RchiOBHm_Chr3g0473261

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
3
OG0019398
Physical Location & Seq
Reverse (-)
19162077 .. 19162868
792 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ43894

Sequence Viewer

Length: 747 bp
ATGGTCCTGGCAGGAGTGAAACCAAATGCAATAACATTTATCAGTCTTTTTACAGGTTGTAGCCATTCTGGATTGGTAGAGGAAGGTTTAAAGTACTTTTACTCTGTAGAGAAAACATATGGCATGGTACCTAGAGCTGGACATTACTTTTGCGTTATTGATTTACTTGGCTGGGCTGGAAGGCTTGAAGAGGCCAAAGAATTCATTAACAGCATGCCAATGCAGCCAAATGCTTTTGGGTGGGGCAAACTGGCAGCGGAGAAATTGATACAGCTTGAACCTGAGAATAGTGGAGCACATGTTTTTCTTTCAACTTTACATGCAAAGGAGCAAAAATGGGAAGATTTCAGAAGTGTGAGGAAGATGATGAGAGACAGCAGCATGAAAAAATTGCCTGGTTATAGTTGGGTTGATGTTGGAAACAAAACACACGTGTTTGGAGCCGAAGATTGGTCTCATCCTCAGAAGAAAGAAATATATGAGACACTTGATAGTCTTCTTGATCAGATCAAGAAAGCTGGACATGTTCCAAATACAGATCTTGTTCTACATGATATGGACGACAATTCAAAGGTAGAGCTTCTTCACCATCATAGTGGGAGGATTGCAATTGCATTCGCATTGATAAGTATGCCTGCCGGGAAGCCAATCATTGTGAAGACAAATATAAGGGTGTGCTTGGATTGCCATTCTGCAATCAAGTACGTTTCCTTGGTTGTGTCTCCTTGGTTGTTGGAAGAAAGATAA
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

248

Amino Acids

27.94

Weight (kDa)

6.86

Isoelectric Point (pI)

31.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
E_motif PF20431 82 - 138 1.2e-13 E motif
Eplus_motif PF20430 143 - 170 7e-08 E+ motif
DYW_deaminase PF14432 174 - 240 4.7e-20 DYW family of nucleic acid deaminases
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0019398)

Species Orthologous Gene IDs
rosa_chinensis RchiOBHm_Chr3g0473261 RchiOBHm_Chr3g0473321
rosa_laevigata RLG00000024008
rosa_multiflora Rmu_sc0000908.1_g000015
rosa_roxburghii Rroxscaffold_6G00408160
rosa_samantha Rh3BG210600 Rh3BG210900 Rh3DG207800

