RLG00000019280

Pentatricopeptide repeat-containing protein At1g80880

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0007278
Physical Location & Seq
Forward (+)
49579831 .. 49580677
847 bp
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UTR
Exon/CDS
Intron
RLM00000019280

Sequence Viewer

Length: 675 bp
ATGGAGGAAGCTGAAGAATTCATGATTGTAAGTAAGAAGTTCTTCCCACTGGAGGTTGAGGGCTTTAACATTATTCTCAATGGGTGGTGTAACATATCTGTGGATGTGTATCAAGCCAAGAGAGTTTGGAGAGAAATGTCAAAATACTGTATTACACCGGATGCAACTTCTTATACACACATGATTTTGTGCCTTTCAAAGGTTGGGAATCTTTTCGACTCCCTTAGACTATATGATGAAATGAAGAAAAGAGATTGGGTTCCTGGTCTCAAGGTTTACAATTCCTTAATTTATGTACTAGCCCGTGAAAATTGCTTTAAGGAAGCACTCAAAGTACTGGACAATGTGAAAGAAATTGATTTGCAGCCAGATGTGACCACCTATAACTCAATGATAGGTCCTTTATGTGAATCAAAGAAGCTAGAGGAGGCGCAAAAGATGCTGAGTTCTATGATAAATGATAACCTCAGCCCAACCATAGAGACTTACCATGCATTTCTCCAGAGTGCAGGTTCAAAGGGAACTCTTGAAGGGGTGGCCACTTGTGGGTTGTTAACGAAGGCCAAAGAGCTTTTGGCTGAGATGACATCAAATGGATTTCCAGAAGATCCAAAGCTTAAGAGGCTCTTGAAGAAGCCAATTGGAGGTAGTTTTAAAGGGAAAACGGAGAGTTAG

Protein Analysis

225

Amino Acids

25.35

Weight (kDa)

6.21

Isoelectric Point (pI)

