RchiOBHm_Chr1g0383741

Pentatricopeptide repeat domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0010599
Physical Location & Seq
Forward (+)
67951358 .. 67954138
2781 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ60662

Sequence Viewer

Length: 618 bp
ATGCAAGAACAAGGATTATATCCTGATCCGAAAATGTTTGTTACTATTATCAGTAGATTGGGGGAGCAAGGGAAGTGGGATATGAATCATATGATACAGAAGACCTTTGAGAATATGAGAAGCCGAGGGCATAAAAAAAGTGGGACTATTTATGCTGCTCTGGTTGACATTTATGGGCAGTATGGAAAATTTCAGGACGCAGAAGAGTGTATATCTGCACTAAAGGCAGAAGGTCTTGTTCCCTCCGCCAGTATGTTTTGTGTCTTAGCAAATGCCTATGCCCAGCAGGGATTATGTGATCAGACAGTCAAAGTACTTCAGCTCATGGAAGCCCAGGGAATCGAACCAAATGTGATAATGCTGAATGTTTTGATTAATGCATTTGGTATTGCTGGTAGACATTTGGAGGCTTTGTCCATTTATCACCATATAAAAGAAAGTGGTTTAAGCCCCGATGTAGTTACTTATACTACCCTTATGAAGGCGTTTATTCGAGCAAGGAAGTATGATAAGGTCCCTGAGATATACATGGATATGGAACATGCTGGATGCACCCCAGATAGAAAGGCTAGACAGATGTTAGAAGTCGCTTCATTGGTCCTTCAACAGAGGAATTGA
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

205

Amino Acids

23.09

Weight (kDa)

7.0

Isoelectric Point (pI)

