Rorug02G0110600

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0011923
Physical Location & Seq
Forward (+)
9484824 .. 9487583
2760 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug02G0110600.1

Sequence Viewer

Length: 726 bp
ATGTTAATTCTTGGGTCGGATAGGATAATTTACAGGCCCAACTATAAAGCGTGTAGTATTTTAAAAGAAACATCAACACGTCTGTGTTCACAGACGGACGGTGGCCGCACAAAACCAACTCAAAGTGAAGAGGCATTCGAAATCCGCGACGAGGCAGAAGAAGCTGTAGGTACAGATCCCATGGGTGAGGTGGCGGAAACCCTATCGGAGCACCGAATCTCGGCCGCAGCTCCGGTCATCTTCCTGATCGTCGTCGCTTTCCAGTTCGTCTCTAGGTGGCTCGAACAGTTAAAGCAGAGAGGACCAAAGACTGCTGAGGAAACTCGGCTGCGGAGAGAGATCAAAGAGCTTTTGAAAGAGGCAAGCTCCTTGTCACAGCCATCAACATTTGCACAGGCTGCAAAACTTAGGAGGATGGCAACTGCTAAGGAGAAAGAACTTGCAAACTATCAAGAGTTACATGGCAAGGAGATAAAGGGTTCATATGATTTGTATCTGAAAGTTTTGTTCATCTCCAAGGTCTTGACATATCTTGTGCTGGTTTGCTGGTTTTGGAGGGTTCCAGTTGCCTCTATATCACAACAACTGCTTCAACCCTTTGGGAAGGTGATATCATGGAGGGCTGGAGGAGGAGTATTAAACGGAAATGTTATGGTGGGAATTGTTCCTTGGTTGATATTGTCTACCAGGGTGAGCAAATTTGTCTGTCGACTCTTCAAGTTCTAG

Protein Analysis

241

Amino Acids

27.24

Weight (kDa)

9.45

Isoelectric Point (pI)

42.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
CHD5 PF04420 89 - 226 9.4e-08 CHD5-like protein
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: OG0011923)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G66631
fragaria_vesca FvH4_1g14280 FvH4_2g07140
malus_domestica MD02G1156600.v1.1 MD15G1270900.v1.1
prunus_persica Prupe.7G147200_v2.0.a1
pyrus_communis pycom15g23480
rosa_chinensis RchiOBHm_Chr2g0102871 RchiOBHm_Chr2g0102951
rosa_laevigata RLG00000017190
rosa_multiflora Rmu_sc0000388.1_g000043
rosa_roxburghii Rroxscaffold_2G00140070 Rroxscaffold_2G00140200
rosa_rugosa Rorug02G0110600
rosa_samantha Rh2AG158900 Rh2BG165300 Rh2CG165500 Rh2DG164100
rosa_wichuraiana Rw2G012420