39.13

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 21 - 66 4.9e-06 PPR repeat family
PPR_long PF17177 58 - 179 1.3e-07 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 91 - 136 5.4e-09 PPR repeat family
PPR_3 PF13812 111 - 171 2.6e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 121 - 151 1.9e-07 PPR repeat
PPR_2 PF13041 123 - 167 1.1e-09 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)
Acc36I ACCTGC 1 cut(s) 500
AclWI GGATC 1 cut(s) 602
AcoI YGGCCR 1 cut(s) 537
AcsI RAATTY 1 cut(s) 17
AcuI CTGAAG 1 cut(s) 33
AfaI GTAC 2 cut(s) 297, 336
AfiI CCNNNNNNNGG 4 cut(s) 52, 199, 546, 644
AflII CTTAAG 1 cut(s) 617
AgsI TTSAA 4 cut(s) 198, 516, 530, 631
AjnI CCWGG 1 cut(s) 262
AluBI AGCT 4 cut(s) 11, 421, 571, 616
AluI AGCT 4 cut(s) 11, 421, 571, 616
Alw26I GTCTC 2 cut(s) 272, 476
AlwI GGATC 1 cut(s) 602
AoxI GGCC 2 cut(s) 537, 561
ApeKI GCWGC 1 cut(s) 364
ApoI RAATTY 1 cut(s) 17
Asp700I GAANNNNTTC 2 cut(s) 41, 212
AspLEI GCGC 1 cut(s) 433
AspS9I GGNCC 1 cut(s) 398
AvaII GGWCC 1 cut(s) 398
BalI TGGCCA 1 cut(s) 539
BbvCI CCTCAGC 1 cut(s) 467
BbvI GCAGC 1 cut(s) 376
BciT130I CCWGG 1 cut(s) 264
BcoDI GTCTC 2 cut(s) 272, 476
BfaI CTAG 2 cut(s) 299, 422
BfrI CTTAAG 1 cut(s) 617
BfuAI ACCTGC 1 cut(s) 500
BisI GCNGC 1 cut(s) 365
BlsI GCNGC 1 cut(s) 366
BmcAI AGTACT 1 cut(s) 336
Bme1390I CCNGG 1 cut(s) 264
Bme18I GGWCC 1 cut(s) 398
BmgT120I GGNCC 1 cut(s) 398
BmiI GGNNCC 1 cut(s) 261
BmrFI CCNGG 1 cut(s) 264
BmsI GCATC 2 cut(s) 151, 429
BpmI CTGGAG 2 cut(s) 71, 485
Bpu10I CCTNAGC 1 cut(s) 467
BpuEI CTTGAG 1 cut(s) 254
BsaBI GATNNNNATC 1 cut(s) 108
BsaI GGTCTC 1 cut(s) 272
BsaWI WCCGGW 1 cut(s) 157
Bsc4I CCNNNNNNNGG 4 cut(s) 52, 199, 546, 644
Bse1I ACTGG 2 cut(s) 54, 342
Bse8I GATNNNNATC 1 cut(s) 108
BseBI CCWGG 1 cut(s) 264
BseGI GGATG 2 cut(s) 109, 166
BseJI GATNNNNATC 1 cut(s) 108
BseLI CCNNNNNNNGG 4 cut(s) 52, 199, 546, 644
BseMII CTCAG 3 cut(s) 434, 481, 570
BseNI ACTGG 2 cut(s) 54, 342
BseRI GAGGAG 1 cut(s) 440
BseXI GCAGC 1 cut(s) 376
BsgI GTGCAG 1 cut(s) 528
BshFI GGCC 2 cut(s) 539, 563
BsiSI CCGG 1 cut(s) 158
BslI CCNNNNNNNGG 4 cut(s) 52, 199, 546, 644
BsmAI GTCTC 2 cut(s) 272, 476
BsnI GGCC 2 cut(s) 539, 563
Bso31I GGTCTC 1 cut(s) 272
Bsp143I GATC 1 cut(s) 607
BspANI GGCC 2 cut(s) 539, 563
BspCNI CTCAG 3 cut(s) 435, 480, 571
BspHI TCATGA 1 cut(s) 21
BspLI GGNNCC 1 cut(s) 261
BspMI ACCTGC 1 cut(s) 500
BspPI GGATC 1 cut(s) 602
BspTI CTTAAG 1 cut(s) 617
