Rh2AG040500

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2A
OG0014629
Physical Location & Seq
Forward (+)
3195965 .. 3196849
885 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2AG040500.1

Sequence Viewer

Length: 885 bp
ATGCAAGAGGTGGGGACGAGGCCTAATGAGTCTGTTCTTGTTAGTGTTCTCACTGCCGCTGCTCATTTGGGTGCGGTGGCGCAAGGGTTGTGGGTGCACTCCTATGCTAAGAGGCACGGGCTTGAGTCGAATAGGATATTGGCCACTGCATTGGTTGATATGTACTCCAAATGTGGCTATGTGGAAGCAGCTATGAAGGTTTTTGAGGGCATTTGTAATAAGGATGCCAGAGCGTGGAATGCTATGATTACTGGGGTTGCGATGAATGGGGATGCAAGGAAATCGATTGAGCTGTTTGATAAAATGGTTGTAGATAAGATCCAACCTACAGAAACCACATTTGTTGCTGTTCTATCGGCTTGTACCCATGCAAAAATGGTAGACAAGGGGCTTGAATTGTTTGATCAAATGAGTACCCTTTATGGGGTTGAACCCATGCTTCAGCACTATGCTTGTGTTGTTGACCTCTTGGCCAGAGCAGGCATGTTAGAGGAAGCTGAGAAGTTTATAGAGGACAAGATGGGGGGACTAGGAAGAGGGGATGCCAACGTGTGGGGGGCATTACTGGGTGCGTGTAGAGTTCATGGGAATGTTGAAGTGGGGGACAGAATTTGGAAAAAGCTGGCTGATATGGGAGTAGCCGATTGCGGTATTCATGTTCTTTCATATAACATGTACAAGGAAGCTGGCTTGGAATTGGAGGCAAAGAGAGTCCGAGATATGATCTCAGAAGGCGGAATGAAGAAGAAACCTGGTTCTAGTGTGATAGAGGTAAATGGAGTGGCTGAAGAGTTCATTGTTGGTGATCTTTGTCCTCCACAAGCACAAGAAATGCTTAAGATACTTGATTCTTTTTGTAAAATGGTGAATTTGGAGGATGTATGA
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

294

Amino Acids

32.05

Weight (kDa)

5.35

Isoelectric Point (pI)

39.45

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 75 - 122 6.2e-08 PPR repeat family
PPR_long PF17177 87 - 175 7.1e-07 Pentacotripeptide-repeat region of PRORP
E_motif PF20431 195 - 257 3.3e-08 E motif
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: OG0014629)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g03350
malus_domestica MD02G1033000.v1.1
prunus_persica Prupe.7G242300_v2.0.a1
pyrus_communis pycom02g01480 pycom02g02710 pycom04g20500
rosa_chinensis RchiOBHm_Chr2g0088571
rosa_laevigata RLG00000015966
rosa_multiflora Rmu_co8371145.1_g000001 Rmu_sc0004733.1_g000003
rosa_roxburghii Rroxscaffold_2G00152540
rosa_rugosa Rorug01G0485200
rosa_samantha Rh2AG040500 Rh2BG039200 Rh2CG040100 Rh2DG039500
rosa_wichuraiana Rw2G003140

