RchiOBHm_Chr3g0473431

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0001542
Physical Location & Seq
Reverse (-)
19286954 .. 19288413
1460 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ43911

Sequence Viewer

Length: 840 bp
ATGAGAAGTGCTGGGGAGAGCGCGAACCAGTTTGCATTTGCAAGTGTCATCAGAGCTTGTGCGGTTCTTGGGTCGGTTGAGACTGGGAGGCAGCTGCATTCTCTTGCTTTGAAATTGGGCTTGGCTTGTGAGCTGTTTGTGGGTAGTAACTTGGCGGATATGTATTCGAATTGTGGGTTCATGGTTGAGGCTTGTAAGGTTTTCGAGGCAATGGCGAGTAAGGATGCTGTGTCGTGGACTTCGATGATTGATGGGTATGCAAAGAGTTGGGATTTTGAGTCAGCTTTACTGAGTTATCAGAGGATGATTAATGATGGGATTGGAGTAGATAAATATGTTGTTTCTAGTGCATTGAGTGCTTGTTCTGCACCGAAGGCTTGTCAGTTTGGAAAGTGTGTTCATTCGACGGTTGTGAAGTTAGGATTGGAAGTAGAGGTTGCTGTGGGAAATGCTCTGGTTGATATGTACTCGAAATCAGGTGATATGGAGAGTGCTTTAAATGTGTTTCGGGTTGACCCTGAGAGTAGAAATATTGTGTCGTATTCCTCTCTGATCAATGGTTATGTCGAGATGGATGAAATCGAGAAGGCTTTTAGTGTGTTTGTTGACTTACAGAGGGGGAGAGTTGAGCCTAATCAGTTCACTTTCTCTAGCTTGATCAAGGCTTGTGCCAACCAAGCTGCACTTGAACAAGGGATCCAACTTCATGCTCAGGTGGTCAAGTTTAACTTTGATAGAGACAGTTTTGTGTCTTCTGTTCTAGTTGATATGTATCGAACTTTTTCATTGAACATTATCCGTCCAGTTCTTATCTCAATCAAAATGACTTCAACTAGATGA
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
DYW_deaminase PPR PPR_2

Protein Analysis

279

Amino Acids

30.48

Weight (kDa)

5.49

Isoelectric Point (pI)