BspTNI GGTCTC 1 cut(s) 272
BsrI ACTGG 2 cut(s) 54, 342
BssMI GATC 1 cut(s) 607
Bst2UI CCWGG 1 cut(s) 264
Bst4CI ACNGT 1 cut(s) 149
BstAFI CTTAAG 1 cut(s) 617
BstAPI GCANNNNNTGC 1 cut(s) 439
BstDEI CTNAG 4 cut(s) 224, 443, 467, 579
BstENI CCTNNNNNAGG 1 cut(s) 197
BstF5I GGATG 2 cut(s) 109, 166
BstHHI GCGC 1 cut(s) 433
BstKTI GATC 1 cut(s) 610
BstMAI GTCTC 2 cut(s) 272, 476
BstMBI GATC 1 cut(s) 607
BstMWI GCNNNNNNNGC 2 cut(s) 439, 622
BstNI CCWGG 1 cut(s) 264
BstSCI CCNGG 1 cut(s) 262
BstV1I GCAGC 1 cut(s) 376
BstX2I RGATCY 1 cut(s) 607
BstYI RGATCY 1 cut(s) 607
BsuRI GGCC 2 cut(s) 539, 563
BtsCI GGATG 2 cut(s) 109, 166
BtsIMutI CAGTG 1 cut(s) 47
BveI ACCTGC 1 cut(s) 500
CciI TCATGA 1 cut(s) 21
CfoI GCGC 1 cut(s) 433
Cfr13I GGNCC 1 cut(s) 398
Csp6I GTAC 2 cut(s) 296, 335
CviAII CATG 3 cut(s) 22, 181, 491
CviQI GTAC 2 cut(s) 296, 335
DdeI CTNAG 4 cut(s) 224, 443, 467, 579
DpnI GATC 1 cut(s) 609
DpnII GATC 1 cut(s) 607
DraI TTTAAA 1 cut(s) 655
EaeI YGGCCR 1 cut(s) 537
Eco31I GGTCTC 1 cut(s) 272
Eco47I GGWCC 1 cut(s) 398
Eco57I CTGAAG 1 cut(s) 33
EcoNI CCTNNNNNAGG 1 cut(s) 197
EcoO109I RGGNCCY 1 cut(s) 398
EcoRI GAATTC 1 cut(s) 17
EcoRII CCWGG 1 cut(s) 262
EcoT22I ATGCAT 1 cut(s) 496
FaeI CATG 3 cut(s) 25, 184, 494
FalI AAGNNNNNCTT 4 cut(s) 26, 58, 611, 643
FatI CATG 3 cut(s) 21, 180, 490
Fnu4HI GCNGC 1 cut(s) 365
FokI GGATG 2 cut(s) 116, 173
Fsp4HI GCNGC 1 cut(s) 365
FspBI CTAG 2 cut(s) 299, 422
GlaI GCGC 1 cut(s) 432
GluI GCNGC 1 cut(s) 365
GsuI CTGGAG 2 cut(s) 71, 485
HaeIII GGCC 2 cut(s) 539, 563
HapII CCGG 1 cut(s) 158
HhaI GCGC 1 cut(s) 433
Hin1II CATG 3 cut(s) 25, 184, 494
Hin6I GCGC 1 cut(s) 431
HinP1I GCGC 1 cut(s) 431
HincII GTYRAC 1 cut(s) 555
HindII GTYRAC 1 cut(s) 555
HindIII AAGCTT 1 cut(s) 614
HinfI GANTC 3 cut(s) 208, 218, 410
HpaI GTTAAC 1 cut(s) 555
HpaII CCGG 1 cut(s) 158
Hpy166II GTNNAC 2 cut(s) 277, 555
Hpy188III TCNNGA 5 cut(s) 22, 502, 527, 602, 628
Hpy8I GTNNAC 2 cut(s) 277, 555
HpyAV CCTTC 2 cut(s) 524, 553
HpyCH4III ACNGT 1 cut(s) 149
HpyCH4V TGCA 4 cut(s) 164, 364, 494, 509
HpyF10VI GCNNNNNNNGC 2 cut(s) 439, 622
HpyF3I CTNAG 4 cut(s) 224, 443, 467, 579
Hsp92II CATG 3 cut(s) 25, 184, 494
HspAI GCGC 1 cut(s) 431
KspAI GTTAAC 1 cut(s) 555
Kzo9I GATC 1 cut(s) 607
LpnPI CCDG 9 cut(s) 35, 171, 249, 276, 323, 381, 495, 515, 615
Lsp1109I GCAGC 1 cut(s) 376
LweI GCATC 2 cut(s) 151, 429
MaeI CTAG 2 cut(s) 299, 422
MaeIII GTNAC 2 cut(s) 89, 373
MalI GATC 1 cut(s) 609