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 683, 709
AccII CGCG 1 cut(s) 147
AciI CCGC 5 cut(s) 106, 145, 194, 225, 331
AclWI GGATC 1 cut(s) 170
AcoI YGGCCR 2 cut(s) 103, 222
AcsI RAATTY 1 cut(s) 698
AfaI GTAC 1 cut(s) 172
AfiI CCNNNNNNNGG 2 cut(s) 151, 220
AflIII ACRYGT 1 cut(s) 77
AgsI TTSAA 3 cut(s) 355, 593, 718
AjiI CACGTC 1 cut(s) 80
AjnI CCWGG 1 cut(s) 686
AjuI GAANNNNNNNTTGG 2 cut(s) 652, 684
AleI CACNNNNGTG 1 cut(s) 82
AluBI AGCT 4 cut(s) 164, 230, 349, 366
AluI AGCT 4 cut(s) 164, 230, 349, 366
Alw21I GWGCWC 1 cut(s) 213
Alw26I GTCTC 1 cut(s) 274
AlwI GGATC 1 cut(s) 170
AoxI GGCC 3 cut(s) 35, 103, 222
ApeKI GCWGC 3 cut(s) 227, 328, 398
ApoI RAATTY 1 cut(s) 698
AspS9I GGNCC 2 cut(s) 36, 302
AsuHPI GGTGA 3 cut(s) 197, 619, 703
AsuII TTCGAA 1 cut(s) 138
AvaII GGWCC 1 cut(s) 302
Bbv12I GWGCWC 1 cut(s) 213
BbvCI CCTCAGC 1 cut(s) 315
BbvI GCAGC 3 cut(s) 239, 315, 385
BccI CCATC 2 cut(s) 388, 409
BciT130I CCWGG 1 cut(s) 688
BcoDI GTCTC 1 cut(s) 274
BfaI CTAG 2 cut(s) 273, 724
BfmI CTRYAG 1 cut(s) 165
BisI GCNGC 5 cut(s) 106, 225, 228, 329, 399
BlsI GCNGC 5 cut(s) 107, 226, 229, 330, 400
Bme1390I CCNGG 1 cut(s) 688
Bme18I GGWCC 1 cut(s) 302
BmgBI CACGTC 1 cut(s) 80
BmgT120I GGNCC 2 cut(s) 36, 302
BmiI GGNNCC 1 cut(s) 561
BmrFI CCNGG 1 cut(s) 688
BplI GAGNNNNNCTC 2 cut(s) 350, 382
BpmI CTGGAG 1 cut(s) 645
Bpu10I CCTNAGC 2 cut(s) 315, 426
Bpu14I TTCGAA 1 cut(s) 138
BsaBI GATNNNNATC 1 cut(s) 492
BsaJI CCNNGG 4 cut(s) 180, 516, 668, 687
BsaWI WCCGGW 1 cut(s) 232
BsaXI ACNNNNNCTCC 2 cut(s) 618, 648
Bsc4I CCNNNNNNNGG 2 cut(s) 151, 220
Bse1I ACTGG 2 cut(s) 262, 563
Bse8I GATNNNNATC 1 cut(s) 492
BseBI CCWGG 1 cut(s) 688
BseDI CCNNGG 4 cut(s) 180, 516, 668, 687
BseGI GGATG 1 cut(s) 420
BseJI GATNNNNATC 1 cut(s) 492
BseLI CCNNNNNNNGG 2 cut(s) 151, 220
BseMII CTCAG 1 cut(s) 306
BseNI ACTGG 2 cut(s) 262, 563
BseRI GAGGAG 2 cut(s) 642, 645
BseX3I CGGCCG 1 cut(s) 222
BseXI GCAGC 3 cut(s) 239, 315, 385
Bsh1236I CGCG 1 cut(s) 147
Bsh1285I CGRYCG 1 cut(s) 225
BshFI GGCC 3 cut(s) 37, 105, 224
BsiEI CGRYCG 1 cut(s) 225
BsiHKAI GWGCWC 1 cut(s) 213
BsiSI CCGG 1 cut(s) 233
BslI CCNNNNNNNGG 2 cut(s) 151, 220
BsmAI GTCTC 1 cut(s) 274
BsmBI CGTCTC 1 cut(s) 274
BsmI GAATGC 1 cut(s) 134
BsnI GGCC 3 cut(s) 37, 105, 224
Bsp119I TTCGAA 1 cut(s) 138
Bsp1286I GDGCHC 1 cut(s) 213
Bsp143I GATC 3 cut(s) 175, 246, 339
Bsp19I CCATGG 1 cut(s) 180
BspACI CCGC 5 cut(s) 106, 145, 194, 225, 331
BspANI GGCC 3 cut(s) 37, 105, 224
BspCNI CTCAG 1 cut(s) 307
BspFNI CGCG 1 cut(s) 147
BspLI GGNNCC 1 cut(s) 561
BspPI GGATC 1 cut(s) 170
