RLG00000017979

Pentatricopeptide repeat-containing protein At4g02750-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0016737
Physical Location & Seq
Forward (+)
24019346 .. 24020949
1604 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000017979

Sequence Viewer

Length: 1263 bp
ATGATACTTCTGAGAACTACCGCCCGTTTGAACATCCTTTCATCCGTTTCAGGTTGTTATTACAAACCCCAACGCTTGGTTCCTTCACTGCTCAAGCTTTTCTCAACCCATCATGTATACACTTGCAACGTCAAGATTGGCTCTCTCGTTCGAGCGGGTCATATTGAAGCCGCCCGCCAACTGTTCGACGAAATGCCCCAAAGAGACGTGGTTACATGGAACGCTCTCGTTACTGGGTACTGGAAAAACGGTTACTTTCAGGAATCAAAGAGTCTGTTCGAATCGATGCCTCTCAGGAATGTGGTGTCCTGGAACTCCATGGTAGCCGGGTGCGTCGAAAATGTGATGGTTGATGAGGCTTTCAGCTACTTTCGAGCCATGCCCAAGAGGAACATTGCTTCTTGGAATGTTATGATATCTGGGTTTTTGAAGTGTGATCGGGTGGAGGAAGCTAGTAGGCTTTTTGTGGAGATGCCGTGTAGGAATGTGATTTCTTATACGGCGATGATTGATGGGTATGCAAAGACAGGAGAGATAGAGAAGGCAAGAGCATTGTTTGATGTCATGCCGCGTAAAAATGCGGTTTCTTGGACTGTGCTGATTAGTGGGTATGTGGAGAATGGGAGGTTTGATGAAGCTAGGGAATTGTACAAGCAGATGCCGGAGAAAAATGTGGTTGCTGTGACTGCTATGATCACTGGGTGCTGTAAGGAGGGTAAGATGGAAGAAGCTAGAGATTTATTCGACGAAATTCTGTTCAAGGACGATGTCTGTTGGAATGCAATGATAACAGGCTATGCACAAAATGGTAGGGGAGAGGAAGCATTGAAGTTACATTCACAAAAGCTCAAGATTGGTTTGCATCCAGATAACTGGACCCTTGTTTCTGTTCTCATGGCCTGTTCTACTCTTGCGTCACTGAAGGATGGAAGACAAGCTCATGTGCTCATTATTAAACATGGTCTCGAATCAAATGTCTCCATAAGTAATGCTTTGATTACCATGTACTGCAGATGTGGTGCGATTCTTGACTCTGAGTTAGCTTTCAAACAAATTGAGAGTCCGGACCTTGTCTCATGGAACACCATTGTTGCTGCATTTGCACAGCACGGTCTCTACGAGAAGGCTCTGGCTTTTTTCAACCAGATGAGGGTCAGTGGCTTTGAACCGGATGGCATAACATTTCTTAGTGTCTTATCTGCTTGTGCTCGTGTGGGAAAAGTGAATGAGAGCATGGATTTGTTCGACTCAATGATCAGTTAG
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

Protein Analysis

421

Amino Acids

47.19

Weight (kDa)

7.05

Isoelectric Point (pI)

36.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR PF01535 71 - 100 3.9e-06 PPR repeat
PPR_2 PF13041 131 - 163 4.1e-07 PPR repeat family
PPR PF01535 134 - 162 1.1e-06 PPR repeat
PPR_2 PF13041 161 - 193 4.6e-07 PPR repeat family
PPR_1 PF12854 161 - 189 2.9e-06 PPR repeat
PPR PF01535 164 - 193 1.8e-07 PPR repeat
PPR_2 PF13041 192 - 225 9e-08 PPR repeat family
PPR PF01535 195 - 225 4.8e-09 PPR repeat
PPR_2 PF13041 223 - 251 7.7e-07 PPR repeat family
PPR_1 PF12854 224 - 250 6.5e-06 PPR repeat
PPR PF01535 226 - 252 4.4e-07 PPR repeat
PPR_2 PF13041 255 - 301 7.7e-08 PPR repeat family
PPR PF01535 257 - 281 1.2e-06 PPR repeat
PPR_2 PF13041 355 - 404 4e-12 PPR repeat family
PPR PF01535 358 - 388 3.3e-07 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0016737)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g20280
malus_domestica MD01G1035200.v1.1 MD15G1320700.v1.1
prunus_persica Prupe.6G192600_v2.0.a1
pyrus_communis pycom01g06230 pycom15g28170
rosa_chinensis RchiOBHm_Chr2g0112421
rosa_laevigata RLG00000017979
rosa_multiflora Rmu_sc0031542.1_g000001
rosa_rugosa Rorug02G0180400
rosa_samantha Rh2BG247100 Rh2CG238200 Rh2DG241400
rosa_wichuraiana Rw2G018100