43.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_24 PF23276 30 - 143 4.6e-08 Fungal tetratrico peptide repeats
PPR_long PF17177 32 - 143 9.3e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 75 - 129 3.7e-07 Pentatricopeptide repeat domain
PPR_long PF17177 96 - 189 9e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 116 - 164 3.2e-12 PPR repeat family
PPR_3 PF13812 139 - 187 1.4e-09 Pentatricopeptide repeat domain
PPR_2 PF13041 151 - 188 5.6e-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)
AccI GTMKAC 1 cut(s) 397
AciI CCGC 1 cut(s) 246
AclWI GGATC 1 cut(s) 20
AcsI RAATTY 1 cut(s) 188
AcuI CTGAAG 1 cut(s) 302
AfaI GTAC 1 cut(s) 315
AfiI CCNNNNNNNGG 1 cut(s) 481
AgsI TTSAA 1 cut(s) 605
AjnI CCWGG 1 cut(s) 333
AluBI AGCT 1 cut(s) 322
AluI AGCT 1 cut(s) 322
AlwI GGATC 1 cut(s) 20
ApeKI GCWGC 1 cut(s) 155
ApoI RAATTY 1 cut(s) 188
AseI ATTAAT 1 cut(s) 375
AspS9I GGNCC 2 cut(s) 514, 598
AsuHPI GGTGA 1 cut(s) 416
AvaII GGWCC 2 cut(s) 514, 598
BbsI GAAGAC 1 cut(s) 107
BbvI GCAGC 1 cut(s) 142
BciT130I CCWGG 1 cut(s) 335
BclI TGATCA 1 cut(s) 298
BfaI CTAG 1 cut(s) 570
BisI GCNGC 1 cut(s) 156
BlsI GCNGC 1 cut(s) 157
BmcAI AGTACT 1 cut(s) 315
Bme1390I CCNGG 1 cut(s) 335
Bme18I GGWCC 2 cut(s) 514, 598
BmgT120I GGNCC 2 cut(s) 514, 598
BmiI GGNNCC 1 cut(s) 516
BmrFI CCNGG 1 cut(s) 335
BmsI GCATC 1 cut(s) 539
BpiI GAAGAC 1 cut(s) 107
BsaBI GATNNNNATC 1 cut(s) 84
BsaJI CCNNGG 3 cut(s) 124, 333, 334
BsaXI ACNNNNNCTCC 2 cut(s) 398, 428
Bsc4I CCNNNNNNNGG 1 cut(s) 481
Bse1I ACTGG 1 cut(s) 249
Bse8I GATNNNNATC 1 cut(s) 84
BseBI CCWGG 1 cut(s) 335
BseDI CCNNGG 3 cut(s) 124, 333, 334
BseGI GGATG 1 cut(s) 554
BseJI GATNNNNATC 1 cut(s) 84
BseLI CCNNNNNNNGG 1 cut(s) 481
BseMII CTCAG 1 cut(s) 510
BseNI ACTGG 1 cut(s) 249
BseXI GCAGC 1 cut(s) 142
BseYI CCCAGC 1 cut(s) 282
BsgI GTGCAG 1 cut(s) 201
BslFI GGGAC 2 cut(s) 157, 500
BslI CCNNNNNNNGG 1 cut(s) 481
BsmFI GGGAC 2 cut(s) 157, 500
Bsp143I GATC 2 cut(s) 25, 298
BspACI CCGC 1 cut(s) 246
BspCNI CTCAG 1 cut(s) 511
BspLI GGNNCC 1 cut(s) 516
BspPI GGATC 1 cut(s) 20
BsrI ACTGG 1 cut(s) 249
BssECI CCNNGG 3 cut(s) 124, 333, 334
BssMI GATC 2 cut(s) 25, 298
Bst2UI CCWGG 1 cut(s) 335
Bst4CI ACNGT 1 cut(s) 307
Bst6I CTCTTC 1 cut(s) 198
BstDEI CTNAG 2 cut(s) 265, 519
BstENI CCTNNNNNAGG 1 cut(s) 479
BstF5I GGATG 1 cut(s) 554
BstKTI GATC 2 cut(s) 28, 301
BstMBI GATC 2 cut(s) 25, 298
BstMWI GCNNNNNNNGC 1 cut(s) 224
BstNI CCWGG 1 cut(s) 335
BstNSI RCATGY 1 cut(s) 545
BstSCI CCNGG 1 cut(s) 333
BstV1I GCAGC 1 cut(s) 142
BstV2I GAAGAC 1 cut(s) 107
BtsCI GGATG 1 cut(s) 554
Cfr13I GGNCC 2 cut(s) 514, 598
CseI GACGC 1 cut(s) 206
Csp6I GTAC 1 cut(s) 314
CspCI CAANNNNNGTGG 2 cut(s) 56, 91
CviAII CATG 3 cut(s) 325, 529, 542
CviJI RGCY 6 cut(s) 123, 322, 332, 410, 450, 569
CviKI_1 RGCY 6 cut(s) 123, 322, 332, 410, 450, 569
CviQI GTAC 1 cut(s) 314
DdeI CTNAG 2 cut(s) 265, 519
DpnI GATC 2 cut(s) 27, 300
DpnII GATC 2 cut(s) 25, 298
Eam1104I CTCTTC 1 cut(s) 198
EarI CTCTTC 1 cut(s) 198
EciI GGCGGA 1 cut(s) 235
