Rorug02G0247400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0000216
Physical Location & Seq
Reverse (-)
25775140 .. 25781750
6611 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug02G0247400.1

Sequence Viewer

Length: 825 bp
ATGGAAGGATTCGAAGAATGGAAGAAACAGGCAGAGCAATGGTCATCTCAAGCATTGCAACAATGGAAGAAACAGGCAGAGCCATTATGGTCTCAAGCACATGAGTACATTCAGCAGGTTCCGCCTACTCAGATCTATGCTGCTCTTGCCATCTTGCTAGTAACCTCAGTTTTACTCTTATTAGGTAGGTTGTTCAAACGGCAAAAAGCTAATACCATATTGCTGAGTGGGCTTAGCGGGAGTGGAAAGACTGTTCTTTTCTATCAACTTCGGGATGGGTCTGCTCACCAAGGTACTGTGACATCAATGGAACCAAATGAGGGAACTTTTGTGCTCAATTCTGAAAAATCAAAGAATGGAAAGTTAAAGCCTGTGCATCTTGTTGATGTTCCTGGACATTCTCGTCTCAGACCCAAAGTAGATGAGTTCCTGCCTCAAGCAGCTGGTATAGTTTTTGTGGTGGATGCTTTGGAATTCTTACCAAACTTGCGTGCTGCTTCAGAGTACCTGTACGATCTTTTGACCAAGGCAAGTGTGGTGAAGAAGAAAATTCCCATTCTTATTCTCTGCAACAAGACAGACAAAGTGACAGCACATAGCAAGGAGTTCATTCGCAAACAATTGGAGAAGGAAATTGACAAATTACGGGCATCAAGGAGTGCAATATCAACAGCTGATATTGCAAATGACTTTACTCTTGGAGTACTTGGTGAACCATTTTCATTCACTCAGTGTCAGAACAAAGTTACAGTTGCAGAAGCTGCGGGTATTATAGGCGAGGTAGCTGAGGTGGAACGGTTCATCAGGGACCATGTAAAGTCTTAG
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

Protein Analysis

274

Amino Acids

30.54

Weight (kDa)

9.05

Isoelectric Point (pI)

