGCTCCCAGGTTGGGCATTGAGATTGATGCGTGTTCATTGAATATAATCATCAAAGGGTTGTGTGAGTTCGGGAAATTGGATGGTGCACTCCAGGTGCTCGACGAATTTCCTAAGCAGAGGTGTGAGCCGAACGCGCTGACCTTTTCGACGCTTATGCATGGTTTGTGCGTCAATGGGAAGGTGGATGAGGCTTTCGGGTTGTTGAAGAGGATGGAAGATGAGGGTATCGACCCGGATACCATCACGTTTAATATATTGATAGCGGGGCTTAGGAAGCGAGGGAGATTCGACGAGGGGATTAAGCTGTTGGAGGAAATGAAGTTTAAGGGGTGTGATCCGAATCCAGGGTCTTATCAGGAGGTTTTGTATTGTTTCCTCGATGCACAGAGGTTTCTTGAGGCCAAAGGGTTTATGAGTTGGATGATTTCAAAGGGCGTTGGTCCGAGTTTTGTGTCGTACAAGGCGTTGATTCATGGGCTGTGCAAAGAAAATCTGGTGCAGGATGTGGAATGGGTTTTGAAGCAGATGATACGACAAGGTTTTCTTCCGAAGATGGGGATGTGGAGGCAGATTCTCAAAAGTATGTTTGCAGAGAAGAACAGCCATTGCTGTATTTCCTATGAAGAAATTGTAGATAGTTGA

Protein Analysis

399

Amino Acids

45.34

Weight (kDa)

8.34

Isoelectric Point (pI)

41.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 158 - 206 1.5e-06 PPR repeat family
PPR_3 PF13812 182 - 238 6.3e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 190 - 220 7.3e-07 PPR repeat
PPR_2 PF13041 194 - 241 2.4e-12 PPR repeat family
PPR_long PF17177 211 - 362 6.5e-08 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 225 - 257 1.8e-11 PPR repeat
PPR PF01535 232 - 261 5.6e-08 PPR repeat
PPR_3 PF13812 232 - 272 4.3e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 235 - 276 2e-12 PPR repeat family
PPR_1 PF12854 260 - 292 2.3e-09 PPR repeat
PPR_2 PF13041 263 - 304 9.7e-11 PPR repeat family
PPR PF01535 266 - 296 7.4e-07 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0016716)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G14580
fragaria_vesca FvH4_3g16970
malus_domestica MD11G1276100.v1.1
prunus_persica Prupe.4G152100_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0028281
rosa_laevigata RLG00000033079
rosa_multiflora Rmu_sc0001571.1_g000002
rosa_roxburghii Rroxscaffold_1G00051440
rosa_rugosa Rorug05G0105500
rosa_samantha Rh5AG199000 Rh5BG197500 Rh5CG217300 Rh5DG199200
rosa_wichuraiana Rw5G018150

