Rh3AG252100

Pentatricopeptide repeat-containing protein At2g13420, mitochondrial-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3A
OG0006370
Physical Location & Seq
Forward (+)
27262086 .. 27313508
51423 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3AG252100.1

Sequence Viewer

Length: 1050 bp
ATGAATGGAAGAATGGAAAATGGCGTTCCTGTTCAGAAAATGAAAAATGGTTCACAGCAAACCCCGTGTTGTCCTTTACTCGAGTCTCTTAATATTCATATTGCTGCTCTTCTCTTCCGAAATAGCATTTTCCAGTCTCAGCATCTTCAAAATCCAATCGGCCGTTTCGATATGGCGGAGAGGTTCTTGAGGGATATGATCGAGCGAGGTATTGAGCCTAATGTGGTTACTTACAATGTGTTTCTGGATGGGATTTGTAGGAAGGCGAGTTTGCACCCTCAGGACAGGTTTGAGAGGACCATAAGAAATGCACTGAAGGTGTTCGATGAAATGTCCAGCAGAGGCATTGAGCCGGACGTGACTAGTTTTTCGATCCTTCTTCATGTTTATAGCCGGGCGCATAAGCCCCAGTTGTCGCTTGATAAGCTGAAGGAAATGAGGGAGAGGGGGATTTGTCCCACCGTGGCAACGTACACTTCAGTTGTCAAGTGTCTCTGCTCTTGCGGAAGGCTTGAGGAAGCGGAGGATTTGCTTGGTGAGATGGTGAGGAATGGGGTTAGTCCCTCTGCGGCTACGTATAATTGTTTCTTCAAAGAGTACAGGGGGAGAAAGGACTCGGAAAGCGCTTTGAAGTTGTATAGGAAGATGAAGGAGGATAGATTGTTTGCGCCGAGTGTGCACACTTATAATATATTGGTGGGGATGTTTTTGCAGTTGAATCGAGTGGAGATTGTTAGAGAGATATGGGATGACATGAAAGAGAGCGGGGCGGGGCCAGATTTGGATTCGTATACGATGTTGATTCATGGGCTATGTGAGAAGCAGAAGTGGAGAGAGGCGTGCCAGTTTTTTGTGGAGATGATAGAGAAGGGGCTTCTTCCTCAGAAAGTTACTTTTGAGACGCTTTACAGAGGGTTAATACAGTCTGATATGTTGAGAACTTGGAGAAGATTGAAGAAGAAGCTCGATGAAGATGGCGCGCCATCTCATGTAATGCCTGTAGTATATTTATCAAGCATCAGTTTCATTATTTTACATTGTATGTTCTAG
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

349

Amino Acids

40.28

Weight (kDa)

8.56

Isoelectric Point (pI)

