Rh5DG561700

PPR repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0018016
Physical Location & Seq
Forward (+)
86653646 .. 86655674
2029 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG561700.1

Sequence Viewer

Length: 1206 bp
ATGTCTCCTCCGCCGCTGTTTGCTTGGAATTCAATCATCAGGGCCTTTGCAAAGAGCCCAGCTCCGATTGAATCGGTCAACTTTTTCTTTGAGCTCCGCGGAGTTGGGCTTAAACCCGACTACTTTACTTACCCTTTTGTTGTGAAAGCCTGTGGTCGATGTAAGATGGTTGGAGTTGGTGGGTGGGTGCATTGTTTGATTGTGAAAGGTGGTTTTGATTCGGATCGGTATATAGGGAATGCCCTTTTCAGAATGTATGCTGATTGCGGCGCGGTTGGGATTGCGAGGAAGGTGTTTGATGAAATGTCTGTGAGAGATGTGGTTTCTTGGAGCTCTTTGATCGCCGGATATGTTGCTTGCGACTACCCATTGGAAGCCTTAAGGGTGTTTCGAGAGATGAAGCTAGCTAATGAAAAACCAAACTCAGTCACTTTGGTAAGCTTGCTTTCTGCCTGTACCCGTTTAAACAATATTGGCACAGGGAAGTCGATTCATTGCTACATTATCGTCCATCCCATAGAGATAGATGTTGCTCTGGGAACTGCTCTGATTGAGATGTATTCCAAGTGTGGGCATGTTGAGAAAGCTTTCCATATCTTCAATTCAATGAGTGAAAAGAATTTGCAGTCTTGGACTATTATGATTTGTGGTCTTGCCGATCATGGTCGTGGAAACGATGCCATCTTGTTGTTTGCTCGCATGGAACAAGCTGGATTGGTACCAGACAGCATGGCATTTTCTGCTATCTTGTCAGCCTGTAGCCACTTGGGCCTCCTTAATGAGGGTCGACAATTTTTCAATCAGATGGTGAGAACATATAATATTGAACCAACAATGGAACATTATGAATGCTTAGTAGATTTGCTTGGAAGAGCTGGTCTGATTGAAGAGGCTTATGAGGTTATCAAAAATATGCCAATGGAGCCTAATTCAGTTATACTGCGGAGTTTCTTGGGTGCCTGTAGGAAGCACAATGTAGTTTTTCCTTTAGATGATAAGTTCAGGAAAGTCCTTACATCGGAGTCTCACCTTGGAGCAAACTATGTACTTGCAGCTAATGTATCTTCTGTCTCTGGTTGTTGGAGTGATGCTGCTGATCTGCGACTATCCATGAAACAGAAGGGTGTGGTAAAGGTTCCTGGGTGCAGTTGGGTGGAGGTGGGTGGTAGTTCATCTGGAGATATTTTAAAAGAGACTGTAAGTTAG
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

401

Amino Acids

44.13

Weight (kDa)

7.1

Isoelectric Point (pI)

50.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 105 - 153 6.6e-10 PPR repeat family
PPR_2 PF13041 207 - 254 6.1e-08 PPR repeat family
E_motif PF20431 343 - 386 7.3e-12 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: OG0018016)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g44710
prunus_persica Prupe.6G010900_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0081411
rosa_laevigata RLG00000036932
rosa_multiflora Rmu_sc0007768.1_g000022
rosa_roxburghii Rroxscaffold_1G00002130
rosa_rugosa Rorug05G0476200
rosa_samantha Rh5BG552100 Rh5CG574700 Rh5DG561700
rosa_wichuraiana Rw5G049070