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 422
AccII CGCG 1 cut(s) 689
AciI CCGC 2 cut(s) 304, 818
AclWI GGATC 1 cut(s) 884
AcsI RAATTY 2 cut(s) 91, 659
AfaI GTAC 1 cut(s) 1013
AfiI CCNNNNNNNGG 4 cut(s) 461, 566, 899, 1109
AgsI TTSAA 7 cut(s) 31, 210, 490, 595, 760, 984, 1075
AjnI CCWGG 4 cut(s) 549, 560, 645, 898
AluBI AGCT 4 cut(s) 139, 266, 292, 859
AluI AGCT 4 cut(s) 139, 266, 292, 859
Alw21I GWGCWC 2 cut(s) 643, 654
Alw26I GTCTC 1 cut(s) 192
Alw44I GTGCAC 1 cut(s) 639
AlwI GGATC 1 cut(s) 884
AoxI GGCC 4 cut(s) 300, 333, 470, 954
ApaLI GTGCAC 1 cut(s) 639
ApeKI GCWGC 3 cut(s) 139, 465, 499
ApoI RAATTY 2 cut(s) 91, 659
ArsI GACNNNNNNTTYG 2 cut(s) 887, 919
Asp700I GAANNNNTTC 3 cut(s) 485, 524, 534
AspLEI GCGC 1 cut(s) 691
AspS9I GGNCC 4 cut(s) 301, 334, 384, 995
AsuC2I CCSGG 1 cut(s) 788
AsuHPI GGTGA 1 cut(s) 178
AsuII TTCGAA 1 cut(s) 528
AvaII GGWCC 2 cut(s) 384, 995
BaeGI GKGCMC 1 cut(s) 643
BbsI GAAGAC 2 cut(s) 175, 488
Bbv12I GWGCWC 2 cut(s) 643, 654
BbvI GCAGC 3 cut(s) 126, 452, 486
BccI CCATC 6 cut(s) 94, 115, 629, 760, 803, 1102
BceAI ACGGC 2 cut(s) 234, 418
BcgI CGANNNNNNTGC 2 cut(s) 691, 725
BciT130I CCWGG 4 cut(s) 551, 562, 647, 900
BciVI GTATCC 1 cut(s) 784
BclI TGATCA 1 cut(s) 279
BcnI CCSGG 1 cut(s) 788
BcoDI GTCTC 1 cut(s) 192
BfuI GTATCC 1 cut(s) 784
BisI GCNGC 3 cut(s) 140, 466, 500
BlsI GCNGC 3 cut(s) 141, 467, 501
Bme1390I CCNGG 5 cut(s) 551, 562, 647, 788, 900
Bme18I GGWCC 2 cut(s) 384, 995
BmgT120I GGNCC 4 cut(s) 301, 334, 384, 995
BmiI GGNNCC 1 cut(s) 558
BmrFI CCNGG 5 cut(s) 551, 562, 647, 788, 900
BmsI GCATC 3 cut(s) 304, 571, 925
BpiI GAAGAC 2 cut(s) 175, 488
BpmI CTGGAG 2 cut(s) 572, 629
Bpu10I CCTNAGC 2 cut(s) 666, 824
Bpu14I TTCGAA 1 cut(s) 528
BpuEI CTTGAG 1 cut(s) 971
BpuMI CCSGG 1 cut(s) 788
BsaBI GATNNNNATC 1 cut(s) 894
BsaI GGTCTC 1 cut(s) 192
BsaJI CCNNGG 3 cut(s) 297, 560, 899
BsaWI WCCGGW 1 cut(s) 381
BsaXI ACNNNNNCTCC 2 cut(s) 905, 935
Bsc4I CCNNNNNNNGG 4 cut(s) 461, 566, 899, 1109
Bse1I ACTGG 1 cut(s) 158
Bse3DI GCAATG 2 cut(s) 412, 1159
Bse8I GATNNNNATC 1 cut(s) 894
BseBI CCWGG 4 cut(s) 551, 562, 647, 900
BseDI CCNNGG 3 cut(s) 297, 560, 899
BseGI GGATG 6 cut(s) 640, 745, 771, 981, 1063, 1119
BseJI GATNNNNATC 1 cut(s) 894
BseLI CCNNNNNNNGG 4 cut(s) 461, 566, 899, 1109
BseMI GCAATG 2 cut(s) 412, 1159
BseNI ACTGG 1 cut(s) 158
BseSI GKGCMC 1 cut(s) 643
BseXI GCAGC 3 cut(s) 126, 452, 486
BsgI GTGCAG 3 cut(s) 49, 125, 1073
Bsh1236I CGCG 1 cut(s) 689
BshFI GGCC 4 cut(s) 302, 335, 472, 956
BsiHKAI GWGCWC 2 cut(s) 643, 654
BsiSI CCGG 2 cut(s) 382, 788
BslI CCNNNNNNNGG 4 cut(s) 461, 566, 899, 1109
BsmAI GTCTC 1 cut(s) 192
BsnI GGCC 4 cut(s) 302, 335, 472, 956
Bso31I GGTCTC 1 cut(s) 192
Bsp119I TTCGAA 1 cut(s) 528