46.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 54 - 87 2e-09 PPR repeat family
PPR_long PF17177 65 - 194 7e-11 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 101 - 130 3.4e-07 PPR repeat family
PPR_3 PF13812 106 - 163 4.6e-11 Pentatricopeptide repeat domain
PPR_2 PF13041 125 - 166 5.9e-07 PPR repeat family
TPR_24 PF23276 127 - 241 1.1e-06 Fungal tetratrico peptide repeats
PPR_1 PF12854 149 - 182 7.1e-11 PPR repeat
PPR PF01535 157 - 186 2e-08 PPR repeat
PPR_2 PF13041 160 - 199 2.7e-09 PPR repeat family
PPR_3 PF13812 177 - 236 2.6e-08 Pentatricopeptide repeat domain
PPR_2 PF13041 192 - 236 9.1e-08 PPR repeat family
PPR_2 PF13041 224 - 272 5.5e-12 PPR repeat family
PPR_2 PF13041 259 - 306 1.7e-10 PPR repeat family
PPR_1 PF12854 259 - 287 4.4e-07 PPR repeat
PPR PF01535 263 - 292 6.9e-06 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 687
AccBSI CCGCTC 1 cut(s) 765
AccI GTMKAC 1 cut(s) 791
AccII CGCG 1 cut(s) 980
AciI CCGC 6 cut(s) 176, 504, 521, 569, 765, 770
AclWI GGATC 1 cut(s) 367
AcoI YGGCCR 1 cut(s) 160
AcuI CTGAAG 3 cut(s) 335, 449, 462
AfaI GTAC 2 cut(s) 473, 599
AfeI AGCGCT 1 cut(s) 625
AgsI TTSAA 5 cut(s) 149, 592, 631, 718, 955
AhlI ACTAGT 1 cut(s) 362
AjiI CACGTC 1 cut(s) 358
AluBI AGCT 2 cut(s) 427, 964
AluI AGCT 2 cut(s) 427, 964
Alw21I GWGCWC 1 cut(s) 681
Alw26I GTCTC 4 cut(s) 90, 141, 497, 893
Alw44I GTGCAC 1 cut(s) 677
AlwI GGATC 1 cut(s) 367
Ama87I CYCGRG 1 cut(s) 80
Aor51HI AGCGCT 1 cut(s) 625
AoxI GGCC 2 cut(s) 160, 773
ApaLI GTGCAC 1 cut(s) 677
ApeKI GCWGC 1 cut(s) 104
ArsI GACNNNNNNTTYG 2 cut(s) 352, 384
AscI GGCGCGCC 1 cut(s) 978
Asp700I GAANNNNTTC 1 cut(s) 320
AspLEI GCGC 5 cut(s) 400, 626, 670, 980, 982
AspS9I GGNCC 2 cut(s) 297, 773
AsuC2I CCSGG 1 cut(s) 395
AsuHPI GGTGA 2 cut(s) 548, 556
AvaI CYCGRG 1 cut(s) 80
AvaII GGWCC 1 cut(s) 297
AxyI CCTNAGG 1 cut(s) 279
BaeGI GKGCMC 1 cut(s) 681
Bbv12I GWGCWC 1 cut(s) 681
BbvI GCAGC 1 cut(s) 91
BccI CCATC 4 cut(s) 242, 535, 968, 991
BceAI ACGGC 1 cut(s) 147
BcgI CGANNNNNNTGC 2 cut(s) 701, 735
BcnI CCSGG 1 cut(s) 395
BcoDI GTCTC 4 cut(s) 90, 141, 497, 893
BcuI ACTAGT 1 cut(s) 362
BfaI CTAG 2 cut(s) 363, 1048
BfmI CTRYAG 1 cut(s) 999
BfoI RGCGCY 1 cut(s) 627
BisI GCNGC 2 cut(s) 105, 570
BlsI GCNGC 2 cut(s) 106, 571
Bme1390I CCNGG 1 cut(s) 395
Bme18I GGWCC 1 cut(s) 297