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 127
AccB1I GGYRCC 1 cut(s) 127
AciI CCGC 1 cut(s) 257
AcsI RAATTY 1 cut(s) 200
AcvI CACGTG 1 cut(s) 433
AfaI GTAC 3 cut(s) 95, 129, 704
AfiI CCNNNNNNNGG 2 cut(s) 137, 450
AflIII ACRYGT 4 cut(s) 298, 430, 432, 523
AgsI TTSAA 4 cut(s) 188, 278, 312, 570
AjnI CCWGG 2 cut(s) 6, 394
AluBI AGCT 4 cut(s) 137, 274, 518, 580
AluI AGCT 4 cut(s) 137, 274, 518, 580
Alw21I GWGCWC 1 cut(s) 298
Alw26I GTCTC 4 cut(s) 366, 459, 476, 726
AoxI GGCC 1 cut(s) 192
ApeKI GCWGC 3 cut(s) 223, 254, 378
ApoI RAATTY 1 cut(s) 200
ArsI GACNNNNNNTTYG 2 cut(s) 132, 164
Asp718I GGTACC 1 cut(s) 127
AspS9I GGNCC 1 cut(s) 4
AsuC2I CCSGG 1 cut(s) 640
AsuHPI GGTGA 1 cut(s) 578
AvaII GGWCC 1 cut(s) 4
BanI GGYRCC 1 cut(s) 127
BarI GAAGNNNNNNTAC 2 cut(s) 567, 599
BbrPI CACGTG 1 cut(s) 433
BbsI GAAGAC 2 cut(s) 488, 665
Bbv12I GWGCWC 1 cut(s) 298
BbvI GCAGC 3 cut(s) 235, 266, 390
BccI CCATC 1 cut(s) 597
BciT130I CCWGG 2 cut(s) 8, 396
BclI TGATCA 1 cut(s) 502
BcnI CCSGG 1 cut(s) 640
BcoDI GTCTC 4 cut(s) 366, 459, 476, 726
BfaI CTAG 1 cut(s) 132
BfmI CTRYAG 1 cut(s) 105
BglII AGATCT 1 cut(s) 538
BisI GCNGC 3 cut(s) 224, 255, 379
BlsI GCNGC 3 cut(s) 225, 256, 380
BmcAI AGTACT 1 cut(s) 95
Bme1390I CCNGG 3 cut(s) 8, 396, 640
Bme18I GGWCC 1 cut(s) 4
BmgT120I GGNCC 1 cut(s) 4
BmiI GGNNCC 2 cut(s) 129, 442
BmrFI CCNGG 3 cut(s) 8, 396, 640
BpiI GAAGAC 2 cut(s) 488, 665
BpuMI CCSGG 1 cut(s) 640
BsaAI YACGTR 1 cut(s) 433
BsaI GGTCTC 1 cut(s) 459
BsaJI CCNNGG 2 cut(s) 711, 725
BsaXI ACNNNNNCTCC 2 cut(s) 285, 315
Bsc4I CCNNNNNNNGG 2 cut(s) 137, 450
Bse1I ACTGG 1 cut(s) 255
BseBI CCWGG 2 cut(s) 8, 396
BseDI CCNNGG 2 cut(s) 711, 725
BseGI GGATG 1 cut(s) 457
BseLI CCNNNNNNNGG 2 cut(s) 137, 450
BseMII CTCAG 2 cut(s) 273, 476
BseNI ACTGG 1 cut(s) 255
BseXI GCAGC 3 cut(s) 235, 266, 390
BseYI CCCAGC 1 cut(s) 171
BshFI GGCC 1 cut(s) 194
BshNI GGYRCC 1 cut(s) 127
BsiHKAI GWGCWC 1 cut(s) 298
BsiSI CCGG 1 cut(s) 639
BslI CCNNNNNNNGG 2 cut(s) 137, 450
BsmAI GTCTC 4 cut(s) 366, 459, 476, 726
BsmI GAATGC 1 cut(s) 614
BsnI GGCC 1 cut(s) 194
Bso31I GGTCTC 1 cut(s) 459
Bsp1286I GDGCHC 1 cut(s) 298
Bsp143I GATC 3 cut(s) 502, 507, 538
BspACI CCGC 1 cut(s) 257
BspANI GGCC 1 cut(s) 194
BspCNI CTCAG 2 cut(s) 274, 475
BspLI GGNNCC 2 cut(s) 129, 442
BspT107I GGYRCC 1 cut(s) 127