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 718
AccB1I GGYRCC 2 cut(s) 718, 956
AccI GTMKAC 1 cut(s) 787
AccII CGCG 2 cut(s) 99, 272
AciI CCGC 7 cut(s) 11, 14, 97, 99, 267, 272, 943
AclWI GGATC 1 cut(s) 231
AcsI RAATTY 2 cut(s) 28, 619
AfaI GTAC 3 cut(s) 457, 720, 1047
AfiI CCNNNNNNNGG 3 cut(s) 570, 781, 1018
AflII CTTAAG 1 cut(s) 379
AgsI TTSAA 7 cut(s) 33, 71, 601, 606, 799, 827, 887
AjnI CCWGG 1 cut(s) 1138
Alw21I GWGCWC 2 cut(s) 96, 335
Alw26I GTCTC 4 cut(s) 9, 1029, 1075, 1187
AlwI GGATC 1 cut(s) 231
AoxI GGCC 2 cut(s) 42, 769
ApeKI GCWGC 2 cut(s) 1052, 1091
ApoI RAATTY 2 cut(s) 28, 619
Asp700I GAANNNNTTC 1 cut(s) 587
Asp718I GGTACC 1 cut(s) 718
AspLEI GCGC 1 cut(s) 272
AspS9I GGNCC 2 cut(s) 42, 769
AsuHPI GGTGA 2 cut(s) 820, 1019
AsuNHI GCTAGC 1 cut(s) 403
BanI GGYRCC 2 cut(s) 718, 956
BanII GRGCYC 3 cut(s) 59, 96, 335
Bbv12I GWGCWC 2 cut(s) 96, 335
BbvI GCAGC 2 cut(s) 1064, 1078
BccI CCATC 4 cut(s) 160, 519, 689, 799
BciT130I CCWGG 1 cut(s) 1140
BcoDI GTCTC 4 cut(s) 9, 1029, 1075, 1187
BfaI CTAG 1 cut(s) 404
BfmI CTRYAG 2 cut(s) 757, 961
BfrI CTTAAG 1 cut(s) 379
BglI GCCNNNNNGGC 1 cut(s) 768
BisI GCNGC 4 cut(s) 14, 268, 1053, 1092
BlsI GCNGC 4 cut(s) 15, 269, 1054, 1093
Bme1390I CCNGG 1 cut(s) 1140
BmgT120I GGNCC 2 cut(s) 42, 769
BmiI GGNNCC 4 cut(s) 720, 924, 958, 1137
BmrFI CCNGG 1 cut(s) 1140
BmsI GCATC 2 cut(s) 667, 1078
BmtI GCTAGC 1 cut(s) 407
BplI GAGNNNNNCTC 2 cut(s) 46, 78
BpmI CTGGAG 1 cut(s) 1197
BsaBI GATNNNNATC 1 cut(s) 222
BsaJI CCNNGG 3 cut(s) 97, 1030, 1139
Bsc4I CCNNNNNNNGG 3 cut(s) 570, 781, 1018
Bse3DI GCAATG 1 cut(s) 493
Bse8I GATNNNNATC 1 cut(s) 222
BseBI CCWGG 1 cut(s) 1140
BseDI CCNNGG 3 cut(s) 97, 1030, 1139
BseGI GGATG 1 cut(s) 511
BseJI GATNNNNATC 1 cut(s) 222
BseLI CCNNNNNNNGG 3 cut(s) 570, 781, 1018
BseMI GCAATG 1 cut(s) 493
BseMII CTCAG 1 cut(s) 438
BseXI GCAGC 2 cut(s) 1064, 1078
BseYI CCCAGC 1 cut(s) 58
BsgI GTGCAG 1 cut(s) 1165
Bsh1236I CGCG 2 cut(s) 99, 272
BshFI GGCC 2 cut(s) 44, 771
BshNI GGYRCC 2 cut(s) 718, 956
BsiHKAI GWGCWC 2 cut(s) 96, 335
BsiSI CCGG 1 cut(s) 345
BslI CCNNNNNNNGG 3 cut(s) 570, 781, 1018
BsmAI GTCTC 4 cut(s) 9, 1029, 1075, 1187
