Rroxscaffold_7G00156920

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0009978
Physical Location & Seq
Reverse (-)
813876 .. 818719
4844 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00156920.1

Sequence Viewer

Length: 1788 bp
ATGGCGTGTGCAATTGTGTGCGGAGAATCATCGCCGTCCCACATTACGCTTTTTCGATGCTTGAATCGAACCCTGGACTCTATCAAGGACAATATGGCTATCATCTTCGCTAACATTTTGGGCTGCCAAGCTAACACTGATGAAAATTTCAGGAATTGTAGGAGTGAGGATCTAGTTCCATCTAGTTTTGAGGAATTGCTGGAAAAATGGGGTGAGGATAACCACTTGATTGATCAGGATTGGTTTTCGAGGAAGAAGAATGCCGGCAATGATCAGGATCCACAGGCAGAGTTCAATGTGTTGGATACGATGCTGAAGGATAGTTTGGAGCGTCTGAAAACAATGAGGGAAAGCATATCAGTGGCAAAGATAGGTTTTTTGGGATGCACTTTGAAAGCTAATTACTCAGAACACATGGACATCATAAGGCGTTTATGCGTTGATGGTAAGTTGGGGTCAGCATTTTGGCTTCGGAGAAAGATGATGAAGAAAGGGATTATTCCAGATTTATCGACACATAATTATCTATTGAATGGACTGTGTAAAGCTGGCGACTTGGAGAAGGCAAATTTGCTTATCAGGGAGATGCTAGAAATGGGTCCCTCTCCCAACTGTGTCACATACAACACTTTTATTAAGGGTTATTGCCTTCTTGATAAAGTGGATAAAGCTCTTTATCTTTTCTCCACAATGGATAACAGTGGTATTAGGCCGAATAGTATTACTTGTAATATTCTTGTACATGCATTGTGCAAGAAAGGTCTTGCGGAGAATGCTAGGAAGCTTCTTGAAGAGATATTAGATGATGATGATTTGAAAACAGACTCAGGTATAATCACCTTAACTACACTTATGGATGGTTATCTTAAAAATGGAAATATGGTTCAGGCACTTGGTCTTTGGGTTGACATCCAAAGGAATACTCAAGTAGATGTCATTGCTTATAATGTTCTCATCCGTGGATTTTGTTTGAGTCAGCAAATGAACCTTGCTTATGGATACTTCTGTGAAATGACCAAAAGAGGTTTACATCCTGATGTTTTTACTTGTAATACACTTATAAGTGGTCTTTGCAAAGAAAGAAAGTTTGAGGAGGCTTGTTACATCCATGGTATGATGCCAAGAATGGGAATTACTCCAGATAAAGTTTCATACAAAATAATTATACAAGGCCTATGTATCCAGGGAGATGTCGTCAATGCTCATGAATTTCTTCTTAGTATGTTAGAGAAGTCGATGGTGCCTGAGCCTTTGGTATGGAATTGTATTATTGATTGTTATGGAAGATATGGGGATCTTAGTAATGCAGTTTCTGTTAAGGATCAGATGTTTGCTTTTGGTGTTCATCCAAATGTATATACTTACAATGCATTGATCCACGCACAAGTGAAAGGAGGAAATATCATTGATGCTCTTTCTCTTGAAAAGGAAATGCTTCTGTCTGGTCTTTTTCCTGATGTGGTCACTTATAATATGTTGATAGGGGGAGCTTGTAACTCAGGGCATTTGGAATTTGCCACAGAGCTATATCATAAAATGCTGAAAATAGGACTTGATCCAGATATATATACTTACACTGAACTAATCAGAGGGAACTGCAAGAGAGGTAATATCAAGGAGGCAGAAAATGTTCTTGCGAAGATACAGGCATCTGGTTTGCCTATTGATGATGTTCCATTTCAGATACTTTTCAAGAAGTACTGCAAAATGAGGGAGCCTGATAAAGCATCTGGCATTTACGAGAAGTGGCTAGCGAGGAGGAATGAGTTGCCCTCTTTAAGAACTTAG