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 2 cut(s) 234, 552
AccI GTMKAC 1 cut(s) 381
AciI CCGC 4 cut(s) 57, 74, 648, 735
AclWI GGATC 1 cut(s) 313
AcoI YGGCCR 2 cut(s) 141, 471
AcsI RAATTY 2 cut(s) 609, 868
AcuI CTGAAG 2 cut(s) 425, 807
AfaI GTAC 4 cut(s) 164, 364, 415, 677
AfiI CCNNNNNNNGG 4 cut(s) 234, 423, 424, 552
AflII CTTAAG 1 cut(s) 836
AflIII ACRYGT 2 cut(s) 549, 672
AgsI TTSAA 3 cut(s) 395, 431, 596
AjnI CCWGG 1 cut(s) 751
AjuI GAANNNNNNNTTGG 2 cut(s) 122, 154
AluBI AGCT 5 cut(s) 191, 292, 497, 622, 686
AluI AGCT 5 cut(s) 191, 292, 497, 622, 686
Alw21I GWGCWC 1 cut(s) 99
Alw44I GTGCAC 1 cut(s) 95
AlwI GGATC 1 cut(s) 313
AoxI GGCC 3 cut(s) 20, 141, 471
ApaLI GTGCAC 1 cut(s) 95
ApeKI GCWGC 2 cut(s) 59, 188
ApoI RAATTY 2 cut(s) 609, 868
AspLEI GCGC 1 cut(s) 82
AsuHPI GGTGA 2 cut(s) 815, 877
BaeGI GKGCMC 1 cut(s) 99
BalI TGGCCA 2 cut(s) 143, 473
Bbv12I GWGCWC 1 cut(s) 99
BbvI GCAGC 2 cut(s) 46, 200
BccI CCATC 1 cut(s) 514
BcgI CGANNNNNNTGC 2 cut(s) 264, 298
BciT130I CCWGG 1 cut(s) 753
BclI TGATCA 1 cut(s) 403
BfaI CTAG 2 cut(s) 530, 759
BfmI CTRYAG 1 cut(s) 327
BfrI CTTAAG 1 cut(s) 836
BisI GCNGC 3 cut(s) 57, 60, 189
BlsI GCNGC 3 cut(s) 58, 61, 190
Bme1390I CCNGG 1 cut(s) 753
BmrFI CCNGG 1 cut(s) 753
BmrI ACTGGG 2 cut(s) 261, 575
BmsI GCATC 3 cut(s) 214, 262, 532
BmuI ACTGGG 2 cut(s) 261, 575
BpuEI CTTGAG 1 cut(s) 143
Bsa29I ATCGAT 1 cut(s) 284
Bsc4I CCNNNNNNNGG 4 cut(s) 234, 423, 424, 552
Bse1I ACTGG 2 cut(s) 256, 570
BseBI CCWGG 1 cut(s) 753
BseCI ATCGAT 1 cut(s) 284
BseGI GGATG 4 cut(s) 229, 277, 547, 883
BseLI CCNNNNNNNGG 4 cut(s) 234, 423, 424, 552
BseMII CTCAG 2 cut(s) 489, 741
BseNI ACTGG 2 cut(s) 256, 570
BseSI GKGCMC 1 cut(s) 99
BseXI GCAGC 2 cut(s) 46, 200
BshFI GGCC 3 cut(s) 22, 143, 473
BshVI ATCGAT 1 cut(s) 284
BsiHKAI GWGCWC 1 cut(s) 99
BslFI GGGAC 3 cut(s) 28, 540, 617
BslI CCNNNNNNNGG 4 cut(s) 234, 423, 424, 552
BsmFI GGGAC 3 cut(s) 28, 540, 617
BsmI GAATGC 1 cut(s) 244
BsnI GGCC 3 cut(s) 22, 143, 473
Bsp1286I GDGCHC 1 cut(s) 99
Bsp1407I TGTACA 1 cut(s) 675
Bsp143I GATC 4 cut(s) 318, 403, 723, 805
BspACI CCGC 4 cut(s) 57, 74, 648, 735
BspANI GGCC 3 cut(s) 22, 143, 473
BspCNI CTCAG 2 cut(s) 490, 740
BspDI ATCGAT 1 cut(s) 284
BspPI GGATC 1 cut(s) 313
BspTI CTTAAG 1 cut(s) 836
BsrGI TGTACA 1 cut(s) 675
BsrI ACTGG 2 cut(s) 256, 570
BssMI GATC 4 cut(s) 318, 403, 723, 805
Bst2UI CCWGG 1 cut(s) 753
Bst6I CTCTTC 2 cut(s) 529, 783
BstAFI CTTAAG 1 cut(s) 836
BstAUI TGTACA 1 cut(s) 675
BstC8I GCNNGC 3 cut(s) 481, 624, 688