BspTNI GGTCTC 1 cut(s) 459
BsrI ACTGG 1 cut(s) 255
BssECI CCNNGG 2 cut(s) 711, 725
BssMI GATC 3 cut(s) 502, 507, 538
BssT1I CCWWGG 2 cut(s) 711, 725
Bst2UI CCWGG 2 cut(s) 8, 396
Bst6I CTCTTC 1 cut(s) 183
BstBAI YACGTR 1 cut(s) 433
BstC8I GCNNGC 2 cut(s) 215, 636
BstDEI CTNAG 2 cut(s) 282, 462
BstF5I GGATG 1 cut(s) 457
BstKTI GATC 3 cut(s) 505, 510, 541
BstMAI GTCTC 4 cut(s) 366, 459, 476, 726
BstMBI GATC 3 cut(s) 502, 507, 538
BstMWI GCNNNNNNNGC 2 cut(s) 223, 684
BstNI CCWGG 2 cut(s) 8, 396
BstNSI RCATGY 4 cut(s) 217, 302, 323, 527
BstSCI CCNGG 3 cut(s) 6, 394, 638
BstSFI CTRYAG 1 cut(s) 105
BstV1I GCAGC 3 cut(s) 235, 266, 390
BstV2I GAAGAC 2 cut(s) 488, 665
BstX2I RGATCY 1 cut(s) 538
BstXI CCANNNNNNTGG 1 cut(s) 596
BstYI RGATCY 1 cut(s) 538
BsuRI GGCC 1 cut(s) 194
BtsCI GGATG 1 cut(s) 457
Cac8I GCNNGC 2 cut(s) 215, 636
Cfr13I GGNCC 1 cut(s) 4
Csp6I GTAC 3 cut(s) 94, 128, 703
CviAII CATG 7 cut(s) 124, 214, 299, 320, 382, 524, 551
CviQI GTAC 3 cut(s) 94, 128, 703
DdeI CTNAG 2 cut(s) 282, 462
DpnI GATC 3 cut(s) 504, 509, 540
DpnII GATC 3 cut(s) 502, 507, 538
DraI TTTAAA 1 cut(s) 90
Eam1104I CTCTTC 1 cut(s) 183
EarI CTCTTC 1 cut(s) 183
Eco130I CCWWGG 2 cut(s) 711, 725
Eco31I GGTCTC 1 cut(s) 459
Eco47I GGWCC 1 cut(s) 4
Eco72I CACGTG 1 cut(s) 433
EcoRI GAATTC 1 cut(s) 200
EcoRII CCWGG 2 cut(s) 6, 394
EcoT14I CCWWGG 2 cut(s) 711, 725
ErhI CCWWGG 2 cut(s) 711, 725
FaeI CATG 7 cut(s) 127, 217, 302, 323, 385, 527, 554
FatI CATG 7 cut(s) 123, 213, 298, 319, 381, 523, 550
FauNDI CATATG 1 cut(s) 118
FbaI TGATCA 1 cut(s) 502
Fnu4HI GCNGC 3 cut(s) 224, 255, 379
FokI GGATG 1 cut(s) 444
Fsp4HI GCNGC 3 cut(s) 224, 255, 379
FspBI CTAG 1 cut(s) 132
GluI GCNGC 3 cut(s) 224, 255, 379
GsaI CCCAGC 1 cut(s) 175
HaeIII GGCC 1 cut(s) 194
HapII CCGG 1 cut(s) 639
Hin1II CATG 7 cut(s) 127, 217, 302, 323, 385, 527, 554
HpaII CCGG 1 cut(s) 639
HphI GGTGA 1 cut(s) 578
Hpy188I TCNGA 3 cut(s) 350, 465, 507
Hpy188III TCNNGA 3 cut(s) 69, 500, 511
HpyAV CCTTC 2 cut(s) 77, 174
HpyCH4IV ACGT 2 cut(s) 432, 705
HpyCH4V TGCA 6 cut(s) 29, 223, 323, 608, 614, 695
HpyF10VI GCNNNNNNNGC 2 cut(s) 223, 684
HpyF3I CTNAG 2 cut(s) 282, 462
HpySE526I ACGT 2 cut(s) 432, 705
Hsp92II CATG 7 cut(s) 127, 217, 302, 323, 385, 527, 554
KpnI GGTACC 1 cut(s) 131
Ksp22I TGATCA 1 cut(s) 502
Kzo9I GATC 3 cut(s) 502, 507, 538