31.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 74 - 121 7.6e-06 PPR repeat family
PPR PF01535 77 - 107 2.7e-06 PPR repeat
PPR_long PF17177 83 - 226 1.5e-06 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 176 - 225 7e-14 PPR repeat family
PPR_3 PF13812 177 - 225 1.8e-06 Pentatricopeptide repeat domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 23
AciI CCGC 2 cut(s) 62, 155
AclWI GGATC 2 cut(s) 691, 704
AfaI GTAC 1 cut(s) 467
AgsI TTSAA 4 cut(s) 112, 689, 790, 831
AjuI GAANNNNNNNTTGG 4 cut(s) 104, 136, 407, 439
AloI GAACNNNNNNTCC 4 cut(s) 381, 413, 681, 713
AluBI AGCT 6 cut(s) 56, 94, 133, 284, 654, 680
AluI AGCT 6 cut(s) 56, 94, 133, 284, 654, 680
Alw26I GTCTC 2 cut(s) 74, 732
AlwI GGATC 2 cut(s) 691, 704
ApeKI GCWGC 3 cut(s) 91, 94, 680
AseI ATTAAT 1 cut(s) 309
Asp700I GAANNNNTTC 1 cut(s) 781
AspLEI GCGC 1 cut(s) 23
AsuHPI GGTGA 1 cut(s) 491
AsuII TTCGAA 1 cut(s) 167
BamHI GGATCC 1 cut(s) 696
BbsI GAAGAC 1 cut(s) 744
BbvI GCAGC 3 cut(s) 81, 103, 667
BccI CCATC 3 cut(s) 245, 308, 565
BclI TGATCA 2 cut(s) 552, 657
BcoDI GTCTC 2 cut(s) 74, 732
BfaI CTAG 4 cut(s) 345, 651, 761, 834
BisI GCNGC 3 cut(s) 92, 95, 681
BlsI GCNGC 3 cut(s) 93, 96, 682
BmiI GGNNCC 1 cut(s) 698
BmrI ACTGGG 1 cut(s) 93
BmsI GCATC 1 cut(s) 214
BmuI ACTGGG 1 cut(s) 93
BpiI GAAGAC 1 cut(s) 744
Bpu10I CCTNAGC 1 cut(s) 711
Bpu14I TTCGAA 1 cut(s) 167
BsaBI GATNNNNATC 1 cut(s) 771
Bse1I ACTGG 3 cut(s) 28, 88, 803
Bse3DI GCAATG 1 cut(s) 216
Bse8I GATNNNNATC 1 cut(s) 771
BseGI GGATG 3 cut(s) 229, 309, 580
BseJI GATNNNNATC 1 cut(s) 771
BseMI GCAATG 1 cut(s) 216
BseMII CTCAG 3 cut(s) 281, 510, 725
BseNI ACTGG 3 cut(s) 28, 88, 803
BseXI GCAGC 3 cut(s) 81, 103, 667
BseYI CCCAGC 1 cut(s) 11
BsgI GTGCAG 2 cut(s) 351, 666
Bsh1236I CGCG 1 cut(s) 23
BsmAI GTCTC 2 cut(s) 74, 732
BsmI GAATGC 1 cut(s) 97
Bsp119I TTCGAA 1 cut(s) 167
Bsp143I GATC 3 cut(s) 552, 657, 696
BspACI CCGC 2 cut(s) 62, 155
BspCNI CTCAG 3 cut(s) 282, 511, 724
BspFNI CGCG 1 cut(s) 23
BspLI GGNNCC 1 cut(s) 698
BspPI GGATC 2 cut(s) 691, 704
BspT104I TTCGAA 1 cut(s) 167
BsrDI GCAATG 1 cut(s) 216
BsrI ACTGG 3 cut(s) 28, 88, 803
BssMI GATC 3 cut(s) 552, 657, 696
Bst4CI ACNGT 2 cut(s) 409, 743
BstAPI GCANNNNNTGC 1 cut(s) 356
BstBI TTCGAA 1 cut(s) 167
BstDEI CTNAG 3 cut(s) 290, 519, 711
BstF5I GGATG 3 cut(s) 229, 309, 580
BstFNI CGCG 1 cut(s) 23
BstHHI GCGC 1 cut(s) 23
BstKTI GATC 3 cut(s) 555, 660, 699
BstMAI GTCTC 2 cut(s) 74, 732
BstMBI GATC 3 cut(s) 552, 657, 696
BstMWI GCNNNNNNNGC 4 cut(s) 356, 365, 374, 677
BstUI CGCG 1 cut(s) 23
BstV1I GCAGC 3 cut(s) 81, 103, 667
BstV2I GAAGAC 1 cut(s) 744
BstX2I RGATCY 1 cut(s) 696
BstYI RGATCY 1 cut(s) 696
BtsCI GGATG 3 cut(s) 229, 309, 580
CfoI GCGC 1 cut(s) 23
Csp6I GTAC 1 cut(s) 466
CviAII CATG 2 cut(s) 181, 707
CviQI GTAC 1 cut(s) 466
DdeI CTNAG 3 cut(s) 290, 519, 711
DpnI GATC 3 cut(s) 554, 659, 698
DpnII GATC 3 cut(s) 552, 657, 696
DraI TTTAAA 1 cut(s) 498
EciI GGCGGA 1 cut(s) 170
