RchiOBHm_Chr2g0162281

pentatricopeptide

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0003325
Physical Location & Seq
Reverse (-)
77996418 .. 77997066
649 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ53058

Sequence Viewer

Length: 645 bp
ATGATTAAAGGGTATTGTAGGGCAGGGAAAACCCAGAAGGCAATGGAGAAGTTTAGGGATATGGAGGGGAGGAATGTGGAGGCTGATAAGATTACTTATATGACTTTGGTGCAGGGGTGTTATTCGGAAGGAGATTTCGATTCATGTTTGAGTCTGTACCAGGAAATGAGAGAGAAGGGGATTGAAATTCCTTCTCACGCGTATAGTTTAGTCATCAATGGGCTATGTAAAGGTGGGAAATGTATGGTTGGGTATGCTGTTTTTGAAGATATGATTGAGAAGGGTTGTAAAGCAAATGTGGCAAACTATACAGCTTTGATCGATTCATATGCAAAATGTGGGTGCATTGAAGAGGCAATGAAGCTTTTCGAGAGGATGAAGAGCGATGGGCTTGAACCAGATGGGGTTACTTATGGGGTTATTGTCAATGGATTATGTAAGAGTGGGAGATTGGATAAGGCCATGGAGTATTTTCAGTTTTGTCAAAACAGCAGAATGGCAGACAATGCTATGTTGTATTCTAGTTTAATCAATGGTCTTGGAAAGCCTGGAAGGGTTGATGAAGCTGAAAGGGTATTCAAAAAGATGATCGTAAATGGTTGTCCACCGGATTCATACTGCTATAATGCCCTTATCGATGCCTAA

Protein Analysis

214

Amino Acids

23.81

Weight (kDa)

5.62

Isoelectric Point (pI)

