Rmu_sc0006498.1_g000005

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0006498.1
OG0000976
Physical Location & Seq
Forward (+)
20658 .. 21926
1269 bp
Loading structure...
UTR
Exon/CDS
Intron
Rmu_sc0006498.1_g000005.1.cds

Sequence Viewer

Length: 1170 bp
atgttaagcatctttggaaaaaagaaaggagtacagctccttaatgctgaagaattcgaattcaacgaaatcgaacgagaggtaaaaaactcctcaattccaaaattagattttaaacaaatctacaaaaggggaacgtttgatctaatggataaccattattttaaactactggaaattacaacccctgctacagcaggaggagatactgatcttctaatgatcactccttcagaagttgccagagctcaagcaaaaaaattaacagacttccgagctagtttgttaggaactcttgaagcatctttatgtgatcaagtggcatatttcaactgcttcccaaattttaccactagcttgaaggatgcagctcactgtctacgactgagagtcaagacagatggcatatcgatgaaagaagatatgcaagaactagcaatagtatacagaatatactataaattgatgagtactacagtagcccccaagactagaataacaaatattccaggtcttactactggattcctcaccgatcagaaaaaccattcacaacagattcataaagttacttggaatgaagtgacttttcctcttgagtggaaattatccggtccaaaaaaatcactggaaagagcgaaagcaaaaatttatgaaagtagaaagactggagaaatcagtctcaattttgataatcacagaaaaaatgatgtctgtcctgagaacctcagggtaaataagaatcttctcagaagaagctacagcactagagaagctagtgtcagtggtacaaaacccactattgaagaacctatatctgaagaagaattggaagctgatctaaacagaccagttaatatgttcagagcagaaaagctctatgaactctatgaagaagcagaatcttgcgaaaatcctgaacgattagaaaaactaatcgaaaaaatgaaacaattcaaaatcagaaagacgagaaaagtctttccctaccaagatgttgaaatggaagaaggagatagctccagaactttcattatcagagaaaaagggaaaataaaactcccagttcagaaagcccccacgagtagaaaaggggaaagaaattcccaaagatttgtcccagatgacaacatgcctaaagttccaatcacgaactccgcatctggctaa
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 PPR_3

Protein Analysis

389

Amino Acids

44.74

Weight (kDa)

9.0

Isoelectric Point (pI)

39.86

Instability Index
Protein Domains (Pfam)
No Pfam domains detected for this 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: OG0000976)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g24112 FvH4_4g10003
rosa_chinensis RchiOBHm_Chr3g0487531 RchiOBHm_Chr5g0034781 RchiOBHm_Chr6g0277631
rosa_laevigata RLG00000021184
rosa_multiflora Rmu_sc0000144.1_g000006 Rmu_sc0000161.1_g000054 Rmu_sc0000383.1_g000008 Rmu_sc0000420.1_g000038 Rmu_sc0000429.1_g000090 Rmu_sc0000429.1_g000091 Rmu_sc0000453.1_g000018 Rmu_sc0000458.1_g000020 Rmu_sc0000483.1_g000003 Rmu_sc0000531.1_g000007 Rmu_sc0000595.1_g000055 Rmu_sc0000768.1_g000022 Rmu_sc0000855.1_g000012 Rmu_sc0000974.1_g000020 Rmu_sc0001018.1_g000020 Rmu_sc0001265.1_g000003 Rmu_sc0001407.1_g000004 Rmu_sc0001694.1_g000007 Rmu_sc0001785.1_g000004 Rmu_sc0001847.1_g000011 Rmu_sc0002148.1_g000003 Rmu_sc0002316.1_g000089 Rmu_sc0002501.1_g000027 Rmu_sc0002521.1_g000031 Rmu_sc0002845.1_g000028 Rmu_sc0003315.1_g000022 Rmu_sc0003371.1_g000015 Rmu_sc0003386.1_g000006 Rmu_sc0003415.1_g000012 Rmu_sc0003467.1_g000010 Rmu_sc0003583.1_g000002 Rmu_sc0003832.1_g000032 Rmu_sc0004094.1_g000040 Rmu_sc0004286.1_g000014 Rmu_sc0004344.1_g000014 Rmu_sc0004798.1_g000005 Rmu_sc0004846.1_g000001 Rmu_sc0005362.1_g000001 Rmu_sc0005481.1_g000002 Rmu_sc0006498.1_g000005 Rmu_sc0006968.1_g000011 Rmu_sc0007369.1_g000004 Rmu_sc0007727.1_g000016 Rmu_sc0008681.1_g000002 Rmu_sc0010278.1_g000009 Rmu_sc0011015.1_g000002 Rmu_sc0011611.1_g000004 Rmu_sc0012216.1_g000005 Rmu_sc0013333.1_g000001 Rmu_sc0016916.1_g000001 Rmu_sc0024220.1_g000001 Rmu_sc0036248.1_g000001 Rmu_sc0037776.1_g000001 Rmu_ssc0000052.1_g000014
rosa_samantha Rh4CG090000
rosa_wichuraiana Rw2G035730 Rw5G039910