LmnI GCTCC 3 cut(s) 293, 328, 440
Lsp1109I GCAGC 3 cut(s) 235, 266, 390
MaeI CTAG 1 cut(s) 132
MaeII ACGT 2 cut(s) 432, 705
MalI GATC 3 cut(s) 504, 509, 540
MboI GATC 3 cut(s) 502, 507, 538
MboII GAAGA 8 cut(s) 200, 353, 373, 458, 478, 488, 575, 670
MfeI CAATTG 1 cut(s) 609
MflI RGATCY 1 cut(s) 538
MhlI GDGCHC 1 cut(s) 298
MluCI AATT 5 cut(s) 200, 263, 389, 565, 609
MmeI TCCRAC 2 cut(s) 397, 714
MnlI CCTC 5 cut(s) 73, 184, 351, 471, 594
MseI TTAA 2 cut(s) 89, 207
MslI CAYNNNNRTG 2 cut(s) 218, 594
MspA1I CMGCKG 1 cut(s) 257
MspI CCGG 1 cut(s) 639
MspR9I CCNGG 3 cut(s) 8, 396, 640
MunI CAATTG 1 cut(s) 609
Mva1269I GAATGC 1 cut(s) 614
MvaI CCWGG 2 cut(s) 8, 396
MwoI GCNNNNNNNGC 2 cut(s) 223, 684
NciI CCSGG 1 cut(s) 640
NdeI CATATG 1 cut(s) 118
NdeII GATC 3 cut(s) 502, 507, 538
NlaIII CATG 7 cut(s) 127, 217, 302, 323, 385, 527, 554
NlaIV GGNNCC 2 cut(s) 129, 442
NspI RCATGY 4 cut(s) 217, 302, 323, 527
PaeI GCATGC 1 cut(s) 217
PciI ACATGT 2 cut(s) 298, 523
PctI GAATGC 1 cut(s) 614
PkrI GCNGC 3 cut(s) 225, 256, 380
PmaCI CACGTG 1 cut(s) 433
PmlI CACGTG 1 cut(s) 433
Ppu21I YACGTR 1 cut(s) 433
PscI ACATGT 2 cut(s) 298, 523
Psp6I CCWGG 2 cut(s) 6, 394
PspCI CACGTG 1 cut(s) 433
PspFI CCCAGC 1 cut(s) 171
PspGI CCWGG 2 cut(s) 6, 394
PspN4I GGNNCC 2 cut(s) 129, 442
PspPI GGNCC 1 cut(s) 4
PsuI RGATCY 1 cut(s) 538
RsaI GTAC 3 cut(s) 95, 129, 704
RsaNI GTAC 3 cut(s) 94, 128, 703
RseI CAYNNNNRTG 2 cut(s) 218, 594
SaqAI TTAA 2 cut(s) 89, 207
SatI GCNGC 3 cut(s) 224, 255, 379
Sau3AI GATC 3 cut(s) 502, 507, 538
Sau96I GGNCC 1 cut(s) 4
ScaI AGTACT 1 cut(s) 95
ScrFI CCNGG 3 cut(s) 8, 396, 640
SduI GDGCHC 1 cut(s) 298
SfcI CTRYAG 1 cut(s) 105
SinI GGWCC 1 cut(s) 4
SmiMI CAYNNNNRTG 2 cut(s) 218, 594
SphI GCATGC 1 cut(s) 217
Sse9I AATT 5 cut(s) 200, 263, 389, 565, 609
SsiI CCGC 1 cut(s) 257
SspMI CTAG 1 cut(s) 132
StyD4I CCNGG 3 cut(s) 6, 394, 638
StyI CCWWGG 2 cut(s) 711, 725
TaiI ACGT 2 cut(s) 435, 708
TasI AATT 5 cut(s) 200, 263, 389, 565, 609
TatI WGTACW 1 cut(s) 93
Tru1I TTAA 2 cut(s) 89, 207
Tru9I TTAA 2 cut(s) 89, 207
TseI GCWGC 3 cut(s) 223, 254, 378
TspDTI ATGAA 2 cut(s) 193, 398
VpaK11BI GGWCC 1 cut(s) 4
XapI RAATTY 1 cut(s) 200
XceI RCATGY 4 cut(s) 217, 302, 323, 527
XspI CTAG 1 cut(s) 132
ZrmI AGTACT 1 cut(s) 95
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.