Rh2DG560700

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0009495
Physical Location & Seq
Reverse (-)
78979246 .. 78980655
1410 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG560700.1

Sequence Viewer

Length: 1410 bp
ATGCTGGAGTCTTTGCTTCAGCTCCTCCAACGCTTCCTGAAAAGCCCAAACCAAATCAAACAAATCCATTCCCGCCTAATCACCAACGGTCATCTCCGTCGTAACCCAAACCCTAAATTTTCAAAATGGAGGACAACCCTATTCTACAACACTCTCATCAGAGCCCACCTCGGTTTCGGCGAAGCCCACAAGGCTTTTTTTCTCTTTACCCAGATGCTTTCCCACCAAGCCCACCCCAACAGCCACACATTCCCTCCACTCGTCAAAGCCGTCGCTGGAGGCGGTGGCTGGCCATGTTACGGCAGAGCCCTCCACGCCCAAGTTACGAAATGCGGCGTCTGGGGTGACCCGGTTGTGCAGACGTCGTTTGTGAGCATGTATGCTCGGTTTGGTGAAGTGTGGGATGCACGTAAGGTGTTCGATGAAATGACTGAACCGTGTGTGGTTGCGTGCAATGCGATGATTGATGGGTTGGGGAAGAATGGGGACATGGGTGGTGCTGTTTCGATGTTTGAAAGGATGCCGGAGAGGGACGTGGTTTCGTGGACGAGTGTGATTAGTGGGTTTGGGAGGAATGGGTGGTTTGGTGAGGGGGTTTGGTTTTTCAAGAGGATGATGGGGAGTGAGGATGTGAGGGGTGGTTTTGTGAAGCCAAATGAAGCTACTTTTGTTAGTGTGCTTTCTTCATGTGCTAATTTGGATGGGTGGGGATCTCTTTATTGGGGGAAGCAAATTCATGGGCATGTTGTTAGGAATGAGGTGCAGTTGAGTGTTTTTATGGGGACTGCATTGGTGGATCTTTATGGGAAGTCGGGTTGTTTGAGTGGTGCTTGGAATGTTTTCGAGGAAATGAGGGTTAAAGAAGTTTGTACATGGAACGCAATGATCTCAGCGCTTTCTTTGAATGGCAGGGAGAAGGAGGCTTTGGAGTTGTTTGAGAAAATGATGGAAAAGAGGTTGCGGCCGAATGAGGTTACATTTGTTGCAGTTCTCACAGCTTGTGCTCGTGGGAATTCGGTGAAGTGTGGTTTGGATTTGTTTAAATCAATGTCCAAGGAGTTTGGGGTTGAACCAATAATGGAACACTATGGTTGTGTGGTTGATCTCCTCGGCAGAGCAGGACTTTTTAAGGAGGCAACTGAACTTCTTAAGAACATGCCTTTTGAGCCTGATGCTTCTGTGTTGGGGGCTCTTTTGGGTTCTTGTAAGATTCATGGGACCACTGAGCTGGGAAATGAAGTTGGGAAAAAATTGATTGAGTTGCAGCCACAGCATTGTGGACGATACTTGGTTTTGTCAAACATTTATGCTGCGAACGAGAGGTGGGATCATGCTGCTTCTGTGAGGAAAGCAATGGTACATGCTGGAATTCAGAAAATTCCAGCCTTTAGTAGGATTGATGTAAGGTAG

Protein Analysis

469

Amino Acids

52.25

Weight (kDa)

8.91

Isoelectric Point (pI)