BsmI GAATGC 2 cut(s) 244, 854
BsnI GGCC 2 cut(s) 44, 771
Bsp1286I GDGCHC 3 cut(s) 59, 96, 335
Bsp143I GATC 4 cut(s) 223, 339, 658, 1096
BspACI CCGC 7 cut(s) 11, 14, 97, 99, 267, 272, 943
BspANI GGCC 2 cut(s) 44, 771
BspCNI CTCAG 1 cut(s) 437
BspFNI CGCG 2 cut(s) 99, 272
BspLI GGNNCC 4 cut(s) 720, 924, 958, 1137
BspOI GCTAGC 1 cut(s) 407
BspPI GGATC 1 cut(s) 231
BspQI GCTCTTC 1 cut(s) 865
BspT107I GGYRCC 2 cut(s) 718, 956
BspTI CTTAAG 1 cut(s) 379
BsrDI GCAATG 1 cut(s) 493
BssECI CCNNGG 3 cut(s) 97, 1030, 1139
BssMI GATC 4 cut(s) 223, 339, 658, 1096
BssT1I CCWWGG 1 cut(s) 1030
Bst2UI CCWGG 1 cut(s) 1140
Bst4CI ACNGT 1 cut(s) 1198
Bst6I CTCTTC 2 cut(s) 865, 882
BstAFI CTTAAG 1 cut(s) 379
BstAPI GCANNNNNTGC 1 cut(s) 740
BstC8I GCNNGC 4 cut(s) 358, 405, 443, 697
BstDEI CTNAG 2 cut(s) 424, 853
BstDSI CCRYGG 1 cut(s) 97
BstENI CCTNNNNNAGG 1 cut(s) 779
BstF5I GGATG 1 cut(s) 511
BstFNI CGCG 2 cut(s) 99, 272
BstHHI GCGC 1 cut(s) 272
BstKTI GATC 4 cut(s) 226, 342, 661, 1099
BstMAI GTCTC 4 cut(s) 9, 1029, 1075, 1187
BstMBI GATC 4 cut(s) 223, 339, 658, 1096
BstMWI GCNNNNNNNGC 3 cut(s) 740, 768, 922
BstNI CCWGG 1 cut(s) 1140
BstNSI RCATGY 1 cut(s) 578
BstSCI CCNGG 1 cut(s) 1138
BstSFI CTRYAG 2 cut(s) 757, 961
BstUI CGCG 2 cut(s) 99, 272
BstV1I GCAGC 2 cut(s) 1064, 1078
BsuRI GGCC 2 cut(s) 44, 771
BtgI CCRYGG 1 cut(s) 97
BtsCI GGATG 1 cut(s) 511
Cac8I GCNNGC 4 cut(s) 358, 405, 443, 697
CfoI GCGC 1 cut(s) 272
Cfr13I GGNCC 2 cut(s) 42, 769
Cfr42I CCGCGG 1 cut(s) 100
Csp6I GTAC 3 cut(s) 456, 719, 1046
CviAII CATG 5 cut(s) 575, 662, 700, 730, 1111
CviQI GTAC 3 cut(s) 456, 719, 1046
DdeI CTNAG 2 cut(s) 424, 853
DpnI GATC 4 cut(s) 225, 341, 660, 1098
DpnII GATC 4 cut(s) 223, 339, 658, 1096
DraI TTTAAA 2 cut(s) 465, 1188
Eam1104I CTCTTC 2 cut(s) 865, 882
EarI CTCTTC 2 cut(s) 865, 882
Ecl136II GAGCTC 2 cut(s) 94, 333
Eco130I CCWWGG 1 cut(s) 1030
Eco24I GRGCYC 3 cut(s) 59, 96, 335
Eco53kI GAGCTC 2 cut(s) 94, 333
EcoICRI GAGCTC 2 cut(s) 94, 333
EcoNI CCTNNNNNAGG 1 cut(s) 779
EcoO109I RGGNCCY 1 cut(s) 42
EcoRI GAATTC 1 cut(s) 28
EcoRII CCWGG 1 cut(s) 1138
EcoT14I CCWWGG 1 cut(s) 1030
EcoT38I GRGCYC 3 cut(s) 59, 96, 335
ErhI CCWWGG 1 cut(s) 1030