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 76
AccBSI CCGCTC 1 cut(s) 155
AccI GTMKAC 1 cut(s) 117
AccII CGCG 1 cut(s) 571
AccIII TCCGGA 1 cut(s) 1063
AciI CCGC 6 cut(s) 21, 155, 171, 175, 569, 581
AcsI RAATTY 1 cut(s) 750
AcuI CTGAAG 1 cut(s) 941
AdeI CACNNNGTG 1 cut(s) 702
AfaI GTAC 3 cut(s) 239, 650, 1007
AfiI CCNNNNNNNGG 2 cut(s) 76, 1150
AgsI TTSAA 8 cut(s) 31, 167, 430, 760, 829, 1048, 1141, 1166
AjiI CACGTC 1 cut(s) 208
AjnI CCWGG 1 cut(s) 308
AjuI GAANNNNNNNTTGG 2 cut(s) 63, 95
AluBI AGCT 8 cut(s) 97, 366, 452, 638, 731, 847, 938, 1043
AluI AGCT 8 cut(s) 97, 366, 452, 638, 731, 847, 938, 1043
Alw21I GWGCWC 2 cut(s) 948, 1210
Alw26I GTCTC 5 cut(s) 198, 968, 982, 1078, 1118
Aor13HI TCCGGA 1 cut(s) 1063
AoxI GGCC 1 cut(s) 897
ApeKI GCWGC 1 cut(s) 1094
ApoI RAATTY 1 cut(s) 750
ArsI GACNNNNNNTTYG 4 cut(s) 960, 992, 1045, 1077
AspS9I GGNCC 2 cut(s) 876, 1066
AsuC2I CCSGG 1 cut(s) 328
AsuII TTCGAA 1 cut(s) 279
AvaII GGWCC 2 cut(s) 876, 1066
BauI CACGAG 1 cut(s) 1209
BbsI GAAGAC 1 cut(s) 937
Bbv12I GWGCWC 2 cut(s) 948, 1210
BbvI GCAGC 1 cut(s) 1081
BccI CCATC 6 cut(s) 117, 340, 506, 715, 920, 1166
BceAI ACGGC 2 cut(s) 460, 516
BciT130I CCWGG 1 cut(s) 310
BclI TGATCA 2 cut(s) 693, 1254
BcnI CCSGG 1 cut(s) 328
BcoDI GTCTC 5 cut(s) 198, 968, 982, 1078, 1118
BfaI CTAG 3 cut(s) 453, 639, 732
BfmI CTRYAG 1 cut(s) 1009
BisI GCNGC 3 cut(s) 171, 569, 1095
BlsI GCNGC 3 cut(s) 172, 570, 1096
Bme1390I CCNGG 2 cut(s) 310, 328
Bme18I GGWCC 2 cut(s) 876, 1066
BmgBI CACGTC 1 cut(s) 208
BmgT120I GGNCC 2 cut(s) 876, 1066
BmiI GGNNCC 2 cut(s) 81, 878
BmrFI CCNGG 2 cut(s) 310, 328
BmrI ACTGGG 2 cut(s) 243, 708
BmsI GCATC 4 cut(s) 276, 462, 648, 871
BmuI ACTGGG 2 cut(s) 243, 708
BpiI GAAGAC 1 cut(s) 937
Bpu14I TTCGAA 1 cut(s) 279
BpuEI CTTGAG 2 cut(s) 77, 833
BpuMI CCSGG 1 cut(s) 328
Bsa29I ATCGAT 1 cut(s) 284
BsaI GGTCTC 2 cut(s) 968, 1118
BsaJI CCNNGG 1 cut(s) 318
BsaWI WCCGGW 2 cut(s) 1063, 1168
BsaXI ACNNNNNCTCC 2 cut(s) 461, 491
Bsc4I CCNNNNNNNGG 2 cut(s) 76, 1150
Bse1I ACTGG 4 cut(s) 238, 245, 703, 878
Bse3DI GCAATG 2 cut(s) 393, 789
BseAI TCCGGA 1 cut(s) 1063
BseBI CCWGG 1 cut(s) 310
BseCI ATCGAT 1 cut(s) 284
BseDI CCNNGG 1 cut(s) 318
BseGI GGATG 5 cut(s) 33, 41, 862, 931, 1177
BseLI CCNNNNNNNGG 2 cut(s) 76, 1150
