Rh3BG289300

Pentatricopeptide repeat-containing protein At2g13420, mitochondrial-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3B
OG0006370
Physical Location & Seq
Forward (+)
28985926 .. 28986627
702 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3BG289300.1

Sequence Viewer

Length: 702 bp
ATGTCCAGCAGAGGCATTGAGCCGGATGTGACTAGCTTTTCGATCCTTCTTCATGTTTATAGCCGGGCGCATAAGCCGGAGTTGTCTCTTGATAAGCTCAAGGAAATGAGGGAGAGGGGGATTTGCCCCACCGTGGCGACGTACACTTCAGTTGTCAAGTGTCTCTGCTCTTGCGGGAGGCTTGAGGAAGCGGAGGAGTTGCTTGGTGAGATGGTGAGGAATGGGGTTAGTCCCTCTGCGGCTACGTATAATTGTTTCTTCAAAGAGTACAGGGGGAGAAAGGACTCGGAAAGCGCTTTGAAGTTGTATAGGAAGATGAAGGAGGATGGATTGTTTGCGCCGAGTGTACACACTTATAATATATTGGTGGGGATGTTTTTGCAGTTGAATCGAGTGGAGATTGTGAGAGCGATATGGGATGACATGAAAGAGAGCGGGGCGGGGCCGGATTTGGATTCGTATACAATGTTGATTCATGGGCTATGTGAGAAGCAGAAGTGGAGAGAGGCGTGCCAGTTTTTTGTGGAGATGATAGAGAAGGGGCTTCTTCCTCAGAAAGTTACTTTTGAGACGCTTTACAGAGGGTTAATACAGTCTGATATGTTGAGAACTTGGAGAAGATTGAAGAAGAAGCTCGATGAAGAGTCTGTTACTTTTGGATCGGAGTTCCAAAATTATCACCTTAAGCCATACAGGAGATGA
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 PPR_3

Protein Analysis

233

Amino Acids

27.03

Weight (kDa)

8.59

Isoelectric Point (pI)