Bsp1286I GDGCHC 2 cut(s) 643, 654
Bsp143I GATC 3 cut(s) 226, 279, 889
BspACI CCGC 2 cut(s) 304, 818
BspANI GGCC 4 cut(s) 302, 335, 472, 956
BspFNI CGCG 1 cut(s) 689
BspHI TCATGA 1 cut(s) 538
BspLI GGNNCC 1 cut(s) 558
BspPI GGATC 1 cut(s) 884
BspT104I TTCGAA 1 cut(s) 528
BspTNI GGTCTC 1 cut(s) 192
BsrDI GCAATG 2 cut(s) 412, 1159
BsrI ACTGG 1 cut(s) 158
BssECI CCNNGG 3 cut(s) 297, 560, 899
BssMI GATC 3 cut(s) 226, 279, 889
Bst2UI CCWGG 4 cut(s) 551, 562, 647, 900
Bst6I CTCTTC 2 cut(s) 314, 755
BstBI TTCGAA 1 cut(s) 528
BstC8I GCNNGC 3 cut(s) 294, 304, 470
BstDEI CTNAG 2 cut(s) 666, 824
BstF5I GGATG 6 cut(s) 640, 745, 771, 981, 1063, 1119
BstFNI CGCG 1 cut(s) 689
BstHHI GCGC 1 cut(s) 691
BstKTI GATC 3 cut(s) 229, 282, 892
BstMAI GTCTC 1 cut(s) 192
BstMBI GATC 3 cut(s) 226, 279, 889
BstMWI GCNNNNNNNGC 4 cut(s) 293, 505, 688, 829
BstNI CCWGG 4 cut(s) 551, 562, 647, 900
BstSCI CCNGG 5 cut(s) 549, 560, 645, 786, 898
BstSLI GKGCMC 1 cut(s) 643
BstUI CGCG 1 cut(s) 689
BstV1I GCAGC 3 cut(s) 126, 452, 486
BstV2I GAAGAC 2 cut(s) 175, 488
BsuI GTATCC 1 cut(s) 784
BsuRI GGCC 4 cut(s) 302, 335, 472, 956
BtgZI GCGATG 1 cut(s) 268
BtsCI GGATG 6 cut(s) 640, 745, 771, 981, 1063, 1119
Cac8I GCNNGC 3 cut(s) 294, 304, 470
CciI TCATGA 1 cut(s) 538
CfoI GCGC 1 cut(s) 691
Cfr13I GGNCC 4 cut(s) 301, 334, 384, 995
CpoI CGGWCCG 1 cut(s) 384
CseI GACGC 2 cut(s) 712, 712
Csp6I GTAC 1 cut(s) 1012
CspCI CAANNNNNGTGG 2 cut(s) 394, 429
CspI CGGWCCG 1 cut(s) 384
CviAII CATG 4 cut(s) 331, 539, 713, 1028
CviQI GTAC 1 cut(s) 1012
DdeI CTNAG 2 cut(s) 666, 824
DpnI GATC 3 cut(s) 228, 281, 891
DpnII GATC 3 cut(s) 226, 279, 889
Eam1104I CTCTTC 2 cut(s) 314, 755
EarI CTCTTC 2 cut(s) 314, 755
Eco31I GGTCTC 1 cut(s) 192
Eco47I GGWCC 2 cut(s) 384, 995
EcoRII CCWGG 4 cut(s) 549, 560, 645, 898
EcoT22I ATGCAT 1 cut(s) 714
FaeI CATG 4 cut(s) 334, 542, 716, 1031
FalI AAGNNNNNCTT 4 cut(s) 26, 58, 1083, 1115
FatI CATG 4 cut(s) 330, 538, 712, 1027
FauI CCCGC 2 cut(s) 311, 811
FbaI TGATCA 1 cut(s) 279
Fnu4HI GCNGC 3 cut(s) 140, 466, 500
FokI GGATG 6 cut(s) 647, 752, 778, 988, 1070, 1126
Fsp4HI GCNGC 3 cut(s) 140, 466, 500
GlaI GCGC 1 cut(s) 690
GluI GCNGC 3 cut(s) 140, 466, 500
GsuI CTGGAG 2 cut(s) 572, 629
HaeIII GGCC 4 cut(s) 302, 335, 472, 956
HapII CCGG 2 cut(s) 382, 788
HgaI GACGC 2 cut(s) 712, 712
HhaI GCGC 1 cut(s) 691
Hin1II CATG 4 cut(s) 334, 542, 716, 1031
Hin6I GCGC 1 cut(s) 689
HinP1I GCGC 1 cut(s) 689
HinfI GANTC 7 cut(s) 4, 323, 339, 840, 895, 1024, 1126
HpaII CCGG 2 cut(s) 382, 788
HphI GGTGA 1 cut(s) 178
Hpy166II GTNNAC 1 cut(s) 641
Hpy188I TCNGA 6 cut(s) 80, 197, 370, 894, 999, 1104
Hpy188III TCNNGA 4 cut(s) 539, 625, 911, 950
Hpy8I GTNNAC 1 cut(s) 641
Hpy99I CGWCG 5 cut(s) 374, 520, 659, 706, 848