BmeT110I CYCGRG 1 cut(s) 80
BmgBI CACGTC 1 cut(s) 358
BmgT120I GGNCC 2 cut(s) 297, 773
BmiI GGNNCC 1 cut(s) 774
BmrFI CCNGG 1 cut(s) 395
BmrI ACTGGG 1 cut(s) 403
BmsI GCATC 2 cut(s) 151, 1026
BmuI ACTGGG 1 cut(s) 403
BpuEI CTTGAG 2 cut(s) 208, 533
BpuMI CCSGG 1 cut(s) 395
BsaAI YACGTR 1 cut(s) 576
BsaJI CCNNGG 1 cut(s) 462
Bse1I ACTGG 3 cut(s) 133, 409, 844
Bse21I CCTNAGG 1 cut(s) 279
BseDI CCNNGG 1 cut(s) 462
BseGI GGATG 3 cut(s) 253, 708, 754
BseMII CTCAG 3 cut(s) 152, 293, 896
BseNI ACTGG 3 cut(s) 133, 409, 844
BsePI GCGCGC 1 cut(s) 978
BseSI GKGCMC 1 cut(s) 681
BseX3I CGGCCG 1 cut(s) 160
BseXI GCAGC 1 cut(s) 91
Bsh1236I CGCG 1 cut(s) 980
Bsh1285I CGRYCG 1 cut(s) 163
BshFI GGCC 2 cut(s) 162, 775
BsiEI CGRYCG 1 cut(s) 163
BsiHKAI GWGCWC 1 cut(s) 681
BsiHKCI CYCGRG 1 cut(s) 80
BsiSI CCGG 2 cut(s) 353, 394
BslFI GGGAC 2 cut(s) 441, 546
BsmAI GTCTC 4 cut(s) 90, 141, 497, 893
BsmBI CGTCTC 1 cut(s) 893
BsmFI GGGAC 2 cut(s) 441, 546
BsnI GGCC 2 cut(s) 162, 775
BsoBI CYCGRG 1 cut(s) 80
Bsp1286I GDGCHC 1 cut(s) 681
Bsp143I GATC 2 cut(s) 198, 372
BspACI CCGC 6 cut(s) 176, 504, 521, 569, 765, 770
BspANI GGCC 2 cut(s) 162, 775
BspCNI CTCAG 3 cut(s) 151, 292, 895
BspFNI CGCG 1 cut(s) 980
BspLI GGNNCC 1 cut(s) 774
BspPI GGATC 1 cut(s) 367
BspQI GCTCTTC 1 cut(s) 114
BsrBI CCGCTC 1 cut(s) 765
BsrI ACTGG 3 cut(s) 133, 409, 844
BssECI CCNNGG 1 cut(s) 462
BssHII GCGCGC 1 cut(s) 978
BssMI GATC 2 cut(s) 198, 372
BssNAI GTATAC 1 cut(s) 792
Bst1107I GTATAC 1 cut(s) 792
Bst4CI ACNGT 2 cut(s) 463, 924
Bst6I CTCTTC 2 cut(s) 114, 119
BstBAI YACGTR 1 cut(s) 576
BstC8I GCNNGC 2 cut(s) 841, 980
BstDEI CTNAG 3 cut(s) 138, 279, 882
BstDSI CCRYGG 1 cut(s) 462
BstF5I GGATG 3 cut(s) 253, 708, 754
BstFNI CGCG 1 cut(s) 980
BstH2I RGCGCY 1 cut(s) 627
BstHHI GCGC 5 cut(s) 400, 626, 670, 980, 982
BstKTI GATC 2 cut(s) 201, 375
BstMAI GTCTC 4 cut(s) 90, 141, 497, 893
BstMBI GATC 2 cut(s) 198, 372
BstMCI CGRYCG 1 cut(s) 163
BstMWI GCNNNNNNNGC 2 cut(s) 424, 676
BstSCI CCNGG 1 cut(s) 393
BstSFI CTRYAG 1 cut(s) 999
BstSLI GKGCMC 1 cut(s) 681
BstSNI TACGTA 1 cut(s) 576
BstUI CGCG 1 cut(s) 980
BstV1I GCAGC 1 cut(s) 91
BstZ17I GTATAC 1 cut(s) 792
BstZI CGGCCG 1 cut(s) 160
Bsu36I CCTNAGG 1 cut(s) 279
BsuRI GGCC 2 cut(s) 162, 775
BtgI CCRYGG 1 cut(s) 462
BtrI CACGTC 1 cut(s) 358