32.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Arf PF00025 60 - 220 8.7e-18 ADP-ribosylation factor family
SRPRB PF09439 69 - 249 1.3e-34 Signal recognition particle receptor beta subunit
Gtr1_RagA PF04670 73 - 215 6.3e-07 Gtr1/RagA G protein conserved region
Roc PF08477 73 - 194 8.4e-06 Ras of Complex, Roc, domain of DAPkinase
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0000216)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G38860 AT5G38860
fragaria_vesca FvH4_2g24261 FvH4_2g24270 FvH4_3g35490 FvH4_6g03181 FvH4_6g03182 FvH4_6g03221 FvH4_6g03380 FvH4_6g05203 FvH4_6g31981 FvH4_6g32061 FvH4_6g37041 FvH4_6g39371 FvH4_6g45291 FvH4_6g45890 FvH4_6g46240 FvH4_6g46241 FvH4_6g46242 FvH4_6g46260 FvH4_6g46280 FvH4_6g46280 FvH4_6g46280 FvH4_6g46290 FvH4_6g46290 FvH4_6g46380
malus_domestica MD02G1008700.v1.1 MD02G1008900.v1.1 MD04G1180900.v1.1 MD04G1181200.v1.1 MD09G1075900.v1.1 MD09G1201600.v1.1 MD15G1017800.v1.1 MD17G1066600.v1.1
prunus_persica Prupe.1G509300_v2.0.a1 Prupe.1G509300_v2.0.a1 Prupe.1G509300_v2.0.a1 Prupe.1G509300_v2.0.a1 Prupe.1G509300_v2.0.a1 Prupe.1G509300_v2.0.a1 Prupe.1G509700_v2.0.a1 Prupe.1G510700_v2.0.a1 Prupe.1G510700_v2.0.a1 Prupe.1G512600_v2.0.a1 Prupe.3G059500_v2.0.a1 Prupe.3G059600_v2.0.a1 Prupe.3G248100_v2.0.a1 Prupe.3G248100_v2.0.a1 Prupe.3G248100_v2.0.a1 Prupe.3G248100_v2.0.a1 Prupe.6G076400_v2.0.a1
pyrus_communis pycom02g00750 pycom03g20320 pycom09g00330 pycom11g08760 pycom17g04880 pycom17g06710 pycom17g19130
rosa_chinensis RchiOBHm_Chr2g0123691 RchiOBHm_Chr2g0164671 RchiOBHm_Chr2g0164681 RchiOBHm_Chr2g0164721 RchiOBHm_Chr2g0164741 RchiOBHm_Chr6g0275871 RchiOBHm_Chr6g0276071 RchiOBHm_Chr6g0291931 RchiOBHm_Chr6g0292091 RchiOBHm_Chr6g0292271 RchiOBHm_Chr7g0221261
rosa_laevigata RLG00000002165 RLG00000007725 RLG00000012062 RLG00000012543 RLG00000013427 RLG00000021441 RLG00000021477 RLG00000021478 RLG00000021480 RLG00000021481
rosa_multiflora Rmu_co8220318.1_g000001 Rmu_co8427407.1_g000001 Rmu_sc0000946.1_g000006 Rmu_sc0000946.1_g000007 Rmu_sc0000946.1_g000010 Rmu_sc0000946.1_g000012 Rmu_sc0000946.1_g000013 Rmu_sc0002030.1_g000015 Rmu_sc0002870.1_g000002 Rmu_sc0003200.1_g000004 Rmu_sc0004915.1_g000002 Rmu_sc0004991.1_g000006 Rmu_sc0006928.1_g000020 Rmu_sc0007384.1_g000001 Rmu_sc0030722.1_g000001 Rmu_sc0030723.1_g000001 Rmu_ssc0000076.1_g000019 Rmu_ssc0000076.1_g000025 Rmu_ssc0000318.1_g000001
rosa_roxburghii Rroxscaffold_2G00086340 Rroxscaffold_2G00086360 Rroxscaffold_2G00086370 Rroxscaffold_2G00086380 Rroxscaffold_2G00086830 Rroxscaffold_2G00087380 Rroxscaffold_2G00120420 Rroxscaffold_7G00175260 Rroxscaffold_7G00175600 Rroxscaffold_7G00177970 Rroxscaffold_7G00192830
rosa_rugosa Rorug02G0247400 Rorug02G0506200 Rorug02G0508300 Rorug02G0509700 Rorug05G0378800 Rorug06G0096600 Rorug06G0096700 Rorug06G0221800
rosa_samantha Rh2AG577600 Rh2AG577700 Rh2AG577800 Rh2AG578000 Rh2AG578100 Rh2BG589200 Rh2CG559800 Rh2DG594400 Rh2DG594500 Rh2DG597800 Rh2DG599400 Rh2DG599500 Rh2DG599600 Rh6AG338400 Rh6BG211200 Rh6BG212600 Rh6BG342900 Rh6BG345600 Rh6CG214800 Rh6CG349100 Rh6CG350600 Rh6CG350700 Rh6CG352600 Rh7AG340800
rosa_wichuraiana Rw1G028590 Rw2G047980 Rw2G047990 Rw5G043360 Rw6G018180 Rw6G029200 Rw6G029450