BseMI GCAATG 2 cut(s) 393, 789
BseMII CTCAG 2 cut(s) 307, 1026
BseNI ACTGG 4 cut(s) 238, 245, 703, 878
BseXI GCAGC 1 cut(s) 1081
Bsh1236I CGCG 1 cut(s) 571
BshFI GGCC 1 cut(s) 899
BshVI ATCGAT 1 cut(s) 284
BsiHKAI GWGCWC 2 cut(s) 948, 1210
BsiSI CCGG 4 cut(s) 327, 662, 1064, 1169
BslI CCNNNNNNNGG 2 cut(s) 76, 1150
BsmAI GTCTC 5 cut(s) 198, 968, 982, 1078, 1118
BsmBI CGTCTC 1 cut(s) 198
BsmI GAATGC 1 cut(s) 784
BsnI GGCC 1 cut(s) 899
Bso31I GGTCTC 2 cut(s) 968, 1118
Bsp119I TTCGAA 1 cut(s) 279
Bsp1286I GDGCHC 2 cut(s) 948, 1210
Bsp13I TCCGGA 1 cut(s) 1063
Bsp1407I TGTACA 1 cut(s) 648
Bsp143I GATC 3 cut(s) 436, 693, 1254
Bsp19I CCATGG 1 cut(s) 318
BspACI CCGC 6 cut(s) 21, 155, 171, 175, 569, 581
BspANI GGCC 1 cut(s) 899
BspCNI CTCAG 2 cut(s) 306, 1027
BspDI ATCGAT 1 cut(s) 284
BspEI TCCGGA 1 cut(s) 1063
BspFNI CGCG 1 cut(s) 571
BspLI GGNNCC 2 cut(s) 81, 878
BspMAI CTGCAG 1 cut(s) 1013
BspT104I TTCGAA 1 cut(s) 279
BspTNI GGTCTC 2 cut(s) 968, 1118
BsrBI CCGCTC 1 cut(s) 155
BsrDI GCAATG 2 cut(s) 393, 789
BsrGI TGTACA 1 cut(s) 648
BsrI ACTGG 4 cut(s) 238, 245, 703, 878
BssECI CCNNGG 1 cut(s) 318
BssMI GATC 3 cut(s) 436, 693, 1254
BssNAI GTATAC 1 cut(s) 118
BssSI CACGAG 1 cut(s) 1209
BssT1I CCWWGG 1 cut(s) 318
Bst1107I GTATAC 1 cut(s) 118
Bst2BI CACGAG 1 cut(s) 1209
Bst2UI CCWGG 1 cut(s) 310
Bst4CI ACNGT 4 cut(s) 183, 251, 595, 1112
BstAUI TGTACA 1 cut(s) 648
BstBI TTCGAA 1 cut(s) 279
BstC8I GCNNGC 1 cut(s) 175
BstDEI CTNAG 4 cut(s) 11, 293, 1035, 1187
BstDSI CCRYGG 1 cut(s) 318
BstF5I GGATG 5 cut(s) 33, 41, 862, 931, 1177
BstFNI CGCG 1 cut(s) 571
BstKTI GATC 3 cut(s) 439, 696, 1257
BstMAI GTCTC 5 cut(s) 198, 968, 982, 1078, 1118
BstMBI GATC 3 cut(s) 436, 693, 1254
BstMWI GCNNNNNNNGC 2 cut(s) 686, 1100
BstNI CCWGG 1 cut(s) 310
BstSCI CCNGG 2 cut(s) 308, 326
BstSFI CTRYAG 1 cut(s) 1009
BstUI CGCG 1 cut(s) 571
BstV1I GCAGC 1 cut(s) 1081
BstV2I GAAGAC 1 cut(s) 937
BstXI CCANNNNNNTGG 1 cut(s) 873
BstZ17I GTATAC 1 cut(s) 118
Bsu15I ATCGAT 1 cut(s) 284
BsuRI GGCC 1 cut(s) 899
BsuTUI ATCGAT 1 cut(s) 284
BtgI CCRYGG 1 cut(s) 318
BtgZI GCGATG 1 cut(s) 518
BtrI CACGTC 1 cut(s) 208
BtsCI GGATG 5 cut(s) 33, 41, 862, 931, 1177
BtsI GCAGTG 1 cut(s) 86
BtsIMutI CAGTG 4 cut(s) 86, 696, 917, 1162
Cac8I GCNNGC 1 cut(s) 175