Protein Analysis

595

Amino Acids

67.12

Weight (kDa)

6.11

Isoelectric Point (pI)

30.69

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 141 - 182 1.5e-07 PPR repeat family
PPR_3 PF13812 158 - 215 1.3e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 164 - 196 3.8e-08 PPR repeat
PPR_2 PF13041 172 - 216 2.3e-12 PPR repeat family
PPR_1 PF12854 199 - 231 5e-10 PPR repeat
PPR_2 PF13041 203 - 252 1.5e-15 PPR repeat family
PPR PF01535 206 - 236 4.8e-06 PPR repeat
PPR_1 PF12854 235 - 265 1.1e-06 PPR repeat
PPR_2 PF13041 311 - 359 9.9e-16 PPR repeat family
PPR_3 PF13812 337 - 390 4.7e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 341 - 369 8.9e-08 PPR repeat
PPR_2 PF13041 345 - 393 3.2e-15 PPR repeat family
PPR PF01535 348 - 378 3.3e-06 PPR repeat
PPR_1 PF12854 376 - 407 6.1e-06 PPR repeat
PPR_2 PF13041 419 - 461 2.9e-10 PPR repeat family
PPR_long PF17177 428 - 570 3.3e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 438 - 495 6.7e-10 Pentatricopeptide repeat domain
PPR_2 PF13041 450 - 499 1.5e-12 PPR repeat family
PPR_1 PF12854 482 - 513 3.4e-09 PPR repeat
PPR_2 PF13041 485 - 534 1.2e-15 PPR repeat family
PPR_1 PF12854 517 - 545 6.8e-07 PPR repeat
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)
AanI TTATAA 3 cut(s) 945, 1061, 1470
AccB1I GGYRCC 1 cut(s) 1240
AciI CCGC 2 cut(s) 21, 767
AclWI GGATC 7 cut(s) 177, 272, 285, 1302, 1329, 1369, 1550
AcsI RAATTY 4 cut(s) 145, 568, 1208, 1511
AcuI CTGAAG 1 cut(s) 335
AfaI GTAC 2 cut(s) 741, 1700
AfiI CCNNNNNNNGG 1 cut(s) 1127
AgsI TTSAA 8 cut(s) 64, 295, 394, 532, 791, 817, 1424, 1693
AjnI CCWGG 2 cut(s) 72, 1182
AjuI GAANNNNNNNTTGG 2 cut(s) 308, 340
AloI GAACNNNNNNTCC 2 cut(s) 867, 899
AluBI AGCT 7 cut(s) 131, 398, 548, 671, 784, 1490, 1525
AluI AGCT 7 cut(s) 131, 398, 548, 671, 784, 1490, 1525
AlwI GGATC 7 cut(s) 177, 272, 285, 1302, 1329, 1369, 1550
AlwNI CAGNNNCTG 1 cut(s) 1313
AoxI GGCC 2 cut(s) 710, 1171
ApeKI GCWGC 1 cut(s) 123
ApoI RAATTY 4 cut(s) 145, 568, 1208, 1511
Asp700I GAANNNNTTC 3 cut(s) 1212, 1434, 1629
AspS9I GGNCC 1 cut(s) 599
AsuHPI GGTGA 2 cut(s) 224, 829
AsuNHI GCTAGC 1 cut(s) 1750
