Rh4DG020500

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0006344
Physical Location & Seq
Reverse (-)
3202855 .. 3204237
1383 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG020500.1

Sequence Viewer

Length: 1383 bp
ATGCTTGCGAAGCTCCAGCTGGACTTCCCCGTTTTGGGTTCTACAAGGACCTCACCCAACACAGGACTCCCTCCACTGGAGAAACTCGAACTCATAACCAGAGATAGGAAGCAGAGAGTGCTTCACGGAGGAGGGTTCAAGAAGGGTTTTGGTGAAGTTTGTAGACCCAGACACAGTAATGGTGGCAGTGTTGTTGTTCATGAAGTTGGGTTGAAGAAGCGTGGTTTTGGGAAGAACCCAGGTGAGGAAAAGGGATTAGAGAATCTAGGTGATGGTGGGTTTGTGGAAAGAAAGGATTTTGGGGTTGAATTGGGGTTGGGGGGTGGGAATGGTGTGGTGAAGAAAGTGCAGACCAAGTGTTCGACGAAATGGCTGAGTTACGGTGGGTGCATTCCGGCAATGTTGACGGCGTTGGAGGAAGTTGAGGACTTGGATGAGGCTCTGAGGCCGTGGGGAGAGACGCTTAGTAATAAGGAAAGGAGCATAATTTTGAAGGAGCAGAGGAGTTGGGAAAGGGCTTTGGAGATTTTCGAGTGGTTTAAGAAGAAGGGGTGTTATGAGTTGCATGTGATTCACTATAATATAGTGCTTAGGATTCTTGGGAAGGCGAAGAAGTGGAGTCATCTAAGGAGTCTTTGGGATGAGATGAACGTGGAAAGAATAGCACCCATTAACTCAACTTATGGGACTTTGATTGATGTTTACAGTAAAGGTGGGTTCGAAAAGGAAGCGCTTATATGGCTGCAGAGGATGACCAAGCAAGGAATGAAACGTGATGAGGTTACTATGGCCATTGTGCTGCAGTTGTATAAGAAAGCAGGGGAGTACCGAAAAGCGGAGGAGTTTTTTGAGAAATGGTCGGAGAGCTCCTTGCATTGTCATGGTTCTTTGAGCTCGTATAACACATTGATCGACACGCGTGGAAAGGCTGGCCAGCTTAAAGAAGCGTCGGAAATGTTTGCATCGATGCTGAGGGAAGGGATTGCTCCAACTACGGTGACTTTTAATACAATGATTCACATTTGCGGTAATCATGGTCAGCTTGCAGAAGTTGCTTCACTTATGCAGAAGATGGAAGAGGTTCGATGCCCACCAGACACGAGAACATATAATATTCTGATTTCCCTCCATGCTAGGCATGATAATATAGACACAGCTACAAACTACTTCGCAAAGATGAAGGAGGCTTGCCTTGAGCCAGACCCTGTGAGTTATCGCACCCCTTTGTATGCATACTTTGTAAGGTACATGGTTAGCAAAGCTGAAGAGCTCATATCAGAGATGGATGAAAGGGGGCTTGAGATTGATGAGTTCACTCATTCAGCTCTGACTAGGATGTACATAGAAGCTGGGTTGCTTGAGAAGTCTTGGGTTGGTTCATGA

Protein Analysis

460

Amino Acids

52.1

Weight (kDa)

7.99

Isoelectric Point (pI)