43.03

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_3 PF13812 1 - 54 7.3e-09 Pentatricopeptide repeat domain
PPR_2 PF13041 8 - 56 3.8e-10 PPR repeat family
TPR_24 PF23276 17 - 132 1.6e-07 Fungal tetratrico peptide repeats
PPR_1 PF12854 39 - 72 1.2e-11 PPR repeat
PPR PF01535 47 - 76 6.8e-09 PPR repeat
PPR_2 PF13041 50 - 89 1.5e-09 PPR repeat family
PPR_3 PF13812 67 - 126 7.9e-09 Pentatricopeptide repeat domain
PPR_2 PF13041 78 - 124 2.4e-09 PPR repeat family
PPR_2 PF13041 114 - 162 7.3e-12 PPR repeat family
PPR_2 PF13041 149 - 196 9e-11 PPR repeat family
PPR_1 PF12854 149 - 177 2.5e-07 PPR repeat
PPR PF01535 153 - 182 3.9e-06 PPR repeat
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) 357
AccBSI CCGCTC 1 cut(s) 435
AccI GTMKAC 1 cut(s) 461
AciI CCGC 5 cut(s) 174, 191, 239, 435, 440
AclWI GGATC 2 cut(s) 37, 667
AcuI CTGAAG 1 cut(s) 132
AfaI GTAC 3 cut(s) 143, 269, 348
AfeI AGCGCT 1 cut(s) 295
AfiI CCNNNNNNNGG 1 cut(s) 133
AflII CTTAAG 1 cut(s) 683
AgsI TTSAA 4 cut(s) 262, 301, 388, 625
AluBI AGCT 3 cut(s) 36, 97, 634
AluI AGCT 3 cut(s) 36, 97, 634
Alw26I GTCTC 3 cut(s) 90, 167, 563
AlwI GGATC 2 cut(s) 37, 667
Aor51HI AGCGCT 1 cut(s) 295
AoxI GGCC 1 cut(s) 443
ArsI GACNNNNNNTTYG 2 cut(s) 22, 54
AspLEI GCGC 3 cut(s) 70, 296, 340
AspS9I GGNCC 1 cut(s) 443
AsuC2I CCSGG 1 cut(s) 65
AsuHPI GGTGA 3 cut(s) 218, 226, 671
BccI CCATC 2 cut(s) 205, 320
BcgI CGANNNNNNTGC 2 cut(s) 371, 405
BcnI CCSGG 1 cut(s) 65
BcoDI GTCTC 3 cut(s) 90, 167, 563
BfaI CTAG 1 cut(s) 33
BfoI RGCGCY 1 cut(s) 297
BfrI CTTAAG 1 cut(s) 683
BisI GCNGC 1 cut(s) 240
BlsI GCNGC 1 cut(s) 241
Bme1390I CCNGG 1 cut(s) 65
BmgT120I GGNCC 1 cut(s) 443
BmiI GGNNCC 1 cut(s) 444
BmrFI CCNGG 1 cut(s) 65
BpuEI CTTGAG 2 cut(s) 83, 203
BpuMI CCSGG 1 cut(s) 65
BsaAI YACGTR 1 cut(s) 246
BsaJI CCNNGG 1 cut(s) 132
Bsc4I CCNNNNNNNGG 1 cut(s) 133
Bse1I ACTGG 1 cut(s) 514
BseDI CCNNGG 1 cut(s) 132
BseGI GGATG 4 cut(s) 31, 331, 378, 424
BseLI CCNNNNNNNGG 1 cut(s) 133
BseMII CTCAG 1 cut(s) 566
BseNI ACTGG 1 cut(s) 514
BseRI GAGGAG 1 cut(s) 209
BshFI GGCC 1 cut(s) 445
BsiSI CCGG 4 cut(s) 23, 64, 77, 446
BslFI GGGAC 1 cut(s) 216
BslI CCNNNNNNNGG 1 cut(s) 133
BsmAI GTCTC 3 cut(s) 90, 167, 563
BsmBI CGTCTC 1 cut(s) 563
BsmFI GGGAC 1 cut(s) 216
BsnI GGCC 1 cut(s) 445
Bsp1407I TGTACA 1 cut(s) 346
Bsp143I GATC 2 cut(s) 42, 659
BspACI CCGC 5 cut(s) 174, 191, 239, 435, 440
BspANI GGCC 1 cut(s) 445
BspCNI CTCAG 1 cut(s) 565
BspLI GGNNCC 1 cut(s) 444
BspPI GGATC 2 cut(s) 37, 667
BspTI CTTAAG 1 cut(s) 683
BsrBI CCGCTC 1 cut(s) 435
BsrGI TGTACA 1 cut(s) 346
BsrI ACTGG 1 cut(s) 514
BssECI CCNNGG 1 cut(s) 132
BssMI GATC 2 cut(s) 42, 659
BssNAI GTATAC 1 cut(s) 462
Bst1107I GTATAC 1 cut(s) 462
Bst4CI ACNGT 2 cut(s) 133, 594
Bst6I CTCTTC 1 cut(s) 636
BstAFI CTTAAG 1 cut(s) 683
BstAUI TGTACA 1 cut(s) 346
BstBAI YACGTR 1 cut(s) 246
BstC8I GCNNGC 1 cut(s) 511
BstDEI CTNAG 1 cut(s) 552
BstDSI CCRYGG 1 cut(s) 132
BstF5I GGATG 4 cut(s) 31, 331, 378, 424
BstH2I RGCGCY 1 cut(s) 297
BstHHI GCGC 3 cut(s) 70, 296, 340
BstKTI GATC 2 cut(s) 45, 662
BstMAI GTCTC 3 cut(s) 90, 167, 563
BstMBI GATC 2 cut(s) 42, 659
BstSCI CCNGG 1 cut(s) 63
BstSNI TACGTA 1 cut(s) 246
BstZ17I GTATAC 1 cut(s) 462
BsuRI GGCC 1 cut(s) 445
BtgI CCRYGG 1 cut(s) 132
BtsCI GGATG 4 cut(s) 31, 331, 378, 424
Cac8I GCNNGC 1 cut(s) 511
CfoI GCGC 3 cut(s) 70, 296, 340
Cfr13I GGNCC 1 cut(s) 443