BstDEI CTNAG 3 cut(s) 108, 498, 727
BstF5I GGATG 4 cut(s) 229, 277, 547, 883
BstHHI GCGC 1 cut(s) 82
BstKTI GATC 4 cut(s) 321, 406, 726, 808
BstMBI GATC 4 cut(s) 318, 403, 723, 805
BstMWI GCNNNNNNNGC 1 cut(s) 239
BstNI CCWGG 1 cut(s) 753
BstNSI RCATGY 2 cut(s) 487, 676
BstSCI CCNGG 1 cut(s) 751
BstSFI CTRYAG 1 cut(s) 327
BstSLI GKGCMC 1 cut(s) 99
BstV1I GCAGC 2 cut(s) 46, 200
BstX2I RGATCY 1 cut(s) 318
BstXI CCANNNNNNTGG 1 cut(s) 151
BstYI RGATCY 1 cut(s) 318
Bsu15I ATCGAT 1 cut(s) 284
BsuRI GGCC 3 cut(s) 22, 143, 473
BsuTUI ATCGAT 1 cut(s) 284
BtgZI GCGATG 1 cut(s) 275
BtsCI GGATG 4 cut(s) 229, 277, 547, 883
BtsI GCAGTG 2 cut(s) 51, 144
BtsIMutI CAGTG 2 cut(s) 51, 144
Cac8I GCNNGC 3 cut(s) 481, 624, 688
CfoI GCGC 1 cut(s) 82
ClaI ATCGAT 1 cut(s) 284
CsiI ACCWGGT 1 cut(s) 751
Csp6I GTAC 4 cut(s) 163, 363, 414, 676
CspCI CAANNNNNGTGG 4 cut(s) 71, 106, 325, 360
CviAII CATG 6 cut(s) 368, 436, 484, 584, 656, 673
CviQI GTAC 4 cut(s) 163, 363, 414, 676
DdeI CTNAG 3 cut(s) 108, 498, 727
DpnI GATC 4 cut(s) 320, 405, 725, 807
DpnII GATC 4 cut(s) 318, 403, 723, 805
EaeI YGGCCR 2 cut(s) 141, 471
Eam1104I CTCTTC 2 cut(s) 529, 783
EarI CTCTTC 2 cut(s) 529, 783
EciI GGCGGA 1 cut(s) 750
Eco147I AGGCCT 1 cut(s) 22
Eco57I CTGAAG 2 cut(s) 425, 807
EcoRII CCWGG 1 cut(s) 751
FaeI CATG 6 cut(s) 371, 439, 487, 587, 659, 676
FalI AAGNNNNNCTT 2 cut(s) 819, 851
FaqI GGGAC 3 cut(s) 28, 540, 617
FatI CATG 6 cut(s) 367, 435, 483, 583, 655, 672
FbaI TGATCA 1 cut(s) 403
FblI GTMKAC 1 cut(s) 381
Fnu4HI GCNGC 3 cut(s) 57, 60, 189
FokI GGATG 3 cut(s) 236, 284, 554
Fsp4HI GCNGC 3 cut(s) 57, 60, 189
FspBI CTAG 2 cut(s) 530, 759
GlaI GCGC 1 cut(s) 81
GluI GCNGC 3 cut(s) 57, 60, 189
HaeIII GGCC 3 cut(s) 22, 143, 473
HhaI GCGC 1 cut(s) 82
Hin1II CATG 6 cut(s) 371, 439, 487, 587, 659, 676
Hin6I GCGC 1 cut(s) 80
HinP1I GCGC 1 cut(s) 80
HincII GTYRAC 1 cut(s) 463
HindII GTYRAC 1 cut(s) 463
HinfI GANTC 4 cut(s) 29, 125, 711, 848
HphI GGTGA 2 cut(s) 815, 877
Hpy166II GTNNAC 3 cut(s) 97, 382, 463
Hpy188I TCNGA 2 cut(s) 716, 730
Hpy8I GTNNAC 3 cut(s) 97, 382, 463
HpyAV CCTTC 2 cut(s) 190, 725
HpyCH4IV ACGT 1 cut(s) 549
HpyCH4V TGCA 5 cut(s) 4, 97, 149, 275, 371
HpyF10VI GCNNNNNNNGC 1 cut(s) 239
HpyF3I CTNAG 3 cut(s) 108, 498, 727
HpySE526I ACGT 1 cut(s) 549
Hsp92II CATG 6 cut(s) 371, 439, 487, 587, 659, 676
HspAI GCGC 1 cut(s) 80
Ksp22I TGATCA 1 cut(s) 403
Kzo9I GATC 4 cut(s) 318, 403, 723, 805
LpnPI CCDG 9 cut(s) 237, 241, 465, 487, 551, 608, 672, 738, 765
Lsp1109I GCAGC 2 cut(s) 46, 200