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 402
Acc36I ACCTGC 1 cut(s) 106
AciI CCGC 3 cut(s) 122, 237, 764
AcsI RAATTY 2 cut(s) 473, 549
AcuI CTGAAG 1 cut(s) 483
AdeI CACNNNGTG 1 cut(s) 732
AfaI GTAC 5 cut(s) 107, 295, 506, 512, 705
AfiI CCNNNNNNNGG 1 cut(s) 320
AgsI TTSAA 1 cut(s) 196
AjnI CCWGG 1 cut(s) 391
AloI GAACNNNNNNTCC 2 cut(s) 237, 269
AluBI AGCT 5 cut(s) 209, 443, 674, 761, 785
AluI AGCT 5 cut(s) 209, 443, 674, 761, 785
Alw21I GWGCWC 1 cut(s) 336
Alw26I GTCTC 2 cut(s) 96, 410
AlwNI CAGNNNCTG 1 cut(s) 761
ApeKI GCWGC 4 cut(s) 140, 440, 494, 761
ApoI RAATTY 2 cut(s) 473, 549
AspS9I GGNCC 1 cut(s) 808
AsuHPI GGTGA 3 cut(s) 278, 550, 722
AsuII TTCGAA 1 cut(s) 12
AvaII GGWCC 1 cut(s) 808
Bbv12I GWGCWC 1 cut(s) 336
BbvCI CCTCAGC 1 cut(s) 786
BbvI GCAGC 4 cut(s) 127, 452, 481, 748
BccI CCATC 2 cut(s) 158, 269
BceAI ACGGC 1 cut(s) 215
BciT130I CCWGG 1 cut(s) 393
BcoDI GTCTC 2 cut(s) 96, 410
BfaI CTAG 1 cut(s) 158
BfuAI ACCTGC 1 cut(s) 106
BglII AGATCT 1 cut(s) 132
BisI GCNGC 4 cut(s) 141, 441, 495, 762
BlpI GCTNAGC 1 cut(s) 233
BlsI GCNGC 4 cut(s) 142, 442, 496, 763
BmcAI AGTACT 1 cut(s) 705
Bme1390I CCNGG 1 cut(s) 393
Bme18I GGWCC 1 cut(s) 808
BmgT120I GGNCC 1 cut(s) 808
BmiI GGNNCC 3 cut(s) 120, 312, 809
BmrFI CCNGG 1 cut(s) 393
BmsI GCATC 3 cut(s) 385, 454, 659
Bpu10I CCTNAGC 1 cut(s) 786
Bpu1102I GCTNAGC 1 cut(s) 233
Bpu14I TTCGAA 1 cut(s) 12
BpuEI CTTGAG 3 cut(s) 33, 78, 420
BsaI GGTCTC 1 cut(s) 96
BsaJI CCNNGG 2 cut(s) 289, 525
Bsc4I CCNNNNNNNGG 1 cut(s) 320
Bse3DI GCAATG 2 cut(s) 44, 53
BseBI CCWGG 1 cut(s) 393
BseDI CCNNGG 2 cut(s) 289, 525
BseGI GGATG 2 cut(s) 280, 469
BseLI CCNNNNNNNGG 1 cut(s) 320
BseMI GCAATG 2 cut(s) 44, 53
BseMII CTCAG 6 cut(s) 143, 180, 215, 421, 743, 777
BseXI GCAGC 4 cut(s) 127, 452, 481, 748
BsiHKAI GWGCWC 1 cut(s) 336
BslFI GGGAC 1 cut(s) 821
BslI CCNNNNNNNGG 1 cut(s) 320
BsmAI GTCTC 2 cut(s) 96, 410
BsmBI CGTCTC 1 cut(s) 410
BsmFI GGGAC 1 cut(s) 821
Bso31I GGTCTC 1 cut(s) 96
Bsp119I TTCGAA 1 cut(s) 12
Bsp1286I GDGCHC 1 cut(s) 336
Bsp143I GATC 2 cut(s) 132, 514
Bsp1720I GCTNAGC 1 cut(s) 233
BspACI CCGC 3 cut(s) 122, 237, 764
BspCNI CTCAG 6 cut(s) 142, 179, 216, 420, 742, 778
BspLI GGNNCC 3 cut(s) 120, 312, 809
BspMI ACCTGC 1 cut(s) 106
BspT104I TTCGAA 1 cut(s) 12
BspTNI GGTCTC 1 cut(s) 96