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 379, 444
AciI CCGC 1 cut(s) 1158
AclI AACGTT 1 cut(s) 137
AcsI RAATTY 5 cut(s) 53, 59, 343, 648, 1102
AcuI CTGAAG 3 cut(s) 69, 216, 840
AfaI GTAC 3 cut(s) 33, 472, 790
AgsI TTSAA 7 cut(s) 64, 299, 331, 361, 806, 958, 1001
AhdI GACNNNNNGTC 1 cut(s) 389
AjnI CCWGG 1 cut(s) 508
Alw21I GWGCWC 1 cut(s) 250
Alw26I GTCTC 1 cut(s) 686
ApeKI GCWGC 1 cut(s) 368
ApoI RAATTY 5 cut(s) 53, 59, 343, 648, 1102
Asp700I GAANNNNTTC 1 cut(s) 953
AspS9I GGNCC 1 cut(s) 614
AsuHPI GGTGA 1 cut(s) 523
AsuII TTCGAA 1 cut(s) 57
AvaII GGWCC 1 cut(s) 614
AxyI CCTNAGG 1 cut(s) 728
BanII GRGCYC 1 cut(s) 250
BauI CACGAG 1 cut(s) 1081
Bbv12I GWGCWC 1 cut(s) 250
BbvI GCAGC 1 cut(s) 380
BccI CCATC 1 cut(s) 395
BciT130I CCWGG 1 cut(s) 510
BclI TGATCA 2 cut(s) 222, 313
BcoDI GTCTC 1 cut(s) 686
BfaI CTAG 6 cut(s) 279, 354, 434, 492, 768, 777
BfmI CTRYAG 3 cut(s) 192, 474, 760
BisI GCNGC 1 cut(s) 369
BlsI GCNGC 1 cut(s) 370
BmcAI AGTACT 1 cut(s) 472
Bme1390I CCNGG 1 cut(s) 510
Bme18I GGWCC 1 cut(s) 614
BmeRI GACNNNNNGTC 1 cut(s) 389
BmgT120I GGNCC 1 cut(s) 614
BmrFI CCNGG 1 cut(s) 510
BmrI ACTGGG 1 cut(s) 1058
BmsI GCATC 3 cut(s) 18, 311, 355
BmuI ACTGGG 1 cut(s) 1058
BplI GAGNNNNNCTC 2 cut(s) 21, 53
BpmI CTGGAG 2 cut(s) 690, 1006
Bpu14I TTCGAA 1 cut(s) 57
BpuEI CTTGAG 2 cut(s) 234, 617
Bsa29I ATCGAT 1 cut(s) 410
BsaBI GATNNNNATC 1 cut(s) 210
BsaWI WCCGGW 1 cut(s) 611
Bse1I ACTGG 6 cut(s) 177, 526, 633, 673, 851, 1064
Bse21I CCTNAGG 1 cut(s) 728
Bse8I GATNNNNATC 1 cut(s) 210
BseBI CCWGG 1 cut(s) 510
BseCI ATCGAT 1 cut(s) 410
BseGI GGATG 1 cut(s) 370
BseJI GATNNNNATC 1 cut(s) 210
BseMII CTCAG 4 cut(s) 377, 711, 742, 763
BseNI ACTGG 6 cut(s) 177, 526, 633, 673, 851, 1064
BseRI GAGGAG 2 cut(s) 82, 216
BseXI GCAGC 1 cut(s) 380
BshVI ATCGAT 1 cut(s) 410
BsiHKAI GWGCWC 1 cut(s) 250
BsiSI CCGG 1 cut(s) 612
BslFI GGGAC 1 cut(s) 1103
BsmAI GTCTC 1 cut(s) 686
BsmFI GGGAC 1 cut(s) 1103
Bsp119I TTCGAA 1 cut(s) 57
Bsp1286I GDGCHC 1 cut(s) 250
Bsp143I GATC 6 cut(s) 142, 211, 222, 313, 535, 838
BspACI CCGC 1 cut(s) 1158
BspCNI CTCAG 4 cut(s) 378, 712, 741, 762
BspDI ATCGAT 1 cut(s) 410
BspT104I TTCGAA 1 cut(s) 57
BsrI ACTGG 6 cut(s) 177, 526, 633, 673, 851, 1064
BssMI GATC 6 cut(s) 142, 211, 222, 313, 535, 838
BssNAI GTATAC 1 cut(s) 445
BssSI CACGAG 1 cut(s) 1081
Bst1107I GTATAC 1 cut(s) 445
Bst2BI CACGAG 1 cut(s) 1081