24.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 1 - 40 5.8e-10 PPR repeat family
PPR_2 PF13041 31 - 77 8.6e-11 PPR repeat family
PPR PF01535 31 - 61 7.5e-07 PPR repeat
PPR_long PF17177 35 - 156 5e-14 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 66 - 106 8.3e-06 PPR repeat family
PPR_3 PF13812 87 - 143 5.7e-11 Pentatricopeptide repeat domain
TPR_24 PF23276 87 - 195 1e-07 Fungal tetratrico peptide repeats
PPR_1 PF12854 94 - 127 1.2e-08 PPR repeat
PPR_2 PF13041 99 - 147 3e-16 PPR repeat family
PPR PF01535 103 - 131 7.1e-10 PPR repeat
PPR_1 PF12854 129 - 158 4.5e-10 PPR repeat
PPR_2 PF13041 169 - 214 5.4e-12 PPR repeat family
PPR_1 PF12854 169 - 196 9.6e-08 PPR repeat
PPR PF01535 173 - 201 7.9e-07 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)
AccII CGCG 1 cut(s) 200
AcsI RAATTY 1 cut(s) 186
AfaI GTAC 1 cut(s) 158
AflIII ACRYGT 1 cut(s) 198
AgsI TTSAA 5 cut(s) 185, 266, 350, 395, 580
AjnI CCWGG 2 cut(s) 159, 547
AluBI AGCT 3 cut(s) 314, 364, 566
AluI AGCT 3 cut(s) 314, 364, 566
AoxI GGCC 1 cut(s) 459
ApoI RAATTY 1 cut(s) 186
Asp700I GAANNNNTTC 1 cut(s) 365
BccI CCATC 2 cut(s) 380, 395
BcgI CGANNNNNNTGC 2 cut(s) 311, 345
BciT130I CCWGG 2 cut(s) 161, 549
BfaI CTAG 1 cut(s) 522
Bme1390I CCNGG 2 cut(s) 161, 549
BmrFI CCNGG 2 cut(s) 161, 549
BmsI GCATC 1 cut(s) 628
Bsa29I ATCGAT 2 cut(s) 321, 636
BsaJI CCNNGG 1 cut(s) 462
BsaWI WCCGGW 1 cut(s) 607
Bse3DI GCAATG 2 cut(s) 48, 363
BseBI CCWGG 2 cut(s) 161, 549
BseCI ATCGAT 2 cut(s) 321, 636
BseDI CCNNGG 1 cut(s) 462
BseGI GGATG 1 cut(s) 381
BseMI GCAATG 2 cut(s) 48, 363
BsgI GTGCAG 1 cut(s) 131
Bsh1236I CGCG 1 cut(s) 200
BshFI GGCC 1 cut(s) 461
BshVI ATCGAT 2 cut(s) 321, 636
BsiSI CCGG 1 cut(s) 608
BsnI GGCC 1 cut(s) 461
Bsp143I GATC 2 cut(s) 318, 588
Bsp19I CCATGG 1 cut(s) 462
BspANI GGCC 1 cut(s) 461
BspDI ATCGAT 2 cut(s) 321, 636
BspFNI CGCG 1 cut(s) 200
BspQI GCTCTTC 1 cut(s) 374
BsrDI GCAATG 2 cut(s) 48, 363
BssECI CCNNGG 1 cut(s) 462
BssMI GATC 2 cut(s) 318, 588
BssT1I CCWWGG 1 cut(s) 462
Bst2UI CCWGG 2 cut(s) 161, 549
Bst6I CTCTTC 2 cut(s) 345, 374
BstAPI GCANNNNNTGC 1 cut(s) 506
BstDSI CCRYGG 1 cut(s) 462
BstF5I GGATG 1 cut(s) 381
BstFNI CGCG 1 cut(s) 200
BstKTI GATC 2 cut(s) 321, 591
BstMBI GATC 2 cut(s) 318, 588
BstMWI GCNNNNNNNGC 2 cut(s) 299, 506
BstNI CCWGG 2 cut(s) 161, 549
BstSCI CCNGG 2 cut(s) 159, 547
BstUI CGCG 1 cut(s) 200
Bsu15I ATCGAT 2 cut(s) 321, 636
BsuRI GGCC 1 cut(s) 461
BsuTUI ATCGAT 2 cut(s) 321, 636
BtgI CCRYGG 1 cut(s) 462
BtgZI GCGATG 1 cut(s) 399
BtsCI GGATG 1 cut(s) 381
ClaI ATCGAT 2 cut(s) 321, 636
Csp6I GTAC 1 cut(s) 157
CviAII CATG 2 cut(s) 144, 463
CviJI RGCY 8 cut(s) 83, 223, 314, 364, 391, 461, 547, 566
CviKI_1 RGCY 8 cut(s) 83, 223, 314, 364, 391, 461, 547, 566
CviQI GTAC 1 cut(s) 157
DpnI GATC 2 cut(s) 320, 590
DpnII GATC 2 cut(s) 318, 588
Eam1104I CTCTTC 2 cut(s) 345, 374
EarI CTCTTC 2 cut(s) 345, 374
Eco130I CCWWGG 1 cut(s) 462
EcoRII CCWGG 2 cut(s) 159, 547
EcoT14I CCWWGG 1 cut(s) 462
ErhI CCWWGG 1 cut(s) 462
FaeI CATG 2 cut(s) 147, 466
FatI CATG 2 cut(s) 143, 462
FauNDI CATATG 1 cut(s) 328
FokI GGATG 1 cut(s) 388
FspBI CTAG 1 cut(s) 522
HaeIII GGCC 1 cut(s) 461
HapII CCGG 1 cut(s) 608
Hin1II CATG 2 cut(s) 147, 466
HindIII AAGCTT 1 cut(s) 362
HinfI GANTC 4 cut(s) 140, 151, 323, 611
HpaII CCGG 1 cut(s) 608
Hpy166II GTNNAC 1 cut(s) 605
Hpy188I TCNGA 1 cut(s) 127
Hpy188III TCNNGA 1 cut(s) 370
Hpy8I GTNNAC 1 cut(s) 605
HpyAV CCTTC 6 cut(s) 31, 122, 169, 201, 274, 546
HpyCH4V TGCA 3 cut(s) 112, 332, 345
HpyF10VI GCNNNNNNNGC 2 cut(s) 299, 506
Hsp92II CATG 2 cut(s) 147, 466
Kzo9I GATC 2 cut(s) 318, 588
LguI GCTCTTC 1 cut(s) 374
LpnPI CCDG 9 cut(s) 9, 47, 98, 146, 173, 411, 534, 561, 621
LweI GCATC 1 cut(s) 628
MaeI CTAG 1 cut(s) 522
MaeIII GTNAC 1 cut(s) 406
MalI GATC 2 cut(s) 320, 590
MboI GATC 2 cut(s) 318, 588
MboII GAAGA 3 cut(s) 278, 362, 391
MluCI AATT 1 cut(s) 186
MluI ACGCGT 1 cut(s) 198
MlyI GAGTC 1 cut(s) 160
MnlI CCTC 5 cut(s) 58, 63, 73, 346, 366
MroXI GAANNNNTTC 1 cut(s) 365
MseI TTAA 2 cut(s) 6, 527
MspI CCGG 1 cut(s) 608
MspR9I CCNGG 2 cut(s) 161, 549
MvaI CCWGG 2 cut(s) 161, 549
MvnI CGCG 1 cut(s) 200
MwoI GCNNNNNNNGC 2 cut(s) 299, 506
NcoI CCATGG 1 cut(s) 462
NdeI CATATG 1 cut(s) 328
NdeII GATC 2 cut(s) 318, 588
NlaIII CATG 2 cut(s) 147, 466
PciSI GCTCTTC 1 cut(s) 374
PdmI GAANNNNTTC 1 cut(s) 365
PfeI GAWTC 3 cut(s) 140, 323, 611
PleI GAGTC 1 cut(s) 159
PpsI GAGTC 1 cut(s) 159
Psp6I CCWGG 2 cut(s) 159, 547
PspGI CCWGG 2 cut(s) 159, 547
RsaI GTAC 1 cut(s) 158
RsaNI GTAC 1 cut(s) 157
SapI GCTCTTC 1 cut(s) 374
SaqAI TTAA 2 cut(s) 6, 527
Sau3AI GATC 2 cut(s) 318, 588
SchI GAGTC 1 cut(s) 160
ScrFI CCNGG 2 cut(s) 161, 549
SetI ASST 4 cut(s) 235, 316, 366, 568
SfaNI GCATC 1 cut(s) 628
Sse9I AATT 1 cut(s) 186
SspMI CTAG 1 cut(s) 522
StyD4I CCNGG 2 cut(s) 159, 547
StyI CCWWGG 1 cut(s) 462
TaqI TCGA 4 cut(s) 138, 321, 369, 636
TasI AATT 1 cut(s) 186
TfiI GAWTC 3 cut(s) 140, 323, 611
Tru1I TTAA 2 cut(s) 6, 527
Tru9I TTAA 2 cut(s) 6, 527
TspDTI ATGAA 6 cut(s) 132, 315, 374, 392, 576, 603
XapI RAATTY 1 cut(s) 186
XmnI GAANNNNTTC 1 cut(s) 365
XspI CTAG 1 cut(s) 522
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.