BsrDI GCAATG 2 cut(s) 44, 53
BssECI CCNNGG 2 cut(s) 289, 525
BssMI GATC 2 cut(s) 132, 514
BssT1I CCWWGG 2 cut(s) 289, 525
Bst2UI CCWGG 1 cut(s) 393
Bst4CI ACNGT 4 cut(s) 253, 298, 751, 798
BstAPI GCANNNNNTGC 1 cut(s) 761
BstBI TTCGAA 1 cut(s) 12
BstC8I GCNNGC 1 cut(s) 492
BstDEI CTNAG 8 cut(s) 129, 166, 224, 233, 407, 729, 786, 822
BstF5I GGATG 2 cut(s) 280, 469
BstKTI GATC 2 cut(s) 135, 517
BstMAI GTCTC 2 cut(s) 96, 410
BstMBI GATC 2 cut(s) 132, 514
BstMWI GCNNNNNNNGC 5 cut(s) 121, 146, 229, 680, 761
BstNI CCWGG 1 cut(s) 393
BstSCI CCNGG 1 cut(s) 391
BstV1I GCAGC 4 cut(s) 127, 452, 481, 748
BstX2I RGATCY 1 cut(s) 132
BstYI RGATCY 1 cut(s) 132
BtsCI GGATG 2 cut(s) 280, 469
BtsIMutI CAGTG 1 cut(s) 737
BveI ACCTGC 1 cut(s) 106
Cac8I GCNNGC 1 cut(s) 492
CaiI CAGNNNCTG 1 cut(s) 761
Cfr13I GGNCC 1 cut(s) 808
Csp6I GTAC 5 cut(s) 106, 294, 505, 511, 704
CviAII CATG 2 cut(s) 101, 812
CviJI RGCY 8 cut(s) 82, 209, 232, 370, 443, 674, 761, 785
CviKI_1 RGCY 8 cut(s) 82, 209, 232, 370, 443, 674, 761, 785
CviQI GTAC 5 cut(s) 106, 294, 505, 511, 704
DdeI CTNAG 8 cut(s) 129, 166, 224, 233, 407, 729, 786, 822
DpnI GATC 2 cut(s) 134, 516
DpnII GATC 2 cut(s) 132, 514
DraIII CACNNNGTG 1 cut(s) 732
DrdI GACNNNNNNGTC 1 cut(s) 402
DseDI GACNNNNNNGTC 1 cut(s) 402
EciI GGCGGA 1 cut(s) 111
Eco130I CCWWGG 2 cut(s) 289, 525
Eco31I GGTCTC 1 cut(s) 96
Eco47I GGWCC 1 cut(s) 808
Eco57I CTGAAG 1 cut(s) 483
EcoRI GAATTC 1 cut(s) 473
EcoRII CCWGG 1 cut(s) 391
EcoT14I CCWWGG 2 cut(s) 289, 525
ErhI CCWWGG 2 cut(s) 289, 525
Esp3I CGTCTC 1 cut(s) 410
FaeI CATG 2 cut(s) 104, 815
FaiI YATR 8 cut(s) 88, 102, 138, 218, 449, 597, 773, 813
FaqI GGGAC 1 cut(s) 821
FatI CATG 2 cut(s) 100, 811
FauI CCCGC 2 cut(s) 230, 757
Fnu4HI GCNGC 4 cut(s) 141, 441, 495, 762
FokI GGATG 2 cut(s) 287, 476
Fsp4HI GCNGC 4 cut(s) 141, 441, 495, 762
FspBI CTAG 1 cut(s) 158
GluI GCNGC 4 cut(s) 141, 441, 495, 762
Hin1II CATG 2 cut(s) 104, 815
HinfI GANTC 1 cut(s) 9
HphI GGTGA 3 cut(s) 278, 550, 722
Hpy166II GTNNAC 1 cut(s) 713
Hpy188I TCNGA 5 cut(s) 132, 343, 410, 502, 738
Hpy188III TCNNGA 1 cut(s) 272
Hpy8I GTNNAC 1 cut(s) 713
HpyAV CCTTC 1 cut(s) 622
HpyCH4III ACNGT 4 cut(s) 253, 298, 751, 798
HpyCH4V TGCA 6 cut(s) 58, 376, 570, 662, 683, 755
HpyF10VI GCNNNNNNNGC 5 cut(s) 121, 146, 229, 680, 761
HpyF3I CTNAG 8 cut(s) 129, 166, 224, 233, 407, 729, 786, 822