MboI GATC 1 cut(s) 607
MboII GAAGA 5 cut(s) 26, 34, 256, 617, 643
MfeI CAATTG 1 cut(s) 639
MflI RGATCY 1 cut(s) 607
MlsI TGGCCA 1 cut(s) 539
MluCI AATT 6 cut(s) 17, 280, 288, 310, 354, 639
MluNI TGGCCA 1 cut(s) 539
MlyI GAGTC 1 cut(s) 212
MnlI CCTC 7 cut(s) 46, 52, 418, 421, 476, 615, 638
Mox20I TGGCCA 1 cut(s) 539
Mph1103I ATGCAT 1 cut(s) 496
MroXI GAANNNNTTC 2 cut(s) 41, 212
MscI TGGCCA 1 cut(s) 539
MseI TTAA 6 cut(s) 66, 287, 318, 554, 618, 654
MslI CAYNNNNRTG 1 cut(s) 98
Msp20I TGGCCA 1 cut(s) 539
MspCI CTTAAG 1 cut(s) 617
MspI CCGG 1 cut(s) 158
MspR9I CCNGG 1 cut(s) 264
MunI CAATTG 1 cut(s) 639
MvaI CCWGG 1 cut(s) 264
MwoI GCNNNNNNNGC 2 cut(s) 439, 622
NdeII GATC 1 cut(s) 607
NlaIII CATG 3 cut(s) 25, 184, 494
NlaIV GGNNCC 1 cut(s) 261
NmuCI GTSAC 1 cut(s) 373
NsiI ATGCAT 1 cut(s) 496
PagI TCATGA 1 cut(s) 21
PdmI GAANNNNTTC 2 cut(s) 41, 212
PfeI GAWTC 2 cut(s) 208, 410
PkrI GCNGC 1 cut(s) 366
PleI GAGTC 1 cut(s) 212
PpsI GAGTC 1 cut(s) 212
PpuMI RGGWCCY 1 cut(s) 398
Psp5II RGGWCCY 1 cut(s) 398
Psp6I CCWGG 1 cut(s) 262
PspGI CCWGG 1 cut(s) 262
PspN4I GGNNCC 1 cut(s) 261
PspPI GGNCC 1 cut(s) 398
PspPPI RGGWCCY 1 cut(s) 398
PsuI RGATCY 1 cut(s) 607
RsaI GTAC 2 cut(s) 297, 336
RsaNI GTAC 2 cut(s) 296, 335
RseI CAYNNNNRTG 1 cut(s) 98
SaqAI TTAA 6 cut(s) 66, 287, 318, 554, 618, 654
SatI GCNGC 1 cut(s) 365
Sau3AI GATC 1 cut(s) 607
Sau96I GGNCC 1 cut(s) 398
ScaI AGTACT 1 cut(s) 336
SchI GAGTC 1 cut(s) 212
ScrFI CCNGG 1 cut(s) 264
SfaNI GCATC 2 cut(s) 151, 429
SinI GGWCC 1 cut(s) 398
SmiMI CAYNNNNRTG 1 cut(s) 98
SmlI CTYRAG 2 cut(s) 269, 617
SmoI CTYRAG 2 cut(s) 269, 617
Sse9I AATT 6 cut(s) 17, 280, 288, 310, 354, 639
SspMI CTAG 2 cut(s) 299, 422
StyD4I CCNGG 1 cut(s) 262
TaaI ACNGT 1 cut(s) 149
TaqI TCGA 1 cut(s) 216
TasI AATT 6 cut(s) 17, 280, 288, 310, 354, 639
TatI WGTACW 2 cut(s) 295, 334
TfiI GAWTC 2 cut(s) 208, 410
Tru1I TTAA 6 cut(s) 66, 287, 318, 554, 618, 654
Tru9I TTAA 6 cut(s) 66, 287, 318, 554, 618, 654
TscAI CASTG 1 cut(s) 54
TseFI GTSAC 1 cut(s) 373
TseI GCWGC 1 cut(s) 364
Tsp45I GTSAC 1 cut(s) 373
TspDTI ATGAA 3 cut(s) 10, 252, 257
TspRI CASTG 1 cut(s) 54
Vha464I CTTAAG 1 cut(s) 617
VpaK11BI GGWCC 1 cut(s) 398
XagI CCTNNNNNAGG 1 cut(s) 197
XapI RAATTY 1 cut(s) 17
XcmI CCANNNNNNNNNTGG 1 cut(s) 571
XmnI GAANNNNTTC 2 cut(s) 41, 212
XspI CTAG 2 cut(s) 299, 422
ZrmI AGTACT 1 cut(s) 336
Zsp2I ATGCAT 1 cut(s) 496
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.