HpyAV CCTTC 3 cut(s) 79, 483, 727
HpyCH4IV ACGT 3 cut(s) 10, 485, 800
HpyF10VI GCNNNNNNNGC 4 cut(s) 293, 505, 688, 829
HpyF3I CTNAG 2 cut(s) 666, 824
HpySE526I ACGT 3 cut(s) 10, 485, 800
Hsp92II CATG 4 cut(s) 334, 542, 716, 1031
HspAI GCGC 1 cut(s) 689
Ksp22I TGATCA 1 cut(s) 279
Kzo9I GATC 3 cut(s) 226, 279, 889
LmnI GCTCC 1 cut(s) 562
Lsp1109I GCAGC 3 cut(s) 126, 452, 486
LweI GCATC 3 cut(s) 304, 571, 925
MaeII ACGT 3 cut(s) 10, 485, 800
MalI GATC 3 cut(s) 228, 281, 891
MboI GATC 3 cut(s) 226, 279, 889
MhlI GDGCHC 2 cut(s) 643, 654
MluCI AATT 6 cut(s) 91, 205, 490, 629, 659, 1182
MmeI TCCRAC 3 cut(s) 393, 843, 953
Mph1103I ATGCAT 1 cut(s) 714
MroXI GAANNNNTTC 3 cut(s) 485, 524, 534
MseI TTAA 3 cut(s) 804, 855, 879
MspI CCGG 2 cut(s) 382, 788
MspR9I CCNGG 5 cut(s) 551, 562, 647, 788, 900
MvaI CCWGG 4 cut(s) 551, 562, 647, 900
MvnI CGCG 1 cut(s) 689
MwoI GCNNNNNNNGC 4 cut(s) 293, 505, 688, 829
NciI CCSGG 1 cut(s) 788
NdeII GATC 3 cut(s) 226, 279, 889
NlaIII CATG 4 cut(s) 334, 542, 716, 1031
NlaIV GGNNCC 1 cut(s) 558
NmeAIII GCCGAG 1 cut(s) 322
NsiI ATGCAT 1 cut(s) 714
NspV TTCGAA 1 cut(s) 528
PagI TCATGA 1 cut(s) 538
PcsI WCGNNNNNNNCGW 1 cut(s) 1016
PdmI GAANNNNTTC 3 cut(s) 485, 524, 534
PfeI GAWTC 7 cut(s) 4, 323, 339, 840, 895, 1024, 1126
PfoI TCCNGGA 1 cut(s) 549
PkrI GCNGC 3 cut(s) 141, 467, 501
PsiI TTATAA 1 cut(s) 422
Psp6I CCWGG 4 cut(s) 549, 560, 645, 898
PspGI CCWGG 4 cut(s) 549, 560, 645, 898
PspN4I GGNNCC 1 cut(s) 558
PspPI GGNCC 4 cut(s) 301, 334, 384, 995
RsaI GTAC 1 cut(s) 1013
RsaNI GTAC 1 cut(s) 1012
Rsr2I CGGWCCG 1 cut(s) 384
RsrII CGGWCCG 1 cut(s) 384
SaqAI TTAA 3 cut(s) 804, 855, 879
SatI GCNGC 3 cut(s) 140, 466, 500
Sau3AI GATC 3 cut(s) 226, 279, 889
Sau96I GGNCC 4 cut(s) 301, 334, 384, 995
ScrFI CCNGG 5 cut(s) 551, 562, 647, 788, 900
SduI GDGCHC 2 cut(s) 643, 654
SfaNI GCATC 3 cut(s) 304, 571, 925
SfuI TTCGAA 1 cut(s) 528
SinI GGWCC 2 cut(s) 384, 995
SmlI CTYRAG 1 cut(s) 950
SmoI CTYRAG 1 cut(s) 950
Sse9I AATT 6 cut(s) 91, 205, 490, 629, 659, 1182
SsiI CCGC 2 cut(s) 304, 818
StyD4I CCNGG 5 cut(s) 549, 560, 645, 786, 898
TaiI ACGT 3 cut(s) 13, 488, 803
TaqI TCGA 9 cut(s) 225, 312, 515, 528, 654, 701, 783, 843, 933
TasI AATT 6 cut(s) 91, 205, 490, 629, 659, 1182
TfiI GAWTC 7 cut(s) 4, 323, 339, 840, 895, 1024, 1126
Tru1I TTAA 3 cut(s) 804, 855, 879
Tru9I TTAA 3 cut(s) 804, 855, 879
TseI GCWGC 3 cut(s) 139, 465, 499
TspDTI ATGAA 7 cut(s) 61, 276, 527, 579, 887, 1016, 1191
TspGWI ACGGA 3 cut(s) 181, 316, 376
VneI GTGCAC 1 cut(s) 639
VpaK11BI GGWCC 2 cut(s) 384, 995
XapI RAATTY 2 cut(s) 91, 659
XmnI GAANNNNTTC 3 cut(s) 485, 524, 534
Zsp2I ATGCAT 1 cut(s) 714
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.