AvaII GGWCC 1 cut(s) 599
BaeI ACNNNNGTAYC 2 cut(s) 991, 1024
BamHI GGATCC 1 cut(s) 277
BanI GGYRCC 1 cut(s) 1240
BbvI GCAGC 1 cut(s) 110
BccI CCATC 4 cut(s) 187, 437, 851, 1231
BceAI ACGGC 1 cut(s) 19
BciT130I CCWGG 2 cut(s) 74, 1184
BciVI GTATCC 3 cut(s) 298, 992, 1190
BclI TGATCA 2 cut(s) 232, 271
BfaI CTAG 5 cut(s) 173, 183, 590, 777, 1751
BfuI GTATCC 3 cut(s) 298, 992, 1190
BisI GCNGC 1 cut(s) 124
BlsI GCNGC 1 cut(s) 125
BmcAI AGTACT 1 cut(s) 1700
Bme1390I CCNGG 2 cut(s) 74, 1184
Bme18I GGWCC 1 cut(s) 599
BmgT120I GGNCC 1 cut(s) 599
BmiI GGNNCC 5 cut(s) 279, 600, 601, 1242, 1716
BmrFI CCNGG 2 cut(s) 74, 1184
BmsI GCATC 8 cut(s) 47, 300, 374, 576, 1107, 1399, 1658, 1736
BmtI GCTAGC 1 cut(s) 1754
BplI GAGNNNNNCTC 1 cut(s) 1757
BpmI CTGGAG 1 cut(s) 1122
Bpu10I CCTNAGC 1 cut(s) 1245
BpuEI CTTGAG 1 cut(s) 909
BsaBI GATNNNNATC 2 cut(s) 276, 861
BsaJI CCNNGG 4 cut(s) 72, 958, 1108, 1183
BsaXI ACNNNNNCTCC 2 cut(s) 1179, 1209
Bsc4I CCNNNNNNNGG 1 cut(s) 1127
Bse118I RCCGGY 1 cut(s) 263
Bse3DI GCAATG 2 cut(s) 274, 936
Bse8I GATNNNNATC 2 cut(s) 276, 861
BseBI CCWGG 2 cut(s) 74, 1184
BseDI CCNNGG 4 cut(s) 72, 958, 1108, 1183
BseGI GGATG 7 cut(s) 389, 862, 909, 954, 1030, 1104, 1345
BseJI GATNNNNATC 2 cut(s) 276, 861
BseLI CCNNNNNNNGG 1 cut(s) 1127
BseMI GCAATG 2 cut(s) 274, 936
BseMII CTCAG 4 cut(s) 420, 840, 1236, 1512
BseRI GAGGAG 2 cut(s) 1106, 1771
BseXI GCAGC 1 cut(s) 110
BshFI GGCC 2 cut(s) 712, 1173
BshNI GGYRCC 1 cut(s) 1240
BsiSI CCGG 1 cut(s) 264
BslFI GGGAC 2 cut(s) 22, 585
BslI CCNNNNNNNGG 1 cut(s) 1127
BsmFI GGGAC 2 cut(s) 22, 585
BsmI GAATGC 2 cut(s) 265, 778
BsnI GGCC 2 cut(s) 712, 1173
Bsp1407I TGTACA 1 cut(s) 739
Bsp143I GATC 8 cut(s) 169, 232, 271, 277, 1294, 1321, 1374, 1555
Bsp19I CCATGG 1 cut(s) 1108
BspACI CCGC 2 cut(s) 21, 767
BspANI GGCC 2 cut(s) 712, 1173
BspCNI CTCAG 4 cut(s) 419, 839, 1237, 1511
BspHI TCATGA 1 cut(s) 1204
BspLI GGNNCC 5 cut(s) 279, 600, 601, 1242, 1716
BspOI GCTAGC 1 cut(s) 1754
BspPI GGATC 7 cut(s) 177, 272, 285, 1302, 1329, 1369, 1550
BspT107I GGYRCC 1 cut(s) 1240
BsrDI GCAATG 2 cut(s) 274, 936
BsrFI RCCGGY 1 cut(s) 263