Eco47I GGWCC 2 cut(s) 514, 598
Eco57I CTGAAG 1 cut(s) 302
EcoNI CCTNNNNNAGG 1 cut(s) 479
EcoO109I RGGNCCY 1 cut(s) 514
EcoRII CCWGG 1 cut(s) 333
EcoT22I ATGCAT 1 cut(s) 382
FaeI CATG 3 cut(s) 328, 532, 545
FaqI GGGAC 2 cut(s) 157, 500
FatI CATG 3 cut(s) 324, 528, 541
FauNDI CATATG 1 cut(s) 90
FbaI TGATCA 1 cut(s) 298
FblI GTMKAC 1 cut(s) 397
Fnu4HI GCNGC 1 cut(s) 156
FokI GGATG 1 cut(s) 561
Fsp4HI GCNGC 1 cut(s) 156
FspBI CTAG 1 cut(s) 570
GluI GCNGC 1 cut(s) 156
GsaI CCCAGC 1 cut(s) 286
HgaI GACGC 1 cut(s) 206
Hin1II CATG 3 cut(s) 328, 532, 545
HincII GTYRAC 1 cut(s) 166
HindII GTYRAC 1 cut(s) 166
HinfI GANTC 2 cut(s) 85, 339
HphI GGTGA 1 cut(s) 416
Hpy166II GTNNAC 2 cut(s) 166, 398
Hpy188I TCNGA 2 cut(s) 30, 303
Hpy188III TCNNGA 2 cut(s) 23, 194
Hpy8I GTNNAC 2 cut(s) 166, 398
HpyAV CCTTC 3 cut(s) 224, 475, 611
HpyCH4III ACNGT 1 cut(s) 307
HpyCH4V TGCA 4 cut(s) 4, 218, 380, 552
HpyF10VI GCNNNNNNNGC 1 cut(s) 224
HpyF3I CTNAG 2 cut(s) 265, 519
Hsp92II CATG 3 cut(s) 328, 532, 545
Ksp22I TGATCA 1 cut(s) 298
Kzo9I GATC 2 cut(s) 25, 298
LmnI GCTCC 1 cut(s) 64
Lsp1109I GCAGC 1 cut(s) 142
LweI GCATC 1 cut(s) 539
MaeI CTAG 1 cut(s) 570
MaeIII GTNAC 2 cut(s) 40, 460
MalI GATC 2 cut(s) 27, 300
MboI GATC 2 cut(s) 25, 298
MboII GAAGA 2 cut(s) 112, 215
MluCI AATT 2 cut(s) 188, 613
MnlI CCTC 4 cut(s) 119, 253, 400, 603
Mph1103I ATGCAT 1 cut(s) 382
MseI TTAA 2 cut(s) 375, 446
MslI CAYNNNNRTG 1 cut(s) 533
MspR9I CCNGG 1 cut(s) 335
MvaI CCWGG 1 cut(s) 335
MwoI GCNNNNNNNGC 1 cut(s) 224
NdeI CATATG 1 cut(s) 90
NdeII GATC 2 cut(s) 25, 298
NlaIII CATG 3 cut(s) 328, 532, 545
NlaIV GGNNCC 1 cut(s) 516
NmeAIII GCCGAG 1 cut(s) 149
NsiI ATGCAT 1 cut(s) 382
NspI RCATGY 1 cut(s) 545
PasI CCCWGGG 1 cut(s) 334
PfeI GAWTC 2 cut(s) 85, 339
PkrI GCNGC 1 cut(s) 157
PpuMI RGGWCCY 1 cut(s) 514
PshBI ATTAAT 1 cut(s) 375
Psp5II RGGWCCY 1 cut(s) 514
Psp6I CCWGG 1 cut(s) 333
PspFI CCCAGC 1 cut(s) 282
PspGI CCWGG 1 cut(s) 333
PspN4I GGNNCC 1 cut(s) 516
PspPI GGNCC 2 cut(s) 514, 598
PspPPI RGGWCCY 1 cut(s) 514
RsaI GTAC 1 cut(s) 315
RsaNI GTAC 1 cut(s) 314
RseI CAYNNNNRTG 1 cut(s) 533
SaqAI TTAA 2 cut(s) 375, 446
SatI GCNGC 1 cut(s) 156
Sau3AI GATC 2 cut(s) 25, 298
Sau96I GGNCC 2 cut(s) 514, 598
ScaI AGTACT 1 cut(s) 315
ScrFI CCNGG 1 cut(s) 335
SetI ASST 4 cut(s) 107, 235, 324, 516
SfaNI GCATC 1 cut(s) 539
SinI GGWCC 2 cut(s) 514, 598
SmiMI CAYNNNNRTG 1 cut(s) 533
Sse9I AATT 2 cut(s) 188, 613
SsiI CCGC 1 cut(s) 246
SspMI CTAG 1 cut(s) 570
StyD4I CCNGG 1 cut(s) 333
TaaI ACNGT 1 cut(s) 307
TaqI TCGA 2 cut(s) 342, 493
TasI AATT 2 cut(s) 188, 613
TatI WGTACW 1 cut(s) 313
TfiI GAWTC 2 cut(s) 85, 339
Tru1I TTAA 2 cut(s) 375, 446
Tru9I TTAA 2 cut(s) 375, 446
TseI GCWGC 1 cut(s) 155
TspDTI ATGAA 3 cut(s) 98, 494, 582
VpaK11BI GGWCC 2 cut(s) 514, 598
VspI ATTAAT 1 cut(s) 375
XagI CCTNNNNNAGG 1 cut(s) 479
XapI RAATTY 1 cut(s) 188
XceI RCATGY 1 cut(s) 545
XmiI GTMKAC 1 cut(s) 397
XspI CTAG 1 cut(s) 570
ZrmI AGTACT 1 cut(s) 315
Zsp2I ATGCAT 1 cut(s) 382
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.