38.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 298 - 342 3e-11 PPR repeat family
PPR_3 PF13812 298 - 344 2.4e-08 Pentatricopeptide repeat domain
PPR_long PF17177 300 - 453 1.3e-10 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 330 - 376 2.3e-12 PPR repeat family
PPR_2 PF13041 365 - 409 1.7e-07 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 163
AccII CGCG 1 cut(s) 919
AciI CCGC 2 cut(s) 836, 1026
AcoI YGGCCR 2 cut(s) 789, 931
AcuI CTGAAG 1 cut(s) 1284
AfaI GTAC 3 cut(s) 827, 1247, 1340
AfeI AGCGCT 1 cut(s) 732
AfiI CCNNNNNNNGG 7 cut(s) 34, 35, 62, 76, 105, 244, 835
AflIII ACRYGT 1 cut(s) 917
AgsI TTSAA 4 cut(s) 139, 214, 308, 493
AjnI CCWGG 1 cut(s) 238
Alw21I GWGCWC 3 cut(s) 869, 896, 1272
Alw26I GTCTC 1 cut(s) 452
AlwNI CAGNNNCTG 1 cut(s) 1205
Aor51HI AGCGCT 1 cut(s) 732
AoxI GGCC 3 cut(s) 446, 789, 931
ApeKI GCWGC 2 cut(s) 742, 799
ArsI GACNNNNNNTTYG 2 cut(s) 343, 375
Asp700I GAANNNNTTC 1 cut(s) 1080
AspLEI GCGC 1 cut(s) 733
AspS9I GGNCC 1 cut(s) 48
AsuHPI GGTGA 6 cut(s) 45, 164, 254, 281, 349, 1009
AsuII TTCGAA 1 cut(s) 720
AvaII GGWCC 1 cut(s) 48
BalI TGGCCA 2 cut(s) 791, 933
BanII GRGCYC 3 cut(s) 869, 896, 1272
BauI CACGAG 1 cut(s) 1099
Bbv12I GWGCWC 3 cut(s) 869, 896, 1272
BbvCI CCTCAGC 1 cut(s) 971
BbvI GCAGC 2 cut(s) 729, 786
BccI CCATC 3 cut(s) 266, 1066, 1276
BceAI ACGGC 2 cut(s) 423, 433
BciT130I CCWGG 1 cut(s) 240
BcoDI GTCTC 1 cut(s) 452
BfaI CTAG 3 cut(s) 266, 1134, 1332
BfmI CTRYAG 2 cut(s) 743, 800
BfoI RGCGCY 1 cut(s) 734
BisI GCNGC 2 cut(s) 743, 800
BlsI GCNGC 2 cut(s) 744, 801
Bme1390I CCNGG 1 cut(s) 240
Bme18I GGWCC 1 cut(s) 48
BmgT120I GGNCC 1 cut(s) 48
BmrFI CCNGG 1 cut(s) 240
BmsI GCATC 3 cut(s) 957, 971, 1076
BpmI CTGGAG 1 cut(s) 98
Bpu10I CCTNAGC 2 cut(s) 590, 971
Bpu14I TTCGAA 1 cut(s) 720
BpuEI CTTGAG 3 cut(s) 1214, 1319, 1379
Bsa29I ATCGAT 1 cut(s) 965
BsaJI CCNNGG 2 cut(s) 238, 449
Bsc4I CCNNNNNNNGG 7 cut(s) 34, 35, 62, 76, 105, 244, 835
Bse1I ACTGG 1 cut(s) 81
Bse3DI GCAATG 1 cut(s) 405
BseBI CCWGG 1 cut(s) 240
BseCI ATCGAT 1 cut(s) 965
BseDI CCNNGG 2 cut(s) 238, 449
BseGI GGATG 5 cut(s) 439, 646, 756, 1291, 1341
BseLI CCNNNNNNNGG 7 cut(s) 34, 35, 62, 76, 105, 244, 835
BseMI GCAATG 1 cut(s) 405
BseMII CTCAG 3 cut(s) 365, 434, 962
BseNI ACTGG 1 cut(s) 81
BseRI GAGGAG 3 cut(s) 144, 517, 854
BseXI GCAGC 2 cut(s) 729, 786
BseYI CCCAGC 1 cut(s) 1349
BsgI GTGCAG 1 cut(s) 368
Bsh1236I CGCG 1 cut(s) 919
BshFI GGCC 3 cut(s) 448, 791, 933
BshVI ATCGAT 1 cut(s) 965
BsiHKAI GWGCWC 3 cut(s) 869, 896, 1272