BsrGI TGTACA 1 cut(s) 739
BssAI RCCGGY 1 cut(s) 263
BssECI CCNNGG 4 cut(s) 72, 958, 1108, 1183
BssMI GATC 8 cut(s) 169, 232, 271, 277, 1294, 1321, 1374, 1555
BssT1I CCWWGG 1 cut(s) 1108
Bst2UI CCWGG 2 cut(s) 74, 1184
Bst4CI ACNGT 3 cut(s) 540, 614, 701
Bst6I CTCTTC 1 cut(s) 786
BstAUI TGTACA 1 cut(s) 739
BstC8I GCNNGC 3 cut(s) 265, 550, 1752
BstDEI CTNAG 7 cut(s) 406, 826, 1217, 1245, 1298, 1498, 1785
BstDSI CCRYGG 2 cut(s) 958, 1108
BstF5I GGATG 7 cut(s) 389, 862, 909, 954, 1030, 1104, 1345
BstKTI GATC 8 cut(s) 172, 235, 274, 280, 1297, 1324, 1377, 1558
BstMBI GATC 8 cut(s) 169, 232, 271, 277, 1294, 1321, 1374, 1555
BstMWI GCNNNNNNNGC 1 cut(s) 773
BstNI CCWGG 2 cut(s) 74, 1184
BstNSI RCATGY 1 cut(s) 746
BstSCI CCNGG 2 cut(s) 72, 1182
BstV1I GCAGC 1 cut(s) 110
BstX2I RGATCY 3 cut(s) 169, 277, 1294
BstYI RGATCY 3 cut(s) 169, 277, 1294
BsuI GTATCC 3 cut(s) 298, 992, 1190
BsuRI GGCC 2 cut(s) 712, 1173
BtgI CCRYGG 2 cut(s) 958, 1108
BtgZI GCGATG 1 cut(s) 15
BtsCI GGATG 7 cut(s) 389, 862, 909, 954, 1030, 1104, 1345
BtsIMutI CAGTG 4 cut(s) 135, 366, 706, 1575
Cac8I GCNNGC 3 cut(s) 265, 550, 1752
CaiI CAGNNNCTG 1 cut(s) 1313
CciI TCATGA 1 cut(s) 1204
Cfr10I RCCGGY 1 cut(s) 263
Cfr13I GGNCC 1 cut(s) 599
CseI GACGC 1 cut(s) 320
Csp6I GTAC 2 cut(s) 740, 1699
CviAII CATG 4 cut(s) 415, 743, 1109, 1205
CviQI GTAC 2 cut(s) 740, 1699
DdeI CTNAG 7 cut(s) 406, 826, 1217, 1245, 1298, 1498, 1785
DpnI GATC 8 cut(s) 171, 234, 273, 279, 1296, 1323, 1376, 1557
DpnII GATC 8 cut(s) 169, 232, 271, 277, 1294, 1321, 1374, 1555
Eam1104I CTCTTC 1 cut(s) 786
EarI CTCTTC 1 cut(s) 786
Eco130I CCWWGG 1 cut(s) 1108
Eco147I AGGCCT 1 cut(s) 1173
Eco47I GGWCC 1 cut(s) 599
Eco57I CTGAAG 1 cut(s) 335
EcoO109I RGGNCCY 1 cut(s) 599
EcoRII CCWGG 2 cut(s) 72, 1182
EcoT14I CCWWGG 1 cut(s) 1108
EcoT22I ATGCAT 2 cut(s) 748, 1372
ErhI CCWWGG 1 cut(s) 1108
FaeI CATG 4 cut(s) 418, 746, 1112, 1208
FaqI GGGAC 2 cut(s) 22, 585
FatI CATG 4 cut(s) 414, 742, 1108, 1204
FbaI TGATCA 2 cut(s) 232, 271
Fnu4HI GCNGC 1 cut(s) 124
FokI GGATG 7 cut(s) 396, 869, 896, 941, 1017, 1091, 1332
Fsp4HI GCNGC 1 cut(s) 124