BtsCI GGATG 3 cut(s) 253, 708, 754
BtsIMutI CAGTG 1 cut(s) 311
Cac8I GCNNGC 2 cut(s) 841, 980
CfoI GCGC 5 cut(s) 400, 626, 670, 980, 982
Cfr13I GGNCC 2 cut(s) 297, 773
CseI GACGC 1 cut(s) 910
Csp6I GTAC 2 cut(s) 472, 598
CviAII CATG 4 cut(s) 383, 754, 806, 989
CviQI GTAC 2 cut(s) 472, 598
DdeI CTNAG 3 cut(s) 138, 279, 882
DpnI GATC 2 cut(s) 200, 374
DpnII GATC 2 cut(s) 198, 372
EaeI YGGCCR 1 cut(s) 160
EagI CGGCCG 1 cut(s) 160
Eam1104I CTCTTC 2 cut(s) 114, 119
EarI CTCTTC 2 cut(s) 114, 119
EciI GGCGGA 1 cut(s) 191
EclXI CGGCCG 1 cut(s) 160
Eco105I TACGTA 1 cut(s) 576
Eco47I GGWCC 1 cut(s) 297
Eco47III AGCGCT 1 cut(s) 625
Eco52I CGGCCG 1 cut(s) 160
Eco57I CTGAAG 3 cut(s) 335, 449, 462
Eco81I CCTNAGG 1 cut(s) 279
Eco88I CYCGRG 1 cut(s) 80
Esp3I CGTCTC 1 cut(s) 893
FaeI CATG 4 cut(s) 386, 757, 809, 992
FaqI GGGAC 2 cut(s) 441, 546
FatI CATG 4 cut(s) 382, 753, 805, 988
FauI CCCGC 2 cut(s) 758, 763
FblI GTMKAC 1 cut(s) 791
Fnu4HI GCNGC 2 cut(s) 105, 570
FokI GGATG 3 cut(s) 260, 715, 761
Fsp4HI GCNGC 2 cut(s) 105, 570
FspBI CTAG 2 cut(s) 363, 1048
GlaI GCGC 5 cut(s) 399, 625, 669, 979, 981
GluI GCNGC 2 cut(s) 105, 570
HaeII RGCGCY 1 cut(s) 627
HaeIII GGCC 2 cut(s) 162, 775
HapII CCGG 2 cut(s) 353, 394
HgaI GACGC 1 cut(s) 910
HhaI GCGC 5 cut(s) 400, 626, 670, 980, 982
Hin1II CATG 4 cut(s) 386, 757, 809, 992
Hin6I GCGC 5 cut(s) 398, 624, 668, 978, 980
HinP1I GCGC 5 cut(s) 398, 624, 668, 978, 980
HinfI GANTC 5 cut(s) 83, 614, 718, 785, 802
HpaII CCGG 2 cut(s) 353, 394
HphI GGTGA 2 cut(s) 548, 556
Hpy166II GTNNAC 4 cut(s) 53, 474, 679, 792
Hpy188I TCNGA 5 cut(s) 36, 119, 619, 885, 928
Hpy188III TCNNGA 3 cut(s) 187, 245, 281
Hpy8I GTNNAC 4 cut(s) 53, 474, 679, 792
HpyAV CCTTC 7 cut(s) 256, 310, 386, 424, 501, 643, 862
HpyCH4III ACNGT 2 cut(s) 463, 924
HpyCH4IV ACGT 3 cut(s) 357, 470, 575
HpyCH4V TGCA 4 cut(s) 274, 311, 679, 712
HpyF10VI GCNNNNNNNGC 2 cut(s) 424, 676
HpyF3I CTNAG 3 cut(s) 138, 279, 882
HpySE526I ACGT 3 cut(s) 357, 470, 575
Hsp92II CATG 4 cut(s) 386, 757, 809, 992
HspAI GCGC 5 cut(s) 398, 624, 668, 978, 980
Kzo9I GATC 2 cut(s) 198, 372
LguI GCTCTTC 1 cut(s) 114
Lsp1109I GCAGC 1 cut(s) 91
LweI GCATC 2 cut(s) 151, 1026
MaeI CTAG 2 cut(s) 363, 1048
MaeII ACGT 3 cut(s) 357, 470, 575
MaeIII GTNAC 3 cut(s) 226, 358, 889
MalI GATC 2 cut(s) 200, 374
MbiI CCGCTC 1 cut(s) 765