32.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 46 - 90 1.9e-06 PPR repeat family
PPR_2 PF13041 146 - 178 1.1e-06 PPR repeat family
PPR PF01535 149 - 178 3.5e-07 PPR repeat
PPR PF01535 180 - 207 6e-06 PPR repeat
PPR_2 PF13041 289 - 336 1.4e-11 PPR repeat family
PPR_3 PF13812 289 - 334 1.9e-07 Pentatricopeptide repeat domain
PPR PF01535 291 - 319 3.8e-08 PPR repeat
E_motif PF20431 406 - 466 1.7e-11 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 365
AciI CCGC 4 cut(s) 73, 282, 333, 961
AclWI GGATC 3 cut(s) 718, 804, 1335
AcoI YGGCCR 2 cut(s) 290, 962
AcsI RAATTY 5 cut(s) 116, 732, 1012, 1368, 1377
AcyI GRCGYC 2 cut(s) 336, 362
AfaI GTAC 2 cut(s) 871, 1359
AfeI AGCGCT 1 cut(s) 894
AfiI CCNNNNNNNGG 2 cut(s) 299, 1392
AflII CTTAAG 1 cut(s) 1148
AgsI TTSAA 5 cut(s) 123, 515, 607, 904, 1070
AjiI CACGTC 1 cut(s) 535
AjuI GAANNNNNNNTTGG 4 cut(s) 908, 940, 1013, 1045
AluBI AGCT 4 cut(s) 22, 662, 998, 1228
AluI AGCT 4 cut(s) 22, 662, 998, 1228
Alw21I GWGCWC 1 cut(s) 1006
AlwI GGATC 3 cut(s) 718, 804, 1335
Aor51HI AGCGCT 1 cut(s) 894
AoxI GGCC 2 cut(s) 290, 962
ApeKI GCWGC 3 cut(s) 1264, 1310, 1334
ApoI RAATTY 5 cut(s) 116, 732, 1012, 1368, 1377
Asp700I GAANNNNTTC 1 cut(s) 839
AspLEI GCGC 1 cut(s) 895
AspS9I GGNCC 1 cut(s) 1218
AsuC2I CCSGG 1 cut(s) 350
AsuHPI GGTGA 5 cut(s) 73, 356, 404, 599, 1030
AvaII GGWCC 1 cut(s) 1218
BalI TGGCCA 1 cut(s) 292
BanII GRGCYC 3 cut(s) 166, 310, 1192
BauI CACGAG 1 cut(s) 1005
Bbv12I GWGCWC 1 cut(s) 1006
BbvI GCAGC 3 cut(s) 1276, 1297, 1321
BccI CCATC 4 cut(s) 461, 610, 695, 940
BceAI ACGGC 2 cut(s) 254, 316
BcnI CCSGG 1 cut(s) 350
BfoI RGCGCY 1 cut(s) 896
BfrI CTTAAG 1 cut(s) 1148
BglI GCCNNNNNGGC 1 cut(s) 191
BisI GCNGC 5 cut(s) 334, 962, 1265, 1311, 1335
BlsI GCNGC 5 cut(s) 335, 963, 1266, 1312, 1336
Bme1390I CCNGG 1 cut(s) 350
Bme18I GGWCC 1 cut(s) 1218
BmgBI CACGTC 1 cut(s) 535
BmgT120I GGNCC 1 cut(s) 1218
BmiI GGNNCC 1 cut(s) 1219
BmrFI CCNGG 1 cut(s) 350
BmsI GCATC 4 cut(s) 204, 394, 510, 1162
BplI GAGNNNNNCTC 2 cut(s) 153, 185
BpmI CTGGAG 2 cut(s) 26, 297
BpuMI CCSGG 1 cut(s) 350
BsaAI YACGTR 1 cut(s) 410
BsaHI GRCGYC 2 cut(s) 336, 362
BsaJI CCNNGG 3 cut(s) 169, 1053, 1108
BsaXI ACNNNNNCTCC 2 cut(s) 238, 268
Bsc4I CCNNNNNNNGG 2 cut(s) 299, 1392
Bse3DI GCAATG 3 cut(s) 460, 888, 1359
BseDI CCNNGG 3 cut(s) 169, 1053, 1108