BspT104I TTCGAA 1 cut(s) 138
BsrI ACTGG 2 cut(s) 262, 563
BssECI CCNNGG 4 cut(s) 180, 516, 668, 687
BssMI GATC 3 cut(s) 175, 246, 339
BssT1I CCWWGG 3 cut(s) 180, 516, 668
Bst2UI CCWGG 1 cut(s) 688
Bst4CI ACNGT 2 cut(s) 101, 288
Bst6I CTCTTC 2 cut(s) 123, 719
BstAPI GCANNNNNTGC 1 cut(s) 398
BstBI TTCGAA 1 cut(s) 138
BstC8I GCNNGC 1 cut(s) 364
BstDEI CTNAG 3 cut(s) 315, 407, 426
BstDSI CCRYGG 1 cut(s) 180
BstF5I GGATG 1 cut(s) 420
BstFNI CGCG 1 cut(s) 147
BstKTI GATC 3 cut(s) 178, 249, 342
BstMAI GTCTC 1 cut(s) 274
BstMBI GATC 3 cut(s) 175, 246, 339
BstMCI CGRYCG 1 cut(s) 225
BstMWI GCNNNNNNNGC 2 cut(s) 161, 398
BstNI CCWGG 1 cut(s) 688
BstSCI CCNGG 1 cut(s) 686
BstSFI CTRYAG 1 cut(s) 165
BstUI CGCG 1 cut(s) 147
BstV1I GCAGC 3 cut(s) 239, 315, 385
BstX2I RGATCY 1 cut(s) 175
BstYI RGATCY 1 cut(s) 175
BstZI CGGCCG 1 cut(s) 222
BsuRI GGCC 3 cut(s) 37, 105, 224
BtgI CCRYGG 1 cut(s) 180
BtrI CACGTC 1 cut(s) 80
BtsCI GGATG 1 cut(s) 420
Cac8I GCNNGC 1 cut(s) 364
Cfr13I GGNCC 2 cut(s) 36, 302
Csp6I GTAC 1 cut(s) 171
CviAII CATG 3 cut(s) 181, 461, 615
CviQI GTAC 1 cut(s) 171
DdeI CTNAG 3 cut(s) 315, 407, 426
DpnI GATC 3 cut(s) 177, 248, 341
DpnII GATC 3 cut(s) 175, 246, 339
DraI TTTAAA 1 cut(s) 63
EaeI YGGCCR 2 cut(s) 103, 222
EagI CGGCCG 1 cut(s) 222
Eam1104I CTCTTC 2 cut(s) 123, 719
EarI CTCTTC 2 cut(s) 123, 719
EciI GGCGGA 1 cut(s) 209
EclXI CGGCCG 1 cut(s) 222
Eco130I CCWWGG 3 cut(s) 180, 516, 668
Eco32I GATATC 1 cut(s) 612
Eco47I GGWCC 1 cut(s) 302
Eco52I CGGCCG 1 cut(s) 222
EcoRII CCWGG 1 cut(s) 686
EcoRV GATATC 1 cut(s) 612
EcoT14I CCWWGG 3 cut(s) 180, 516, 668
ErhI CCWWGG 3 cut(s) 180, 516, 668
Esp3I CGTCTC 1 cut(s) 274
FaeI CATG 3 cut(s) 184, 464, 618
FaiI YATR 9 cut(s) 45, 182, 462, 484, 486, 529, 575, 616, 653
FatI CATG 3 cut(s) 180, 460, 614
FauNDI CATATG 1 cut(s) 484
FblI GTMKAC 2 cut(s) 683, 709
Fnu4HI GCNGC 5 cut(s) 106, 225, 228, 329, 399
FokI GGATG 1 cut(s) 427
Fsp4HI GCNGC 5 cut(s) 106, 225, 228, 329, 399
FspBI CTAG 2 cut(s) 273, 724
GluI GCNGC 5 cut(s) 106, 225, 228, 329, 399
GsuI CTGGAG 1 cut(s) 645
HaeIII GGCC 3 cut(s) 37, 105, 224
HapII CCGG 1 cut(s) 233
Hin1II CATG 3 cut(s) 184, 464, 618
HincII GTYRAC 1 cut(s) 710
HindII GTYRAC 1 cut(s) 710
HinfI GANTC 2 cut(s) 216, 711
HpaII CCGG 1 cut(s) 233
HphI GGTGA 3 cut(s) 197, 619, 703
Hpy166II GTNNAC 3 cut(s) 89, 684, 710
Hpy188I TCNGA 3 cut(s) 19, 208, 498
Hpy188III TCNNGA 3 cut(s) 244, 452, 523
Hpy8I GTNNAC 3 cut(s) 89, 684, 710
Hpy99I CGWCG 3 cut(s) 152, 254, 257
HpyAV CCTTC 1 cut(s) 598
HpyCH4III ACNGT 2 cut(s) 101, 288
HpyCH4IV ACGT 1 cut(s) 79