BsiSI CCGG 1 cut(s) 395
BslFI GGGAC 1 cut(s) 700
BslI CCNNNNNNNGG 7 cut(s) 34, 35, 62, 76, 105, 244, 835
BsmAI GTCTC 1 cut(s) 452
BsmBI CGTCTC 1 cut(s) 452
BsmFI GGGAC 1 cut(s) 700
BsmI GAATGC 1 cut(s) 390
BsnI GGCC 3 cut(s) 448, 791, 933
Bsp119I TTCGAA 1 cut(s) 720
Bsp1286I GDGCHC 3 cut(s) 869, 896, 1272
Bsp1407I TGTACA 1 cut(s) 1338
Bsp143I GATC 1 cut(s) 909
BspACI CCGC 2 cut(s) 836, 1026
BspANI GGCC 3 cut(s) 448, 791, 933
BspCNI CTCAG 3 cut(s) 366, 435, 963
BspDI ATCGAT 1 cut(s) 965
BspFNI CGCG 1 cut(s) 919
BspHI TCATGA 2 cut(s) 199, 1379
BspMAI CTGCAG 2 cut(s) 747, 804
BspQI GCTCTTC 1 cut(s) 1260
BspT104I TTCGAA 1 cut(s) 720
BsrDI GCAATG 1 cut(s) 405
BsrGI TGTACA 1 cut(s) 1338
BsrI ACTGG 1 cut(s) 81
BssECI CCNNGG 2 cut(s) 238, 449
BssMI GATC 1 cut(s) 909
BssSI CACGAG 1 cut(s) 1099
Bst2BI CACGAG 1 cut(s) 1099
Bst2UI CCWGG 1 cut(s) 240
Bst4CI ACNGT 4 cut(s) 176, 383, 707, 997
Bst6I CTCTTC 2 cut(s) 1071, 1260
BstAPI GCANNNNNTGC 2 cut(s) 118, 1052
BstAUI TGTACA 1 cut(s) 1338
BstBI TTCGAA 1 cut(s) 720
BstC8I GCNNGC 5 cut(s) 6, 931, 935, 1044, 1189
BstDEI CTNAG 6 cut(s) 374, 443, 464, 590, 626, 971
BstDSI CCRYGG 1 cut(s) 449
BstF5I GGATG 5 cut(s) 439, 646, 756, 1291, 1341
BstFNI CGCG 1 cut(s) 919
BstH2I RGCGCY 1 cut(s) 734
BstHHI GCGC 1 cut(s) 733
BstKTI GATC 1 cut(s) 912
BstMAI GTCTC 1 cut(s) 452
BstMBI GATC 1 cut(s) 909
BstMWI GCNNNNNNNGC 4 cut(s) 10, 118, 739, 1052
BstNI CCWGG 1 cut(s) 240
BstNSI RCATGY 1 cut(s) 569
BstSCI CCNGG 1 cut(s) 238
BstSFI CTRYAG 2 cut(s) 743, 800
BstUI CGCG 1 cut(s) 919
BstV1I GCAGC 2 cut(s) 729, 786
Bsu15I ATCGAT 1 cut(s) 965
BsuRI GGCC 3 cut(s) 448, 791, 933
BsuTUI ATCGAT 1 cut(s) 965
BtgI CCRYGG 1 cut(s) 449
BtsCI GGATG 5 cut(s) 439, 646, 756, 1291, 1341
BtsI GCAGTG 1 cut(s) 193
BtsIMutI CAGTG 2 cut(s) 74, 193
Cac8I GCNNGC 5 cut(s) 6, 931, 935, 1044, 1189
CaiI CAGNNNCTG 1 cut(s) 1205
CciI TCATGA 2 cut(s) 199, 1379
CfoI GCGC 1 cut(s) 733
Cfr13I GGNCC 1 cut(s) 48
ClaI ATCGAT 1 cut(s) 965
CseI GACGC 2 cut(s) 469, 936
Csp6I GTAC 3 cut(s) 826, 1246, 1339
CviAII CATG 8 cut(s) 200, 566, 881, 1034, 1130, 1139, 1249, 1380
CviQI GTAC 3 cut(s) 826, 1246, 1339
DdeI CTNAG 6 cut(s) 374, 443, 464, 590, 626, 971
DpnI GATC 1 cut(s) 911
DpnII GATC 1 cut(s) 909
EaeI YGGCCR 2 cut(s) 789, 931
Eam1104I CTCTTC 2 cut(s) 1071, 1260
EarI CTCTTC 2 cut(s) 1071, 1260
Ecl136II GAGCTC 3 cut(s) 867, 894, 1270
Eco24I GRGCYC 3 cut(s) 869, 896, 1272
Eco47I GGWCC 1 cut(s) 48
Eco47III AGCGCT 1 cut(s) 732
Eco53kI GAGCTC 3 cut(s) 867, 894, 1270