LweI GCATC 3 cut(s) 214, 262, 532
MabI ACCWGGT 1 cut(s) 751
MaeI CTAG 2 cut(s) 530, 759
MaeII ACGT 1 cut(s) 549
MalI GATC 4 cut(s) 320, 405, 725, 807
MboI GATC 4 cut(s) 318, 403, 723, 805
MboII GAAGA 4 cut(s) 546, 754, 757, 800
MflI RGATCY 1 cut(s) 318
MhlI GDGCHC 1 cut(s) 99
MlsI TGGCCA 2 cut(s) 143, 473
MluCI AATT 4 cut(s) 395, 609, 695, 868
MluNI TGGCCA 2 cut(s) 143, 473
MlyI GAGTC 3 cut(s) 38, 134, 720
MmeI TCCRAC 1 cut(s) 346
Mox20I TGGCCA 2 cut(s) 143, 473
MscI TGGCCA 2 cut(s) 143, 473
MseI TTAA 1 cut(s) 837
MslI CAYNNNNRTG 3 cut(s) 69, 102, 588
Msp20I TGGCCA 2 cut(s) 143, 473
MspA1I CMGCKG 1 cut(s) 59
MspCI CTTAAG 1 cut(s) 836
MspR9I CCNGG 1 cut(s) 753
Mva1269I GAATGC 1 cut(s) 244
MvaI CCWGG 1 cut(s) 753
MwoI GCNNNNNNNGC 1 cut(s) 239
NdeII GATC 4 cut(s) 318, 403, 723, 805
NlaIII CATG 6 cut(s) 371, 439, 487, 587, 659, 676
NspI RCATGY 2 cut(s) 487, 676
PceI AGGCCT 1 cut(s) 22
PciI ACATGT 1 cut(s) 672
PctI GAATGC 1 cut(s) 244
PfeI GAWTC 1 cut(s) 848
PflMI CCANNNNNTGG 2 cut(s) 234, 552
PkrI GCNGC 3 cut(s) 58, 61, 190
PleI GAGTC 3 cut(s) 37, 133, 719
PpsI GAGTC 3 cut(s) 37, 133, 719
PscI ACATGT 1 cut(s) 672
Psp6I CCWGG 1 cut(s) 751
PspGI CCWGG 1 cut(s) 751
PsuI RGATCY 1 cut(s) 318
RsaI GTAC 4 cut(s) 164, 364, 415, 677
RsaNI GTAC 4 cut(s) 163, 363, 414, 676
RseI CAYNNNNRTG 3 cut(s) 69, 102, 588
SaqAI TTAA 1 cut(s) 837
SatI GCNGC 3 cut(s) 57, 60, 189
Sau3AI GATC 4 cut(s) 318, 403, 723, 805
SchI GAGTC 3 cut(s) 38, 134, 720
ScrFI CCNGG 1 cut(s) 753
SduI GDGCHC 1 cut(s) 99
SexAI ACCWGGT 1 cut(s) 751
SfaNI GCATC 3 cut(s) 214, 262, 532
SfcI CTRYAG 1 cut(s) 327
SmiMI CAYNNNNRTG 3 cut(s) 69, 102, 588
SmlI CTYRAG 2 cut(s) 122, 836
SmoI CTYRAG 2 cut(s) 122, 836
Sse9I AATT 4 cut(s) 395, 609, 695, 868
SseBI AGGCCT 1 cut(s) 22
SsiI CCGC 4 cut(s) 57, 74, 648, 735
SspMI CTAG 2 cut(s) 530, 759
StuI AGGCCT 1 cut(s) 22
StyD4I CCNGG 1 cut(s) 751
TaiI ACGT 1 cut(s) 552
TaqI TCGA 2 cut(s) 128, 284
TasI AATT 4 cut(s) 395, 609, 695, 868
TatI WGTACW 2 cut(s) 162, 675
TauI GCSGC 1 cut(s) 59
TfiI GAWTC 1 cut(s) 848
Tru1I TTAA 1 cut(s) 837
Tru9I TTAA 1 cut(s) 837
TscAI CASTG 2 cut(s) 58, 151
TseI GCWGC 2 cut(s) 59, 188
TspDTI ATGAA 7 cut(s) 209, 278, 572, 644, 654, 755, 784
TspRI CASTG 2 cut(s) 58, 151
Van91I CCANNNNNTGG 2 cut(s) 234, 552
Vha464I CTTAAG 1 cut(s) 836
VneI GTGCAC 1 cut(s) 95
XapI RAATTY 2 cut(s) 609, 868
XceI RCATGY 2 cut(s) 487, 676
XmiI GTMKAC 1 cut(s) 381
XspI CTAG 2 cut(s) 530, 759
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.