BseGI GGATG 5 cut(s) 409, 525, 618, 634, 706
BseLI CCNNNNNNNGG 2 cut(s) 299, 1392
BseMI GCAATG 3 cut(s) 460, 888, 1359
BseMII CTCAG 2 cut(s) 903, 1215
BseRI GAGGAG 2 cut(s) 14, 1097
BseX3I CGGCCG 1 cut(s) 962
BseXI GCAGC 3 cut(s) 1276, 1297, 1321
BseYI CCCAGC 1 cut(s) 1228
BsgI GTGCAG 2 cut(s) 377, 782
Bsh1285I CGRYCG 1 cut(s) 965
BshFI GGCC 2 cut(s) 292, 964
BsiEI CGRYCG 1 cut(s) 965
BsiHKAI GWGCWC 1 cut(s) 1006
BsiSI CCGG 2 cut(s) 350, 524
BslFI GGGAC 4 cut(s) 500, 545, 796, 1231
BslI CCNNNNNNNGG 2 cut(s) 299, 1392
BsmFI GGGAC 4 cut(s) 500, 545, 796, 1231
BsnI GGCC 2 cut(s) 292, 964
Bsp1286I GDGCHC 4 cut(s) 166, 310, 1006, 1192
Bsp1407I TGTACA 1 cut(s) 869
Bsp143I GATC 5 cut(s) 710, 796, 885, 1102, 1327
BspACI CCGC 4 cut(s) 73, 282, 333, 961
BspANI GGCC 2 cut(s) 292, 964
BspCNI CTCAG 2 cut(s) 902, 1216
BspLI GGNNCC 1 cut(s) 1219
BspPI GGATC 3 cut(s) 718, 804, 1335
BspTI CTTAAG 1 cut(s) 1148
BsrDI GCAATG 3 cut(s) 460, 888, 1359
BsrGI TGTACA 1 cut(s) 869
BssECI CCNNGG 3 cut(s) 169, 1053, 1108
BssMI GATC 5 cut(s) 710, 796, 885, 1102, 1327
BssNI GRCGYC 2 cut(s) 336, 362
BssSI CACGAG 1 cut(s) 1005
BssT1I CCWWGG 1 cut(s) 1053
Bst2BI CACGAG 1 cut(s) 1005
Bst4CI ACNGT 2 cut(s) 89, 438
BstACI GRCGYC 2 cut(s) 336, 362
BstAFI CTTAAG 1 cut(s) 1148
BstAUI TGTACA 1 cut(s) 869
BstBAI YACGTR 1 cut(s) 410
BstC8I GCNNGC 2 cut(s) 290, 451
BstDEI CTNAG 2 cut(s) 889, 1224
BstEII GGTNACC 1 cut(s) 344
BstENI CCTNNNNNAGG 1 cut(s) 1390
BstF5I GGATG 5 cut(s) 409, 525, 618, 634, 706
BstH2I RGCGCY 1 cut(s) 896
BstHHI GCGC 1 cut(s) 895
BstKTI GATC 5 cut(s) 713, 799, 888, 1105, 1330
BstMBI GATC 5 cut(s) 710, 796, 885, 1102, 1327
BstMCI CGRYCG 1 cut(s) 965
BstMWI GCNNNNNNNGC 5 cut(s) 191, 314, 455, 1165, 1270
BstNSI RCATGY 4 cut(s) 379, 746, 1159, 1364
BstPI GGTNACC 1 cut(s) 344
BstSCI CCNGG 1 cut(s) 348
BstV1I GCAGC 3 cut(s) 1276, 1297, 1321
BstX2I RGATCY 2 cut(s) 710, 796
BstXI CCANNNNNNTGG 1 cut(s) 1228
BstYI RGATCY 2 cut(s) 710, 796
BstZI CGGCCG 1 cut(s) 962
BsuRI GGCC 2 cut(s) 292, 964
BtgZI GCGATG 1 cut(s) 473
BtrI CACGTC 1 cut(s) 535
BtsCI GGATG 5 cut(s) 409, 525, 618, 634, 706
BtsIMutI CAGTG 1 cut(s) 1221
Cac8I GCNNGC 2 cut(s) 290, 451
CfoI GCGC 1 cut(s) 895
Cfr13I GGNCC 1 cut(s) 1218
CseI GACGC 1 cut(s) 325
Csp6I GTAC 2 cut(s) 870, 1358
CviQI GTAC 2 cut(s) 870, 1358
DdeI CTNAG 2 cut(s) 889, 1224