FspBI CTAG 5 cut(s) 173, 183, 590, 777, 1751
GluI GCNGC 1 cut(s) 124
GsuI CTGGAG 1 cut(s) 1122
HaeIII GGCC 2 cut(s) 712, 1173
HapII CCGG 1 cut(s) 264
HgaI GACGC 1 cut(s) 320
Hin1II CATG 4 cut(s) 418, 746, 1112, 1208
HincII GTYRAC 1 cut(s) 907
HindII GTYRAC 1 cut(s) 907
HindIII AAGCTT 1 cut(s) 782
HinfI GANTC 5 cut(s) 26, 64, 77, 824, 973
HpaII CCGG 1 cut(s) 264
HphI GGTGA 2 cut(s) 224, 829
Hpy166II GTNNAC 2 cut(s) 907, 1028
Hpy188I TCNGA 6 cut(s) 336, 409, 474, 1326, 1589, 1683
Hpy8I GTNNAC 2 cut(s) 907, 1028
HpyAV CCTTC 3 cut(s) 310, 556, 659
HpyCH4III ACNGT 3 cut(s) 540, 614, 701
HpyCH4V TGCA 9 cut(s) 11, 387, 746, 753, 1074, 1307, 1370, 1599, 1704
HpyF10VI GCNNNNNNNGC 1 cut(s) 773
HpyF3I CTNAG 7 cut(s) 406, 826, 1217, 1245, 1298, 1498, 1785
Hsp92II CATG 4 cut(s) 418, 746, 1112, 1208
KflI GGGWCCC 1 cut(s) 599
KroI GCCGGC 1 cut(s) 263
KroNI GCCGGC 1 cut(s) 265
Ksp22I TGATCA 2 cut(s) 232, 271
Kzo9I GATC 8 cut(s) 169, 232, 271, 277, 1294, 1321, 1374, 1555
LmnI GCTCC 3 cut(s) 328, 1487, 1714
Lsp1109I GCAGC 1 cut(s) 110
LweI GCATC 8 cut(s) 47, 300, 374, 576, 1107, 1399, 1658, 1736
MaeI CTAG 5 cut(s) 173, 183, 590, 777, 1751
MaeIII GTNAC 4 cut(s) 616, 1100, 1462, 1493
MalI GATC 8 cut(s) 171, 234, 273, 279, 1296, 1323, 1376, 1557
MboI GATC 8 cut(s) 169, 232, 271, 277, 1294, 1321, 1374, 1555
MboII GAAGA 8 cut(s) 97, 265, 268, 499, 803, 1205, 1296, 1651
MfeI CAATTG 1 cut(s) 12
MflI RGATCY 3 cut(s) 169, 277, 1294
MlyI GAGTC 3 cut(s) 71, 818, 982
MmeI TCCRAC 1 cut(s) 282
Mph1103I ATGCAT 2 cut(s) 748, 1372
MroNI GCCGGC 1 cut(s) 263
MroXI GAANNNNTTC 3 cut(s) 1212, 1434, 1629
MseI TTAA 5 cut(s) 636, 842, 867, 1317, 1778
MslI CAYNNNNRTG 3 cut(s) 359, 1035, 1350
MspI CCGG 1 cut(s) 264
MspR9I CCNGG 2 cut(s) 74, 1184
MunI CAATTG 1 cut(s) 12
Mva1269I GAATGC 2 cut(s) 265, 778
MvaI CCWGG 2 cut(s) 74, 1184
MwoI GCNNNNNNNGC 1 cut(s) 773
NaeI GCCGGC 1 cut(s) 265
NcoI CCATGG 1 cut(s) 1108
NdeII GATC 8 cut(s) 169, 232, 271, 277, 1294, 1321, 1374, 1555
NgoMIV GCCGGC 1 cut(s) 263
NheI GCTAGC 1 cut(s) 1750
NlaIII CATG 4 cut(s) 418, 746, 1112, 1208
NlaIV GGNNCC 5 cut(s) 279, 600, 601, 1242, 1716