Bst2UI CCWGG 1 cut(s) 510
Bst4CI ACNGT 2 cut(s) 377, 478
BstBI TTCGAA 1 cut(s) 57
BstDEI CTNAG 4 cut(s) 386, 720, 728, 749
BstF5I GGATG 1 cut(s) 370
BstKTI GATC 6 cut(s) 145, 214, 225, 316, 538, 841
BstMAI GTCTC 1 cut(s) 686
BstMBI GATC 6 cut(s) 142, 211, 222, 313, 535, 838
BstNI CCWGG 1 cut(s) 510
BstNSI RCATGY 1 cut(s) 1135
BstSCI CCNGG 1 cut(s) 508
BstSFI CTRYAG 3 cut(s) 192, 474, 760
BstV1I GCAGC 1 cut(s) 380
BstZ17I GTATAC 1 cut(s) 445
Bsu15I ATCGAT 1 cut(s) 410
Bsu36I CCTNAGG 1 cut(s) 728
BsuTUI ATCGAT 1 cut(s) 410
BtsCI GGATG 1 cut(s) 370
BtsIMutI CAGTG 3 cut(s) 373, 626, 790
Cfr13I GGNCC 1 cut(s) 614
ClaI ATCGAT 1 cut(s) 410
Csp6I GTAC 3 cut(s) 32, 471, 789
CviAII CATG 1 cut(s) 1132
CviQI GTAC 3 cut(s) 32, 471, 789
DdeI CTNAG 4 cut(s) 386, 720, 728, 749
DpnI GATC 6 cut(s) 144, 213, 224, 315, 537, 840
DpnII GATC 6 cut(s) 142, 211, 222, 313, 535, 838
DraI TTTAAA 2 cut(s) 115, 166
DriI GACNNNNNGTC 1 cut(s) 389
Eam1105I GACNNNNNGTC 1 cut(s) 389
Ecl136II GAGCTC 1 cut(s) 248
Eco24I GRGCYC 1 cut(s) 250
Eco47I GGWCC 1 cut(s) 614
Eco53kI GAGCTC 1 cut(s) 248
Eco57I CTGAAG 3 cut(s) 69, 216, 840
Eco81I CCTNAGG 1 cut(s) 728
EcoICRI GAGCTC 1 cut(s) 248
EcoRI GAATTC 2 cut(s) 53, 59
EcoRII CCWGG 1 cut(s) 508
EcoT38I GRGCYC 1 cut(s) 250
FaeI CATG 1 cut(s) 1135
FaqI GGGAC 1 cut(s) 1103
FatI CATG 1 cut(s) 1131
FbaI TGATCA 2 cut(s) 222, 313
FblI GTMKAC 2 cut(s) 379, 444
Fnu4HI GCNGC 1 cut(s) 369
FokI GGATG 1 cut(s) 377
FriOI GRGCYC 1 cut(s) 250
Fsp4HI GCNGC 1 cut(s) 369
FspBI CTAG 6 cut(s) 279, 354, 434, 492, 768, 777
GluI GCNGC 1 cut(s) 369
GsuI CTGGAG 2 cut(s) 690, 1006
HapII CCGG 1 cut(s) 612
Hin1II CATG 1 cut(s) 1135
HinfI GANTC 5 cut(s) 390, 525, 559, 742, 902
HpaII CCGG 1 cut(s) 612
HphI GGTGA 1 cut(s) 523
Hpy166II GTNNAC 2 cut(s) 380, 445
Hpy188I TCNGA 9 cut(s) 235, 275, 540, 752, 820, 866, 965, 1040, 1071
Hpy188III TCNNGA 7 cut(s) 296, 394, 596, 719, 917, 1023, 1150
Hpy8I GTNNAC 2 cut(s) 380, 445
HpyAV CCTTC 3 cut(s) 240, 355, 1004
HpyCH4III ACNGT 2 cut(s) 377, 478
HpyCH4IV ACGT 1 cut(s) 137
HpyCH4V TGCA 2 cut(s) 368, 427
HpyF3I CTNAG 4 cut(s) 386, 720, 728, 749
HpySE526I ACGT 1 cut(s) 137
Hsp92II CATG 1 cut(s) 1135
Ksp22I TGATCA 2 cut(s) 222, 313
Kzo9I GATC 6 cut(s) 142, 211, 222, 313, 535, 838
LmnI GCTCC 2 cut(s) 42, 1025
Lsp1109I GCAGC 1 cut(s) 380
LweI GCATC 3 cut(s) 18, 311, 355
MaeI CTAG 6 cut(s) 279, 354, 434, 492, 768, 777