DpnI GATC 5 cut(s) 712, 798, 887, 1104, 1329
DpnII GATC 5 cut(s) 710, 796, 885, 1102, 1327
DraI TTTAAA 1 cut(s) 1042
EaeI YGGCCR 2 cut(s) 290, 962
EagI CGGCCG 1 cut(s) 962
EclXI CGGCCG 1 cut(s) 962
Eco130I CCWWGG 1 cut(s) 1053
Eco24I GRGCYC 3 cut(s) 166, 310, 1192
Eco47I GGWCC 1 cut(s) 1218
Eco47III AGCGCT 1 cut(s) 894
Eco52I CGGCCG 1 cut(s) 962
Eco91I GGTNACC 1 cut(s) 344
EcoNI CCTNNNNNAGG 1 cut(s) 1390
EcoO65I GGTNACC 1 cut(s) 344
EcoRI GAATTC 2 cut(s) 1012, 1368
EcoT14I CCWWGG 1 cut(s) 1053
EcoT38I GRGCYC 3 cut(s) 166, 310, 1192
ErhI CCWWGG 1 cut(s) 1053
FaqI GGGAC 4 cut(s) 500, 545, 796, 1231
FauI CCCGC 1 cut(s) 80
Fnu4HI GCNGC 5 cut(s) 334, 962, 1265, 1311, 1335
FokI GGATG 5 cut(s) 416, 532, 625, 641, 713
FriOI GRGCYC 3 cut(s) 166, 310, 1192
Fsp4HI GCNGC 5 cut(s) 334, 962, 1265, 1311, 1335
GlaI GCGC 1 cut(s) 894
GluI GCNGC 5 cut(s) 334, 962, 1265, 1311, 1335
GsaI CCCAGC 1 cut(s) 1232
GsuI CTGGAG 2 cut(s) 26, 297
HaeII RGCGCY 1 cut(s) 896
HaeIII GGCC 2 cut(s) 292, 964
HapII CCGG 2 cut(s) 350, 524
HgaI GACGC 1 cut(s) 325
HhaI GCGC 1 cut(s) 895
Hin1I GRCGYC 2 cut(s) 336, 362
Hin6I GCGC 1 cut(s) 893
HinP1I GCGC 1 cut(s) 893
HinfI GANTC 2 cut(s) 8, 1210
HpaII CCGG 2 cut(s) 350, 524
HphI GGTGA 5 cut(s) 73, 356, 404, 599, 1030
Hpy166II GTNNAC 2 cut(s) 546, 1280
Hpy188I TCNGA 2 cut(s) 161, 1374
Hpy188III TCNNGA 2 cut(s) 37, 607
Hpy8I GTNNAC 2 cut(s) 546, 1280
Hpy99I CGWCG 3 cut(s) 102, 275, 367
HpyAV CCTTC 1 cut(s) 910
HpyCH4III ACNGT 2 cut(s) 89, 438
HpyCH4IV ACGT 3 cut(s) 362, 409, 534
HpyCH4V TGCA 7 cut(s) 358, 407, 453, 763, 788, 986, 1264
HpyF10VI GCNNNNNNNGC 5 cut(s) 191, 314, 455, 1165, 1270
HpyF3I CTNAG 2 cut(s) 889, 1224
HpySE526I ACGT 3 cut(s) 362, 409, 534
Hsp92I GRCGYC 2 cut(s) 336, 362
HspAI GCGC 1 cut(s) 893
Kzo9I GATC 5 cut(s) 710, 796, 885, 1102, 1327
LmnI GCTCC 1 cut(s) 27
Lsp1109I GCAGC 3 cut(s) 1276, 1297, 1321
LweI GCATC 4 cut(s) 204, 394, 510, 1162
MaeII ACGT 3 cut(s) 362, 409, 534
MaeIII GTNAC 5 cut(s) 101, 296, 322, 344, 973
MalI GATC 5 cut(s) 712, 798, 887, 1104, 1329
MboI GATC 5 cut(s) 710, 796, 885, 1102, 1327
MboII GAAGA 2 cut(s) 490, 675
MflI RGATCY 2 cut(s) 710, 796
MhlI GDGCHC 4 cut(s) 166, 310, 1006, 1192
MlsI TGGCCA 1 cut(s) 292
MluCI AATT 7 cut(s) 116, 694, 732, 1012, 1250, 1368, 1377
MluNI TGGCCA 1 cut(s) 292
MlyI GAGTC 1 cut(s) 17
MmeI TCCRAC 1 cut(s) 52