FaeI CATG 2 cut(s) 184, 710
FaiI YATR 9 cut(s) 161, 182, 258, 336, 464, 485, 564, 708, 770
FalI AAGNNNNNCTT 4 cut(s) 669, 701, 713, 745
FatI CATG 2 cut(s) 180, 706
FbaI TGATCA 2 cut(s) 552, 657
Fnu4HI GCNGC 3 cut(s) 92, 95, 681
FokI GGATG 3 cut(s) 236, 316, 587
Fsp4HI GCNGC 3 cut(s) 92, 95, 681
FspBI CTAG 4 cut(s) 345, 651, 761, 834
GlaI GCGC 1 cut(s) 22
GluI GCNGC 3 cut(s) 92, 95, 681
GsaI CCCAGC 1 cut(s) 15
HhaI GCGC 1 cut(s) 23
Hin1II CATG 2 cut(s) 184, 710
Hin6I GCGC 1 cut(s) 21
HinP1I GCGC 1 cut(s) 21
HincII GTYRAC 2 cut(s) 514, 607
HindII GTYRAC 2 cut(s) 514, 607
HinfI GANTC 1 cut(s) 278
HphI GGTGA 1 cut(s) 491
Hpy166II GTNNAC 4 cut(s) 237, 514, 607, 642
Hpy188I TCNGA 3 cut(s) 53, 300, 552
Hpy188III TCNNGA 2 cut(s) 568, 583
Hpy8I GTNNAC 4 cut(s) 237, 514, 607, 642
Hpy99I CGWCG 1 cut(s) 409
HpyAV CCTTC 2 cut(s) 367, 580
HpyCH4III ACNGT 2 cut(s) 409, 743
HpyCH4V TGCA 7 cut(s) 35, 41, 97, 260, 350, 368, 683
HpyF10VI GCNNNNNNNGC 4 cut(s) 356, 365, 374, 677
HpyF3I CTNAG 3 cut(s) 290, 519, 711
Hsp92II CATG 2 cut(s) 184, 710
HspAI GCGC 1 cut(s) 21
Ksp22I TGATCA 2 cut(s) 552, 657
Kzo9I GATC 3 cut(s) 552, 657, 696
LpnPI CCDG 7 cut(s) 41, 69, 440, 462, 531, 698, 816
Lsp1109I GCAGC 3 cut(s) 81, 103, 667
LweI GCATC 1 cut(s) 214
MaeI CTAG 4 cut(s) 345, 651, 761, 834
MaeIII GTNAC 1 cut(s) 146
MalI GATC 3 cut(s) 554, 659, 698
MboI GATC 3 cut(s) 552, 657, 696
MboII GAAGA 1 cut(s) 744
MflI RGATCY 1 cut(s) 696
MluCI AATT 2 cut(s) 113, 169
MlyI GAGTC 1 cut(s) 287
MmeI TCCRAC 1 cut(s) 724
MnlI CCTC 7 cut(s) 81, 181, 199, 294, 427, 556, 609
MroXI GAANNNNTTC 1 cut(s) 781
MseI TTAA 3 cut(s) 309, 497, 726
MspA1I CMGCKG 1 cut(s) 94
Mva1269I GAATGC 1 cut(s) 97
MvnI CGCG 1 cut(s) 23
MwoI GCNNNNNNNGC 4 cut(s) 356, 365, 374, 677
NdeII GATC 3 cut(s) 552, 657, 696
NlaIII CATG 2 cut(s) 184, 710
NlaIV GGNNCC 1 cut(s) 698
NspV TTCGAA 1 cut(s) 167
PcsI WCGNNNNNNNCGW 1 cut(s) 239
PctI GAATGC 1 cut(s) 97
PdmI GAANNNNTTC 1 cut(s) 781
PkrI GCNGC 3 cut(s) 93, 96, 682
PleI GAGTC 1 cut(s) 286
PpsI GAGTC 1 cut(s) 286
PshBI ATTAAT 1 cut(s) 309
PspFI CCCAGC 1 cut(s) 11
PspN4I GGNNCC 1 cut(s) 698
PsuI RGATCY 1 cut(s) 696
PvuII CAGCTG 1 cut(s) 94
RsaI GTAC 1 cut(s) 467
RsaNI GTAC 1 cut(s) 466
SaqAI TTAA 3 cut(s) 309, 497, 726
SatI GCNGC 3 cut(s) 92, 95, 681
Sau3AI GATC 3 cut(s) 552, 657, 696
SchI GAGTC 1 cut(s) 287
SfaNI GCATC 1 cut(s) 214
SfuI TTCGAA 1 cut(s) 167
Sse9I AATT 2 cut(s) 113, 169
SsiI CCGC 2 cut(s) 62, 155
SspI AATATT 1 cut(s) 532
SspMI CTAG 4 cut(s) 345, 651, 761, 834
TaaI ACNGT 2 cut(s) 409, 743
TaqI TCGA 8 cut(s) 167, 204, 242, 404, 470, 567, 582, 775
TasI AATT 2 cut(s) 113, 169
TatI WGTACW 1 cut(s) 465
Tru1I TTAA 3 cut(s) 309, 497, 726
Tru9I TTAA 3 cut(s) 309, 497, 726
TseI GCWGC 3 cut(s) 91, 94, 680
TspDTI ATGAA 5 cut(s) 169, 389, 591, 695, 774
TspGWI ACGGA 1 cut(s) 788
VspI ATTAAT 1 cut(s) 309
XmnI GAANNNNTTC 1 cut(s) 781
XspI CTAG 4 cut(s) 345, 651, 761, 834
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.