MaeII ACGT 1 cut(s) 137
MaeIII GTNAC 2 cut(s) 568, 583
MalI GATC 6 cut(s) 144, 213, 224, 315, 537, 840
MboI GATC 6 cut(s) 142, 211, 222, 313, 535, 838
MhlI GDGCHC 1 cut(s) 250
MlyI GAGTC 1 cut(s) 399
MnlI CCTC 6 cut(s) 73, 103, 194, 539, 603, 737
MroXI GAANNNNTTC 1 cut(s) 953
MseI TTAA 6 cut(s) 5, 42, 114, 165, 263, 855
MslI CAYNNNNRTG 2 cut(s) 307, 410
MspI CCGG 1 cut(s) 612
MspR9I CCNGG 1 cut(s) 510
MvaI CCWGG 1 cut(s) 510
NdeII GATC 6 cut(s) 142, 211, 222, 313, 535, 838
NlaIII CATG 1 cut(s) 1135
NmuCI GTSAC 1 cut(s) 583
NspI RCATGY 1 cut(s) 1135
NspV TTCGAA 1 cut(s) 57
PcsI WCGNNNNNNNCGW 1 cut(s) 63
PdmI GAANNNNTTC 1 cut(s) 953
PfeI GAWTC 4 cut(s) 525, 559, 742, 902
PkrI GCNGC 1 cut(s) 370
PleI GAGTC 1 cut(s) 398
PpsI GAGTC 1 cut(s) 398
Psp124BI GAGCTC 1 cut(s) 250
Psp1406I AACGTT 1 cut(s) 137
Psp6I CCWGG 1 cut(s) 508
PspGI CCWGG 1 cut(s) 508
PspPI GGNCC 1 cut(s) 614
RsaI GTAC 3 cut(s) 33, 472, 790
RsaNI GTAC 3 cut(s) 32, 471, 789
RseI CAYNNNNRTG 2 cut(s) 307, 410
SacI GAGCTC 1 cut(s) 250
SaqAI TTAA 6 cut(s) 5, 42, 114, 165, 263, 855
SatI GCNGC 1 cut(s) 369
Sau3AI GATC 6 cut(s) 142, 211, 222, 313, 535, 838
Sau96I GGNCC 1 cut(s) 614
ScaI AGTACT 1 cut(s) 472
SchI GAGTC 1 cut(s) 399
ScrFI CCNGG 1 cut(s) 510
SduI GDGCHC 1 cut(s) 250
SfaNI GCATC 3 cut(s) 18, 311, 355
SfcI CTRYAG 3 cut(s) 192, 474, 760
SfuI TTCGAA 1 cut(s) 57
SinI GGWCC 1 cut(s) 614
SmiMI CAYNNNNRTG 2 cut(s) 307, 410
SmlI CTYRAG 2 cut(s) 249, 596
SmoI CTYRAG 2 cut(s) 249, 596
SsiI CCGC 1 cut(s) 1158
SspI AATATT 1 cut(s) 505
SspMI CTAG 6 cut(s) 279, 354, 434, 492, 768, 777
SstI GAGCTC 1 cut(s) 250
StyD4I CCNGG 1 cut(s) 508
TaaI ACNGT 2 cut(s) 377, 478
TaiI ACGT 1 cut(s) 140
TaqI TCGA 4 cut(s) 57, 72, 410, 939
TatI WGTACW 2 cut(s) 31, 470
TfiI GAWTC 4 cut(s) 525, 559, 742, 902
Tru1I TTAA 6 cut(s) 5, 42, 114, 165, 263, 855
Tru9I TTAA 6 cut(s) 5, 42, 114, 165, 263, 855
TscAI CASTG 3 cut(s) 380, 633, 790
TseFI GTSAC 1 cut(s) 583
TseI GCWGC 1 cut(s) 368
Tsp45I GTSAC 1 cut(s) 583
TspDTI ATGAA 8 cut(s) 428, 551, 594, 669, 897, 906, 962, 1021
TspRI CASTG 3 cut(s) 380, 633, 790
VpaK11BI GGWCC 1 cut(s) 614
XapI RAATTY 5 cut(s) 53, 59, 343, 648, 1102
XceI RCATGY 1 cut(s) 1135
XmiI GTMKAC 2 cut(s) 379, 444
XmnI GAANNNNTTC 1 cut(s) 953
XspI CTAG 6 cut(s) 279, 354, 434, 492, 768, 777
ZrmI AGTACT 1 cut(s) 472
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.