CseI GACGC 1 cut(s) 580
Csp6I GTAC 3 cut(s) 142, 268, 347
CviAII CATG 3 cut(s) 53, 424, 476
CviQI GTAC 3 cut(s) 142, 268, 347
DdeI CTNAG 1 cut(s) 552
DpnI GATC 2 cut(s) 44, 661
DpnII GATC 2 cut(s) 42, 659
Eam1104I CTCTTC 1 cut(s) 636
EarI CTCTTC 1 cut(s) 636
Eco105I TACGTA 1 cut(s) 246
Eco47III AGCGCT 1 cut(s) 295
Eco57I CTGAAG 1 cut(s) 132
Esp3I CGTCTC 1 cut(s) 563
FaeI CATG 3 cut(s) 56, 427, 479
FaqI GGGAC 1 cut(s) 216
FatI CATG 3 cut(s) 52, 423, 475
FauI CCCGC 3 cut(s) 167, 428, 433
FblI GTMKAC 1 cut(s) 461
Fnu4HI GCNGC 1 cut(s) 240
FokI GGATG 4 cut(s) 38, 338, 385, 431
Fsp4HI GCNGC 1 cut(s) 240
FspBI CTAG 1 cut(s) 33
GlaI GCGC 3 cut(s) 69, 295, 339
GluI GCNGC 1 cut(s) 240
HaeII RGCGCY 1 cut(s) 297
HaeIII GGCC 1 cut(s) 445
HapII CCGG 4 cut(s) 23, 64, 77, 446
HgaI GACGC 1 cut(s) 580
HhaI GCGC 3 cut(s) 70, 296, 340
Hin1II CATG 3 cut(s) 56, 427, 479
Hin6I GCGC 3 cut(s) 68, 294, 338
HinP1I GCGC 3 cut(s) 68, 294, 338
HinfI GANTC 5 cut(s) 284, 388, 455, 472, 644
HpaII CCGG 4 cut(s) 23, 64, 77, 446
HphI GGTGA 3 cut(s) 218, 226, 671
Hpy166II GTNNAC 4 cut(s) 144, 347, 349, 462
Hpy188I TCNGA 4 cut(s) 289, 555, 598, 664
Hpy188III TCNNGA 1 cut(s) 89
Hpy8I GTNNAC 4 cut(s) 144, 347, 349, 462
Hpy99I CGWCG 1 cut(s) 142
HpyAV CCTTC 3 cut(s) 56, 313, 532
HpyCH4III ACNGT 2 cut(s) 133, 594
HpyCH4IV ACGT 2 cut(s) 140, 245
HpyCH4V TGCA 1 cut(s) 382
HpyF3I CTNAG 1 cut(s) 552
HpySE526I ACGT 2 cut(s) 140, 245
Hsp92II CATG 3 cut(s) 56, 427, 479
HspAI GCGC 3 cut(s) 68, 294, 338
Kzo9I GATC 2 cut(s) 42, 659
LpnPI CCDG 8 cut(s) 19, 36, 77, 90, 256, 459, 527, 679
MaeI CTAG 1 cut(s) 33
MaeII ACGT 2 cut(s) 140, 245
MaeIII GTNAC 3 cut(s) 28, 559, 649
MalI GATC 2 cut(s) 44, 661
MbiI CCGCTC 1 cut(s) 435
MboI GATC 2 cut(s) 42, 659
MboII GAAGA 8 cut(s) 41, 250, 325, 539, 630, 637, 640, 653
MluCI AATT 2 cut(s) 250, 673
MlyI GAGTC 2 cut(s) 278, 653
MseI TTAA 2 cut(s) 587, 684
MspCI CTTAAG 1 cut(s) 683
MspI CCGG 4 cut(s) 23, 64, 77, 446
MspR9I CCNGG 1 cut(s) 65
NciI CCSGG 1 cut(s) 65
NdeII GATC 2 cut(s) 42, 659
NlaIII CATG 3 cut(s) 56, 427, 479
NlaIV GGNNCC 1 cut(s) 444
NmeAIII GCCGAG 1 cut(s) 366
NmuCI GTSAC 1 cut(s) 28
PfeI GAWTC 3 cut(s) 388, 455, 472
PkrI GCNGC 1 cut(s) 241
PleI GAGTC 2 cut(s) 278, 652
PpsI GAGTC 2 cut(s) 278, 652
Ppu21I YACGTR 1 cut(s) 246
PsiI TTATAA 1 cut(s) 357
PspN4I GGNNCC 1 cut(s) 444
PspPI GGNCC 1 cut(s) 443
RsaI GTAC 3 cut(s) 143, 269, 348
RsaNI GTAC 3 cut(s) 142, 268, 347
SaqAI TTAA 2 cut(s) 587, 684
SatI GCNGC 1 cut(s) 240
Sau3AI GATC 2 cut(s) 42, 659
Sau96I GGNCC 1 cut(s) 443
SchI GAGTC 2 cut(s) 278, 653
ScrFI CCNGG 1 cut(s) 65
SetI ASST 6 cut(s) 38, 99, 143, 248, 636, 684
SmlI CTYRAG 3 cut(s) 98, 182, 683
SmoI CTYRAG 3 cut(s) 98, 182, 683
SnaBI TACGTA 1 cut(s) 246
Sse9I AATT 2 cut(s) 250, 673
SsiI CCGC 5 cut(s) 174, 191, 239, 435, 440
SspMI CTAG 1 cut(s) 33
StyD4I CCNGG 1 cut(s) 63
TaaI ACNGT 2 cut(s) 133, 594
TaiI ACGT 2 cut(s) 143, 248
TaqI TCGA 3 cut(s) 41, 391, 636
TasI AATT 2 cut(s) 250, 673
TatI WGTACW 2 cut(s) 267, 346
TauI GCSGC 1 cut(s) 242
TfiI GAWTC 3 cut(s) 388, 455, 472
Tru1I TTAA 2 cut(s) 587, 684
Tru9I TTAA 2 cut(s) 587, 684
TseFI GTSAC 1 cut(s) 28
Tsp45I GTSAC 1 cut(s) 28
TspDTI ATGAA 5 cut(s) 41, 332, 440, 464, 654
Vha464I CTTAAG 1 cut(s) 683
XmiI GTMKAC 1 cut(s) 461
XspI CTAG 1 cut(s) 33
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.