Mox20I TGGCCA 1 cut(s) 292
MroXI GAANNNNTTC 1 cut(s) 839
MscI TGGCCA 1 cut(s) 292
MseI TTAA 4 cut(s) 858, 1041, 1128, 1149
MslI CAYNNNNRTG 1 cut(s) 741
Msp20I TGGCCA 1 cut(s) 292
MspCI CTTAAG 1 cut(s) 1148
MspI CCGG 2 cut(s) 350, 524
MspR9I CCNGG 1 cut(s) 350
MwoI GCNNNNNNNGC 5 cut(s) 191, 314, 455, 1165, 1270
NciI CCSGG 1 cut(s) 350
NdeII GATC 5 cut(s) 710, 796, 885, 1102, 1327
NlaIV GGNNCC 1 cut(s) 1219
NmeAIII GCCGAG 1 cut(s) 1089
NmuCI GTSAC 1 cut(s) 344
NspI RCATGY 4 cut(s) 379, 746, 1159, 1364
PcsI WCGNNNNNNNCGW 2 cut(s) 177, 267
PdmI GAANNNNTTC 1 cut(s) 839
PfeI GAWTC 1 cut(s) 1210
PkrI GCNGC 5 cut(s) 335, 963, 1266, 1312, 1336
PleI GAGTC 1 cut(s) 16
PpsI GAGTC 1 cut(s) 16
Ppu21I YACGTR 1 cut(s) 410
PspEI GGTNACC 1 cut(s) 344
PspFI CCCAGC 1 cut(s) 1228
PspN4I GGNNCC 1 cut(s) 1219
PspPI GGNCC 1 cut(s) 1218
PsuI RGATCY 2 cut(s) 710, 796
RsaI GTAC 2 cut(s) 871, 1359
RsaNI GTAC 2 cut(s) 870, 1358
RseI CAYNNNNRTG 1 cut(s) 741
SaqAI TTAA 4 cut(s) 858, 1041, 1128, 1149
SatI GCNGC 5 cut(s) 334, 962, 1265, 1311, 1335
Sau3AI GATC 5 cut(s) 710, 796, 885, 1102, 1327
Sau96I GGNCC 1 cut(s) 1218
SchI GAGTC 1 cut(s) 17
ScrFI CCNGG 1 cut(s) 350
SduI GDGCHC 4 cut(s) 166, 310, 1006, 1192
SfaNI GCATC 4 cut(s) 204, 394, 510, 1162
SinI GGWCC 1 cut(s) 1218
SmiMI CAYNNNNRTG 1 cut(s) 741
SmlI CTYRAG 1 cut(s) 1148
SmoI CTYRAG 1 cut(s) 1148
Sse9I AATT 7 cut(s) 116, 694, 732, 1012, 1250, 1368, 1377
SsiI CCGC 4 cut(s) 73, 282, 333, 961
StyD4I CCNGG 1 cut(s) 348
StyI CCWWGG 1 cut(s) 1053
TaaI ACNGT 2 cut(s) 89, 438
TaiI ACGT 3 cut(s) 365, 412, 537
TaqI TCGA 3 cut(s) 420, 506, 843
TasI AATT 7 cut(s) 116, 694, 732, 1012, 1250, 1368, 1377
TatI WGTACW 1 cut(s) 869
TauI GCSGC 2 cut(s) 336, 964
TfiI GAWTC 1 cut(s) 1210
Tru1I TTAA 4 cut(s) 858, 1041, 1128, 1149
Tru9I TTAA 4 cut(s) 858, 1041, 1128, 1149
TscAI CASTG 1 cut(s) 1228
TseFI GTSAC 1 cut(s) 344
TseI GCWGC 3 cut(s) 1264, 1310, 1334
Tsp45I GTSAC 1 cut(s) 344
TspDTI ATGAA 6 cut(s) 438, 672, 675, 725, 1202, 1251
TspGWI ACGGA 1 cut(s) 86
TspRI CASTG 1 cut(s) 1228
Vha464I CTTAAG 1 cut(s) 1148
VpaK11BI GGWCC 1 cut(s) 1218
XagI CCTNNNNNAGG 1 cut(s) 1390
XapI RAATTY 5 cut(s) 116, 732, 1012, 1368, 1377
XceI RCATGY 4 cut(s) 379, 746, 1159, 1364
XmnI GAANNNNTTC 1 cut(s) 839
ZraI GACGTC 1 cut(s) 363
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.