HpyCH4V TGCA 3 cut(s) 392, 401, 443
HpyF10VI GCNNNNNNNGC 2 cut(s) 161, 398
HpyF3I CTNAG 3 cut(s) 315, 407, 426
HpySE526I ACGT 1 cut(s) 79
Hsp92II CATG 3 cut(s) 184, 464, 618
Kzo9I GATC 3 cut(s) 175, 246, 339
LmnI GCTCC 3 cut(s) 208, 235, 371
Lsp1109I GCAGC 3 cut(s) 239, 315, 385
MaeI CTAG 2 cut(s) 273, 724
MaeII ACGT 1 cut(s) 79
MaeIII GTNAC 2 cut(s) 372, 456
MalI GATC 3 cut(s) 177, 248, 341
MboI GATC 3 cut(s) 175, 246, 339
MboII GAAGA 4 cut(s) 140, 170, 232, 706
MflI RGATCY 1 cut(s) 175
MhlI GDGCHC 1 cut(s) 213
MluCI AATT 4 cut(s) 6, 27, 660, 698
MlyI GAGTC 1 cut(s) 705
MseI TTAA 4 cut(s) 5, 62, 290, 638
MslI CAYNNNNRTG 1 cut(s) 82
MspI CCGG 1 cut(s) 233
MspR9I CCNGG 1 cut(s) 688
Mva1269I GAATGC 1 cut(s) 134
MvaI CCWGG 1 cut(s) 688
MvnI CGCG 1 cut(s) 147
MwoI GCNNNNNNNGC 2 cut(s) 161, 398
NcoI CCATGG 1 cut(s) 180
NdeI CATATG 1 cut(s) 484
NdeII GATC 3 cut(s) 175, 246, 339
NlaIII CATG 3 cut(s) 184, 464, 618
NlaIV GGNNCC 1 cut(s) 561
NmeAIII GCCGAG 2 cut(s) 200, 304
NmuCI GTSAC 1 cut(s) 372
NspV TTCGAA 1 cut(s) 138
OliI CACNNNNGTG 1 cut(s) 82
PcsI WCGNNNNNNNCGW 1 cut(s) 144
PctI GAATGC 1 cut(s) 134
PfeI GAWTC 1 cut(s) 216
PkrI GCNGC 5 cut(s) 107, 226, 229, 330, 400
PleI GAGTC 1 cut(s) 705
PpsI GAGTC 1 cut(s) 705
Psp6I CCWGG 1 cut(s) 686
PspGI CCWGG 1 cut(s) 686
PspN4I GGNNCC 1 cut(s) 561
PspPI GGNCC 2 cut(s) 36, 302
PsuI RGATCY 1 cut(s) 175
RsaI GTAC 1 cut(s) 172
RsaNI GTAC 1 cut(s) 171
RseI CAYNNNNRTG 1 cut(s) 82
SalI GTCGAC 1 cut(s) 708
SaqAI TTAA 4 cut(s) 5, 62, 290, 638
SatI GCNGC 5 cut(s) 106, 225, 228, 329, 399
Sau3AI GATC 3 cut(s) 175, 246, 339
Sau96I GGNCC 2 cut(s) 36, 302
SchI GAGTC 1 cut(s) 705
ScrFI CCNGG 1 cut(s) 688
SduI GDGCHC 1 cut(s) 213
SfcI CTRYAG 1 cut(s) 165
SfuI TTCGAA 1 cut(s) 138
SinI GGWCC 1 cut(s) 302
SmiMI CAYNNNNRTG 1 cut(s) 82
Sse9I AATT 4 cut(s) 6, 27, 660, 698
SsiI CCGC 5 cut(s) 106, 145, 194, 225, 331
SspMI CTAG 2 cut(s) 273, 724
StyD4I CCNGG 1 cut(s) 686
StyI CCWWGG 3 cut(s) 180, 516, 668
TaaI ACNGT 2 cut(s) 101, 288
TaiI ACGT 1 cut(s) 82
TaqI TCGA 3 cut(s) 138, 282, 709
TasI AATT 4 cut(s) 6, 27, 660, 698
TauI GCSGC 2 cut(s) 108, 227
TfiI GAWTC 1 cut(s) 216
Tru1I TTAA 4 cut(s) 5, 62, 290, 638
Tru9I TTAA 4 cut(s) 5, 62, 290, 638
TseFI GTSAC 1 cut(s) 372
TseI GCWGC 3 cut(s) 227, 328, 398
Tsp45I GTSAC 1 cut(s) 372
TspDTI ATGAA 2 cut(s) 471, 499
TspGWI ACGGA 2 cut(s) 110, 657
VpaK11BI GGWCC 1 cut(s) 302
XapI RAATTY 1 cut(s) 698
XcmI CCANNNNNNNNNTGG 1 cut(s) 187
XmiI GTMKAC 2 cut(s) 683, 709
XspI CTAG 2 cut(s) 273, 724
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.