Eco57I CTGAAG 1 cut(s) 1284
EcoICRI GAGCTC 3 cut(s) 867, 894, 1270
EcoO109I RGGNCCY 1 cut(s) 48
EcoRII CCWGG 1 cut(s) 238
EcoT22I ATGCAT 1 cut(s) 1234
EcoT38I GRGCYC 3 cut(s) 869, 896, 1272
Esp3I CGTCTC 1 cut(s) 452
FaeI CATG 8 cut(s) 203, 569, 884, 1037, 1133, 1142, 1252, 1383
FaqI GGGAC 1 cut(s) 700
FatI CATG 8 cut(s) 199, 565, 880, 1033, 1129, 1138, 1248, 1379
FblI GTMKAC 1 cut(s) 163
Fnu4HI GCNGC 2 cut(s) 743, 800
FokI GGATG 5 cut(s) 446, 653, 763, 1298, 1348
FriOI GRGCYC 3 cut(s) 869, 896, 1272
Fsp4HI GCNGC 2 cut(s) 743, 800
FspBI CTAG 3 cut(s) 266, 1134, 1332
GlaI GCGC 1 cut(s) 732
GluI GCNGC 2 cut(s) 743, 800
GsaI CCCAGC 1 cut(s) 1353
GsuI CTGGAG 1 cut(s) 98
HaeII RGCGCY 1 cut(s) 734
HaeIII GGCC 3 cut(s) 448, 791, 933
HapII CCGG 1 cut(s) 395
HgaI GACGC 2 cut(s) 469, 936
HhaI GCGC 1 cut(s) 733
Hin1II CATG 8 cut(s) 203, 569, 884, 1037, 1133, 1142, 1252, 1383
Hin6I GCGC 1 cut(s) 731
HinP1I GCGC 1 cut(s) 731
HincII GTYRAC 1 cut(s) 405
HindII GTYRAC 1 cut(s) 405
HinfI GANTC 7 cut(s) 66, 262, 571, 595, 619, 631, 1015
HpaII CCGG 1 cut(s) 395
HphI GGTGA 6 cut(s) 45, 164, 254, 281, 349, 1009
Hpy166II GTNNAC 4 cut(s) 164, 405, 703, 1314
Hpy188I TCNGA 6 cut(s) 444, 862, 952, 1119, 1279, 1329
Hpy188III TCNNGA 3 cut(s) 139, 200, 1380
Hpy8I GTNNAC 4 cut(s) 164, 405, 703, 1314
Hpy99I CGWCG 2 cut(s) 367, 952
HpyAV CCTTC 6 cut(s) 136, 487, 541, 598, 971, 1174
HpyCH4III ACNGT 4 cut(s) 176, 383, 707, 997
HpyCH4IV ACGT 2 cut(s) 651, 772
HpyF10VI GCNNNNNNNGC 4 cut(s) 10, 118, 739, 1052
HpyF3I CTNAG 6 cut(s) 374, 443, 464, 590, 626, 971
HpySE526I ACGT 2 cut(s) 651, 772
Hsp92II CATG 8 cut(s) 203, 569, 884, 1037, 1133, 1142, 1252, 1383
HspAI GCGC 1 cut(s) 731
Kzo9I GATC 1 cut(s) 909
LguI GCTCTTC 1 cut(s) 1260
LmnI GCTCC 5 cut(s) 18, 480, 496, 872, 991
Lsp1109I GCAGC 2 cut(s) 729, 786
LweI GCATC 3 cut(s) 957, 971, 1076
MaeI CTAG 3 cut(s) 266, 1134, 1332
MaeII ACGT 2 cut(s) 651, 772
MaeIII GTNAC 3 cut(s) 377, 781, 997
MalI GATC 1 cut(s) 911
MboI GATC 1 cut(s) 909
MboII GAAGA 8 cut(s) 226, 244, 352, 556, 622, 1081, 1088, 1277
MhlI GDGCHC 3 cut(s) 869, 896, 1272
MlsI TGGCCA 2 cut(s) 791, 933
MluCI AATT 2 cut(s) 308, 486
MluI ACGCGT 1 cut(s) 917
MluNI TGGCCA 2 cut(s) 791, 933
MlyI GAGTC 3 cut(s) 60, 628, 640
MmeI TCCRAC 4 cut(s) 393, 840, 930, 1013
Mox20I TGGCCA 2 cut(s) 791, 933
Mph1103I ATGCAT 1 cut(s) 1234
MroXI GAANNNNTTC 1 cut(s) 1080
MscI TGGCCA 2 cut(s) 791, 933
MseI TTAA 4 cut(s) 540, 672, 939, 1005
MslI CAYNNNNRTG 2 cut(s) 177, 879
Msp20I TGGCCA 2 cut(s) 791, 933