MboI GATC 2 cut(s) 198, 372
MhlI GDGCHC 1 cut(s) 681
MluCI AATT 1 cut(s) 580
MlyI GAGTC 2 cut(s) 92, 608
MroXI GAANNNNTTC 1 cut(s) 320
MseI TTAA 2 cut(s) 90, 917
MspI CCGG 2 cut(s) 353, 394
MspR9I CCNGG 1 cut(s) 395
MvnI CGCG 1 cut(s) 980
MwoI GCNNNNNNNGC 2 cut(s) 424, 676
NciI CCSGG 1 cut(s) 395
NdeII GATC 2 cut(s) 198, 372
NlaIII CATG 4 cut(s) 386, 757, 809, 992
NlaIV GGNNCC 1 cut(s) 774
NmeAIII GCCGAG 1 cut(s) 696
NmuCI GTSAC 1 cut(s) 358
PaeR7I CTCGAG 1 cut(s) 80
PalAI GGCGCGCC 1 cut(s) 978
PauI GCGCGC 1 cut(s) 978
PciSI GCTCTTC 1 cut(s) 114
PcsI WCGNNNNNNNCGW 1 cut(s) 165
PdmI GAANNNNTTC 1 cut(s) 320
PfeI GAWTC 3 cut(s) 718, 785, 802
PkrI GCNGC 2 cut(s) 106, 571
PleI GAGTC 2 cut(s) 91, 608
PpsI GAGTC 2 cut(s) 91, 608
Ppu21I YACGTR 1 cut(s) 576
PsiI TTATAA 1 cut(s) 687
PspN4I GGNNCC 1 cut(s) 774
PspPI GGNCC 2 cut(s) 297, 773
PspXI VCTCGAGB 1 cut(s) 80
PteI GCGCGC 1 cut(s) 978
RsaI GTAC 2 cut(s) 473, 599
RsaNI GTAC 2 cut(s) 472, 598
SapI GCTCTTC 1 cut(s) 114
SaqAI TTAA 2 cut(s) 90, 917
SatI GCNGC 2 cut(s) 105, 570
Sau3AI GATC 2 cut(s) 198, 372
Sau96I GGNCC 2 cut(s) 297, 773
SchI GAGTC 2 cut(s) 92, 608
ScrFI CCNGG 1 cut(s) 395
SduI GDGCHC 1 cut(s) 681
SetI ASST 9 cut(s) 185, 211, 290, 321, 360, 429, 473, 578, 966
SfaNI GCATC 2 cut(s) 151, 1026
SfcI CTRYAG 1 cut(s) 999
Sfr274I CTCGAG 1 cut(s) 80
SgsI GGCGCGCC 1 cut(s) 978
SinI GGWCC 1 cut(s) 297
SlaI CTCGAG 1 cut(s) 80
SmlI CTYRAG 3 cut(s) 80, 187, 512
SmoI CTYRAG 3 cut(s) 80, 187, 512
SnaBI TACGTA 1 cut(s) 576
SpeI ACTAGT 1 cut(s) 362
Sse9I AATT 1 cut(s) 580
SsiI CCGC 6 cut(s) 176, 504, 521, 569, 765, 770
SspI AATATT 1 cut(s) 94
SspMI CTAG 2 cut(s) 363, 1048
StyD4I CCNGG 1 cut(s) 393
TaaI ACNGT 2 cut(s) 463, 924
TaiI ACGT 3 cut(s) 360, 473, 578
TaqI TCGA 7 cut(s) 81, 168, 201, 324, 371, 721, 966
TasI AATT 1 cut(s) 580
TatI WGTACW 1 cut(s) 597
TauI GCSGC 1 cut(s) 572
TfiI GAWTC 3 cut(s) 718, 785, 802
Tru1I TTAA 2 cut(s) 90, 917
Tru9I TTAA 2 cut(s) 90, 917
TscAI CASTG 1 cut(s) 318
TseFI GTSAC 1 cut(s) 358
TseI GCWGC 1 cut(s) 104
Tsp45I GTSAC 1 cut(s) 358
TspRI CASTG 1 cut(s) 318
VneI GTGCAC 1 cut(s) 677
VpaK11BI GGWCC 1 cut(s) 297
XhoI CTCGAG 1 cut(s) 80
XmiI GTMKAC 1 cut(s) 791
XmnI GAANNNNTTC 1 cut(s) 320
XspI CTAG 2 cut(s) 363, 1048
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.