FaeI CATG 5 cut(s) 578, 665, 703, 733, 1114
FatI CATG 5 cut(s) 574, 661, 699, 729, 1110
FblI GTMKAC 1 cut(s) 787
Fnu4HI GCNGC 4 cut(s) 14, 268, 1053, 1092
FokI GGATG 1 cut(s) 498
FriOI GRGCYC 3 cut(s) 59, 96, 335
Fsp4HI GCNGC 4 cut(s) 14, 268, 1053, 1092
FspBI CTAG 1 cut(s) 404
GlaI GCGC 1 cut(s) 271
GluI GCNGC 4 cut(s) 14, 268, 1053, 1092
GsaI CCCAGC 1 cut(s) 62
GsuI CTGGAG 1 cut(s) 1197
HaeIII GGCC 2 cut(s) 44, 771
HapII CCGG 1 cut(s) 345
HhaI GCGC 1 cut(s) 272
Hin1II CATG 5 cut(s) 578, 665, 703, 733, 1114
Hin6I GCGC 1 cut(s) 270
HinP1I GCGC 1 cut(s) 270
HincII GTYRAC 2 cut(s) 79, 788
HindII GTYRAC 2 cut(s) 79, 788
HindIII AAGCTT 2 cut(s) 439, 585
HinfI GANTC 4 cut(s) 71, 218, 490, 1022
HpaII CCGG 1 cut(s) 345
HphI GGTGA 2 cut(s) 820, 1019
Hpy166II GTNNAC 2 cut(s) 79, 788
Hpy188I TCNGA 7 cut(s) 66, 223, 251, 549, 804, 882, 1021
Hpy188III TCNNGA 3 cut(s) 392, 1003, 1176
Hpy8I GTNNAC 2 cut(s) 79, 788
HpyAV CCTTC 2 cut(s) 283, 1114
HpyCH4III ACNGT 1 cut(s) 1198
HpyCH4V TGCA 5 cut(s) 50, 190, 625, 1052, 1146
HpyF10VI GCNNNNNNNGC 3 cut(s) 740, 768, 922
HpyF3I CTNAG 2 cut(s) 424, 853
Hsp92II CATG 5 cut(s) 578, 665, 703, 733, 1114
HspAI GCGC 1 cut(s) 270
KpnI GGTACC 1 cut(s) 722
KspI CCGCGG 1 cut(s) 100
Kzo9I GATC 4 cut(s) 223, 339, 658, 1096
LguI GCTCTTC 1 cut(s) 865
LmnI GCTCC 5 cut(s) 67, 99, 330, 922, 1034
Lsp1109I GCAGC 2 cut(s) 1064, 1078
LweI GCATC 2 cut(s) 667, 1078
MaeI CTAG 1 cut(s) 404
MaeIII GTNAC 1 cut(s) 427
MalI GATC 4 cut(s) 225, 341, 660, 1098
MboI GATC 4 cut(s) 223, 339, 658, 1096
MboII GAAGA 4 cut(s) 589, 882, 899, 1056
MhlI GDGCHC 3 cut(s) 59, 96, 335
MluCI AATT 5 cut(s) 28, 601, 619, 791, 928
MlyI GAGTC 1 cut(s) 1031
MmeI TCCRAC 2 cut(s) 151, 1061
MnlI CCTC 7 cut(s) 18, 279, 775, 782, 883, 892, 1150
MroXI GAANNNNTTC 1 cut(s) 587
MseI TTAA 5 cut(s) 111, 380, 464, 777, 1187
MslI CAYNNNNRTG 1 cut(s) 666
MspA1I CMGCKG 2 cut(s) 16, 99
MspCI CTTAAG 1 cut(s) 379
MspI CCGG 1 cut(s) 345
MspR9I CCNGG 1 cut(s) 1140
MssI GTTTAAAC 1 cut(s) 465
Mva1269I GAATGC 2 cut(s) 244, 854
MvaI CCWGG 1 cut(s) 1140
MvnI CGCG 2 cut(s) 99, 272
MwoI GCNNNNNNNGC 3 cut(s) 740, 768, 922
NdeII GATC 4 cut(s) 223, 339, 658, 1096