MspA1I CMGCKG 1 cut(s) 19
MspI CCGG 1 cut(s) 395
MspR9I CCNGG 1 cut(s) 240
Mva1269I GAATGC 1 cut(s) 390
MvaI CCWGG 1 cut(s) 240
MvnI CGCG 1 cut(s) 919
MwoI GCNNNNNNNGC 4 cut(s) 10, 118, 739, 1052
NdeII GATC 1 cut(s) 909
NlaIII CATG 8 cut(s) 203, 569, 884, 1037, 1133, 1142, 1252, 1383
NmuCI GTSAC 1 cut(s) 997
NsiI ATGCAT 1 cut(s) 1234
NspI RCATGY 1 cut(s) 569
NspV TTCGAA 1 cut(s) 720
PagI TCATGA 2 cut(s) 199, 1379
PciSI GCTCTTC 1 cut(s) 1260
PctI GAATGC 1 cut(s) 390
PdmI GAANNNNTTC 1 cut(s) 1080
PfeI GAWTC 4 cut(s) 262, 571, 595, 1015
PkrI GCNGC 2 cut(s) 744, 801
PleI GAGTC 3 cut(s) 60, 627, 639
PpsI GAGTC 3 cut(s) 60, 627, 639
PpuMI RGGWCCY 1 cut(s) 48
Psp124BI GAGCTC 3 cut(s) 869, 896, 1272
Psp5II RGGWCCY 1 cut(s) 48
Psp6I CCWGG 1 cut(s) 238
PspFI CCCAGC 1 cut(s) 1349
PspGI CCWGG 1 cut(s) 238
PspPI GGNCC 1 cut(s) 48
PspPPI RGGWCCY 1 cut(s) 48
PstI CTGCAG 2 cut(s) 747, 804
PstNI CAGNNNCTG 1 cut(s) 1205
PvuII CAGCTG 1 cut(s) 19
RsaI GTAC 3 cut(s) 827, 1247, 1340
RsaNI GTAC 3 cut(s) 826, 1246, 1339
RseI CAYNNNNRTG 2 cut(s) 177, 879
SacI GAGCTC 3 cut(s) 869, 896, 1272
SapI GCTCTTC 1 cut(s) 1260
SaqAI TTAA 4 cut(s) 540, 672, 939, 1005
SatI GCNGC 2 cut(s) 743, 800
Sau3AI GATC 1 cut(s) 909
Sau96I GGNCC 1 cut(s) 48
SchI GAGTC 3 cut(s) 60, 628, 640
ScrFI CCNGG 1 cut(s) 240
SduI GDGCHC 3 cut(s) 869, 896, 1272
SfaNI GCATC 3 cut(s) 957, 971, 1076
SfcI CTRYAG 2 cut(s) 743, 800
SfuI TTCGAA 1 cut(s) 720
SinI GGWCC 1 cut(s) 48
SmiMI CAYNNNNRTG 2 cut(s) 177, 879
SmlI CTYRAG 3 cut(s) 1193, 1298, 1358
SmoI CTYRAG 3 cut(s) 1193, 1298, 1358
Sse9I AATT 2 cut(s) 308, 486
SsiI CCGC 2 cut(s) 836, 1026
SspI AATATT 1 cut(s) 1114
SspMI CTAG 3 cut(s) 266, 1134, 1332
SstI GAGCTC 3 cut(s) 869, 896, 1272
StyD4I CCNGG 1 cut(s) 238
TaaI ACNGT 4 cut(s) 176, 383, 707, 997
TaiI ACGT 2 cut(s) 654, 775
TaqI TCGA 7 cut(s) 87, 362, 531, 720, 912, 965, 1084
TasI AATT 2 cut(s) 308, 486
TatI WGTACW 1 cut(s) 1338
TfiI GAWTC 4 cut(s) 262, 571, 595, 1015
Tru1I TTAA 4 cut(s) 540, 672, 939, 1005
Tru9I TTAA 4 cut(s) 540, 672, 939, 1005
TscAI CASTG 2 cut(s) 81, 193
TseFI GTSAC 1 cut(s) 997
TseI GCWGC 2 cut(s) 742, 799
Tsp45I GTSAC 1 cut(s) 997
TspDTI ATGAA 7 cut(s) 188, 216, 662, 782, 1193, 1302, 1368
TspGWI ACGGA 1 cut(s) 141
TspRI CASTG 2 cut(s) 81, 193
VpaK11BI GGWCC 1 cut(s) 48
XceI RCATGY 1 cut(s) 569
XmiI GTMKAC 1 cut(s) 163
XmnI GAANNNNTTC 1 cut(s) 1080
XspI CTAG 3 cut(s) 266, 1134, 1332
Zsp2I ATGCAT 1 cut(s) 1234
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.