Hsp92II CATG 2 cut(s) 104, 815
Kzo9I GATC 2 cut(s) 132, 514
Lsp1109I GCAGC 4 cut(s) 127, 452, 481, 748
LweI GCATC 3 cut(s) 385, 454, 659
MaeI CTAG 1 cut(s) 158
MaeIII GTNAC 4 cut(s) 160, 298, 586, 745
MalI GATC 2 cut(s) 134, 516
MboI GATC 2 cut(s) 132, 514
MboII GAAGA 5 cut(s) 26, 34, 79, 553, 556
MfeI CAATTG 1 cut(s) 620
MflI RGATCY 1 cut(s) 132
MhlI GDGCHC 1 cut(s) 336
MluCI AATT 6 cut(s) 337, 473, 549, 620, 633, 641
MnlI CCTC 5 cut(s) 175, 313, 444, 772, 781
MseI TTAA 1 cut(s) 365
MspA1I CMGCKG 2 cut(s) 443, 674
MspR9I CCNGG 1 cut(s) 393
MunI CAATTG 1 cut(s) 620
MvaI CCWGG 1 cut(s) 393
MwoI GCNNNNNNNGC 5 cut(s) 121, 146, 229, 680, 761
NdeII GATC 2 cut(s) 132, 514
NlaIII CATG 2 cut(s) 104, 815
NlaIV GGNNCC 3 cut(s) 120, 312, 809
NmuCI GTSAC 2 cut(s) 298, 586
NspV TTCGAA 1 cut(s) 12
PfeI GAWTC 1 cut(s) 9
PfoI TCCNGGA 1 cut(s) 391
PkrI GCNGC 4 cut(s) 142, 442, 496, 763
Psp6I CCWGG 1 cut(s) 391
PspGI CCWGG 1 cut(s) 391
PspN4I GGNNCC 3 cut(s) 120, 312, 809
PspPI GGNCC 1 cut(s) 808
PstNI CAGNNNCTG 1 cut(s) 761
PsuI RGATCY 1 cut(s) 132
PvuII CAGCTG 2 cut(s) 443, 674
RsaI GTAC 5 cut(s) 107, 295, 506, 512, 705
RsaNI GTAC 5 cut(s) 106, 294, 505, 511, 704
SaqAI TTAA 1 cut(s) 365
SatI GCNGC 4 cut(s) 141, 441, 495, 762
Sau3AI GATC 2 cut(s) 132, 514
Sau96I GGNCC 1 cut(s) 808
ScaI AGTACT 1 cut(s) 705
ScrFI CCNGG 1 cut(s) 393
SduI GDGCHC 1 cut(s) 336
SfaNI GCATC 3 cut(s) 385, 454, 659
SfuI TTCGAA 1 cut(s) 12
SinI GGWCC 1 cut(s) 808
SmlI CTYRAG 3 cut(s) 48, 93, 435
SmoI CTYRAG 3 cut(s) 48, 93, 435
Sse9I AATT 6 cut(s) 337, 473, 549, 620, 633, 641
SsiI CCGC 3 cut(s) 122, 237, 764
SspMI CTAG 1 cut(s) 158
StyD4I CCNGG 1 cut(s) 391
StyI CCWWGG 2 cut(s) 289, 525
TaaI ACNGT 4 cut(s) 253, 298, 751, 798
TaqI TCGA 1 cut(s) 12
TasI AATT 6 cut(s) 337, 473, 549, 620, 633, 641
TatI WGTACW 2 cut(s) 105, 703
TfiI GAWTC 1 cut(s) 9
Tru1I TTAA 1 cut(s) 365
Tru9I TTAA 1 cut(s) 365
TscAI CASTG 1 cut(s) 737
TseFI GTSAC 2 cut(s) 298, 586
TseI GCWGC 4 cut(s) 140, 440, 494, 761
Tsp45I GTSAC 2 cut(s) 298, 586
TspDTI ATGAA 3 cut(s) 598, 711, 790
TspRI CASTG 1 cut(s) 737
VpaK11BI GGWCC 1 cut(s) 808
XapI RAATTY 2 cut(s) 473, 549
XcmI CCANNNNNNNNNTGG 1 cut(s) 532
XspI CTAG 1 cut(s) 158
ZrmI AGTACT 1 cut(s) 705
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.