Cfr13I GGNCC 2 cut(s) 876, 1066
ClaI ATCGAT 1 cut(s) 284
CseI GACGC 2 cut(s) 322, 903
Csp6I GTAC 3 cut(s) 238, 649, 1006
CviQI GTAC 3 cut(s) 238, 649, 1006
DdeI CTNAG 4 cut(s) 11, 293, 1035, 1187
DpnI GATC 3 cut(s) 438, 695, 1256
DpnII GATC 3 cut(s) 436, 693, 1254
DraIII CACNNNGTG 1 cut(s) 702
Eco130I CCWWGG 1 cut(s) 318
Eco31I GGTCTC 2 cut(s) 968, 1118
Eco32I GATATC 1 cut(s) 417
Eco47I GGWCC 2 cut(s) 876, 1066
Eco57I CTGAAG 1 cut(s) 941
EcoRII CCWGG 1 cut(s) 308
EcoRV GATATC 1 cut(s) 417
EcoT14I CCWWGG 1 cut(s) 318
ErhI CCWWGG 1 cut(s) 318
Esp3I CGTCTC 1 cut(s) 198
FalI AAGNNNNNCTT 2 cut(s) 976, 1008
FauI CCCGC 2 cut(s) 148, 182
FbaI TGATCA 2 cut(s) 693, 1254
FblI GTMKAC 1 cut(s) 117
Fnu4HI GCNGC 3 cut(s) 171, 569, 1095
FokI GGATG 5 cut(s) 20, 28, 849, 938, 1184
Fsp4HI GCNGC 3 cut(s) 171, 569, 1095
FspBI CTAG 3 cut(s) 453, 639, 732
GluI GCNGC 3 cut(s) 171, 569, 1095
HaeIII GGCC 1 cut(s) 899
HapII CCGG 4 cut(s) 327, 662, 1064, 1169
HgaI GACGC 2 cut(s) 322, 903
HindIII AAGCTT 1 cut(s) 95
HinfI GANTC 8 cut(s) 263, 271, 281, 968, 1024, 1031, 1060, 1247
HpaII CCGG 4 cut(s) 327, 662, 1064, 1169
Hpy166II GTNNAC 1 cut(s) 118
Hpy188I TCNGA 2 cut(s) 12, 1036
Hpy188III TCNNGA 8 cut(s) 133, 260, 295, 850, 866, 965, 1028, 1064
Hpy8I GTNNAC 1 cut(s) 118
Hpy99I CGWCG 3 cut(s) 191, 338, 749
HpyAV CCTTC 4 cut(s) 93, 535, 916, 1117
HpyCH4III ACNGT 4 cut(s) 183, 251, 595, 1112
HpyCH4IV ACGT 2 cut(s) 129, 207
HpyCH4V TGCA 8 cut(s) 126, 521, 782, 800, 862, 1011, 1097, 1103
HpyF10VI GCNNNNNNNGC 2 cut(s) 686, 1100
HpyF3I CTNAG 4 cut(s) 11, 293, 1035, 1187
HpySE526I ACGT 2 cut(s) 129, 207
Kpn2I TCCGGA 1 cut(s) 1063
Ksp22I TGATCA 2 cut(s) 693, 1254
Kzo9I GATC 3 cut(s) 436, 693, 1254
Lsp1109I GCAGC 1 cut(s) 1081
LweI GCATC 4 cut(s) 276, 462, 648, 871
MaeI CTAG 3 cut(s) 453, 639, 732
MaeII ACGT 2 cut(s) 129, 207
MaeIII GTNAC 6 cut(s) 211, 229, 251, 682, 831, 915
MalI GATC 3 cut(s) 438, 695, 1256
MbiI CCGCTC 1 cut(s) 155
MboI GATC 3 cut(s) 436, 693, 1254
MboII GAAGA 2 cut(s) 737, 942
MhlI GDGCHC 2 cut(s) 948, 1210
MluCI AATT 3 cut(s) 644, 750, 1053
MlyI GAGTC 4 cut(s) 280, 1025, 1069, 1241
MmeI TCCRAC 1 cut(s) 755
MnlI CCTC 8 cut(s) 300, 349, 381, 439, 618, 706, 811, 1143
MroI TCCGGA 1 cut(s) 1063
MseI TTAA 1 cut(s) 954