NheI GCTAGC 1 cut(s) 403
NlaIII CATG 5 cut(s) 578, 665, 703, 733, 1114
NlaIV GGNNCC 4 cut(s) 720, 924, 958, 1137
NmuCI GTSAC 1 cut(s) 427
NspI RCATGY 1 cut(s) 578
PciSI GCTCTTC 1 cut(s) 865
PctI GAATGC 2 cut(s) 244, 854
PdmI GAANNNNTTC 1 cut(s) 587
PfeI GAWTC 3 cut(s) 71, 218, 490
PkrI GCNGC 4 cut(s) 15, 269, 1054, 1093
PleI GAGTC 1 cut(s) 1030
PmeI GTTTAAAC 1 cut(s) 465
PpsI GAGTC 1 cut(s) 1030
Psp124BI GAGCTC 2 cut(s) 96, 335
Psp6I CCWGG 1 cut(s) 1138
PspFI CCCAGC 1 cut(s) 58
PspGI CCWGG 1 cut(s) 1138
PspN4I GGNNCC 4 cut(s) 720, 924, 958, 1137
PspPI GGNCC 2 cut(s) 42, 769
RsaI GTAC 3 cut(s) 457, 720, 1047
RsaNI GTAC 3 cut(s) 456, 719, 1046
RseI CAYNNNNRTG 1 cut(s) 666
SacI GAGCTC 2 cut(s) 96, 335
SacII CCGCGG 1 cut(s) 100
SalI GTCGAC 1 cut(s) 786
SapI GCTCTTC 1 cut(s) 865
SaqAI TTAA 5 cut(s) 111, 380, 464, 777, 1187
SatI GCNGC 4 cut(s) 14, 268, 1053, 1092
Sau3AI GATC 4 cut(s) 223, 339, 658, 1096
Sau96I GGNCC 2 cut(s) 42, 769
SchI GAGTC 1 cut(s) 1031
ScrFI CCNGG 1 cut(s) 1140
SduI GDGCHC 3 cut(s) 59, 96, 335
SfaNI GCATC 2 cut(s) 667, 1078
SfcI CTRYAG 2 cut(s) 757, 961
Sfr303I CCGCGG 1 cut(s) 100
SgrBI CCGCGG 1 cut(s) 100
SmiMI CAYNNNNRTG 1 cut(s) 666
SmlI CTYRAG 1 cut(s) 379
SmoI CTYRAG 1 cut(s) 379
Sse9I AATT 5 cut(s) 28, 601, 619, 791, 928
SsiI CCGC 7 cut(s) 11, 14, 97, 99, 267, 272, 943
SspI AATATT 2 cut(s) 472, 823
SspMI CTAG 1 cut(s) 404
SstI GAGCTC 2 cut(s) 96, 335
StyD4I CCNGG 1 cut(s) 1138
StyI CCWWGG 1 cut(s) 1030
TaaI ACNGT 1 cut(s) 1198
TaqI TCGA 4 cut(s) 157, 391, 488, 787
TaqII GACCGA 1 cut(s) 64
TasI AATT 5 cut(s) 28, 601, 619, 791, 928
TatI WGTACW 1 cut(s) 1045
TauI GCSGC 2 cut(s) 16, 270
TfiI GAWTC 3 cut(s) 71, 218, 490
Tru1I TTAA 5 cut(s) 111, 380, 464, 777, 1187
Tru9I TTAA 5 cut(s) 111, 380, 464, 777, 1187
TseFI GTSAC 1 cut(s) 427
TseI GCWGC 2 cut(s) 1052, 1091
Tsp45I GTSAC 1 cut(s) 427
TspDTI ATGAA 7 cut(s) 315, 413, 426, 482, 861, 1127, 1161
Vha464I CTTAAG 1 cut(s) 379
XagI CCTNNNNNAGG 1 cut(s) 779
XapI RAATTY 2 cut(s) 28, 619
XceI RCATGY 1 cut(s) 578
XmiI GTMKAC 1 cut(s) 787
XmnI GAANNNNTTC 1 cut(s) 587
XspI CTAG 1 cut(s) 404
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.