MspI CCGG 4 cut(s) 327, 662, 1064, 1169
MspR9I CCNGG 2 cut(s) 310, 328
Mva1269I GAATGC 1 cut(s) 784
MvaI CCWGG 1 cut(s) 310
MvnI CGCG 1 cut(s) 571
MwoI GCNNNNNNNGC 2 cut(s) 686, 1100
NciI CCSGG 1 cut(s) 328
NcoI CCATGG 1 cut(s) 318
NdeII GATC 3 cut(s) 436, 693, 1254
NlaIV GGNNCC 2 cut(s) 81, 878
NmuCI GTSAC 2 cut(s) 682, 915
NspV TTCGAA 1 cut(s) 279
PcsI WCGNNNNNNNCGW 1 cut(s) 1116
PctI GAATGC 1 cut(s) 784
PfeI GAWTC 4 cut(s) 263, 281, 968, 1024
PflFI GACNNNGTC 2 cut(s) 767, 1070
PflMI CCANNNNNTGG 1 cut(s) 76
PfoI TCCNGGA 1 cut(s) 308
PkrI GCNGC 3 cut(s) 172, 570, 1096
PleI GAGTC 4 cut(s) 279, 1025, 1068, 1241
PpsI GAGTC 4 cut(s) 279, 1025, 1068, 1241
Psp6I CCWGG 1 cut(s) 308
PspGI CCWGG 1 cut(s) 308
PspN4I GGNNCC 2 cut(s) 81, 878
PspPI GGNCC 2 cut(s) 876, 1066
PstI CTGCAG 1 cut(s) 1013
PsyI GACNNNGTC 2 cut(s) 767, 1070
RsaI GTAC 3 cut(s) 239, 650, 1007
RsaNI GTAC 3 cut(s) 238, 649, 1006
SaqAI TTAA 1 cut(s) 954
SatI GCNGC 3 cut(s) 171, 569, 1095
Sau3AI GATC 3 cut(s) 436, 693, 1254
Sau96I GGNCC 2 cut(s) 876, 1066
SchI GAGTC 4 cut(s) 280, 1025, 1069, 1241
ScrFI CCNGG 2 cut(s) 310, 328
SduI GDGCHC 2 cut(s) 948, 1210
SfaNI GCATC 4 cut(s) 276, 462, 648, 871
SfcI CTRYAG 1 cut(s) 1009
SfuI TTCGAA 1 cut(s) 279
SinI GGWCC 2 cut(s) 876, 1066
SmlI CTYRAG 2 cut(s) 92, 848
SmoI CTYRAG 2 cut(s) 92, 848
Sse9I AATT 3 cut(s) 644, 750, 1053
SsiI CCGC 6 cut(s) 21, 155, 171, 175, 569, 581
SspMI CTAG 3 cut(s) 453, 639, 732
StyD4I CCNGG 2 cut(s) 308, 326
StyI CCWWGG 1 cut(s) 318
TaaI ACNGT 4 cut(s) 183, 251, 595, 1112
TaiI ACGT 2 cut(s) 132, 210
TaqI TCGA 9 cut(s) 151, 186, 279, 284, 336, 373, 744, 966, 1245
TasI AATT 3 cut(s) 644, 750, 1053
TatI WGTACW 2 cut(s) 648, 1005
TauI GCSGC 2 cut(s) 173, 571
TfiI GAWTC 4 cut(s) 263, 281, 968, 1024
Tru1I TTAA 1 cut(s) 954
Tru9I TTAA 1 cut(s) 954
TscAI CASTG 4 cut(s) 93, 703, 924, 1162
TseFI GTSAC 2 cut(s) 682, 915
TseI GCWGC 1 cut(s) 1094
Tsp45I GTSAC 2 cut(s) 682, 915
TspDTI ATGAA 2 cut(s) 30, 648
TspGWI ACGGA 1 cut(s) 34
TspRI CASTG 4 cut(s) 93, 703, 924, 1162
Tth111I GACNNNGTC 2 cut(s) 767, 1070
Van91I CCANNNNNTGG 1 cut(s) 76
VpaK11BI GGWCC 2 cut(s) 876, 1066
XapI RAATTY 1 cut(s) 750
XmiI GTMKAC 1 cut(s) 117
XspI CTAG 3 cut(s) 453, 639, 732
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.