NmuCI GTSAC 2 cut(s) 616, 1462
NsiI ATGCAT 2 cut(s) 748, 1372
NspI RCATGY 1 cut(s) 746
PagI TCATGA 1 cut(s) 1204
PceI AGGCCT 1 cut(s) 1173
PctI GAATGC 2 cut(s) 265, 778
PdiI GCCGGC 1 cut(s) 265
PdmI GAANNNNTTC 3 cut(s) 1212, 1434, 1629
PfeI GAWTC 2 cut(s) 26, 64
PkrI GCNGC 1 cut(s) 125
PleI GAGTC 3 cut(s) 71, 818, 981
PpsI GAGTC 3 cut(s) 71, 818, 981
PpuMI RGGWCCY 1 cut(s) 599
PsiI TTATAA 3 cut(s) 945, 1061, 1470
Psp5II RGGWCCY 1 cut(s) 599
Psp6I CCWGG 2 cut(s) 72, 1182
PspGI CCWGG 2 cut(s) 72, 1182
PspN4I GGNNCC 5 cut(s) 279, 600, 601, 1242, 1716
PspPI GGNCC 1 cut(s) 599
PspPPI RGGWCCY 1 cut(s) 599
PstNI CAGNNNCTG 1 cut(s) 1313
PsuI RGATCY 3 cut(s) 169, 277, 1294
RsaI GTAC 2 cut(s) 741, 1700
RsaNI GTAC 2 cut(s) 740, 1699
RseI CAYNNNNRTG 3 cut(s) 359, 1035, 1350
SaqAI TTAA 5 cut(s) 636, 842, 867, 1317, 1778
SatI GCNGC 1 cut(s) 124
Sau3AI GATC 8 cut(s) 169, 232, 271, 277, 1294, 1321, 1374, 1555
Sau96I GGNCC 1 cut(s) 599
ScaI AGTACT 1 cut(s) 1700
SchI GAGTC 3 cut(s) 71, 818, 982
ScrFI CCNGG 2 cut(s) 74, 1184
SfaNI GCATC 8 cut(s) 47, 300, 374, 576, 1107, 1399, 1658, 1736
SinI GGWCC 1 cut(s) 599
SmiMI CAYNNNNRTG 3 cut(s) 359, 1035, 1350
SmlI CTYRAG 1 cut(s) 924
SmoI CTYRAG 1 cut(s) 924
SseBI AGGCCT 1 cut(s) 1173
SsiI CCGC 2 cut(s) 21, 767
SspI AATATT 1 cut(s) 733
SspMI CTAG 5 cut(s) 173, 183, 590, 777, 1751
StuI AGGCCT 1 cut(s) 1173
StyD4I CCNGG 2 cut(s) 72, 1182
StyI CCWWGG 1 cut(s) 1108
TaaI ACNGT 3 cut(s) 540, 614, 701
TaqI TCGA 5 cut(s) 55, 67, 248, 512, 1235
TatI WGTACW 2 cut(s) 739, 1698
TfiI GAWTC 2 cut(s) 26, 64
Tru1I TTAA 5 cut(s) 636, 842, 867, 1317, 1778
Tru9I TTAA 5 cut(s) 636, 842, 867, 1317, 1778
TscAI CASTG 4 cut(s) 142, 366, 706, 1582
TseFI GTSAC 2 cut(s) 616, 1462
TseI GCWGC 1 cut(s) 123
Tsp45I GTSAC 2 cut(s) 616, 1462
TspDTI ATGAA 6 cut(s) 156, 500, 998, 1140, 1221, 1334
TspGWI ACGGA 1 cut(s) 947
TspRI CASTG 4 cut(s) 142, 366, 706, 1582
VpaK11BI GGWCC 1 cut(s) 599
XapI RAATTY 4 cut(s) 145, 568, 1208, 1511
XceI RCATGY 1 cut(s) 746
XmnI GAANNNNTTC 3 cut(s) 1212, 1434, 1629
XspI CTAG 5 cut(s) 173, 183, 590, 777, 1751
ZrmI AGTACT 1 cut(s) 1700
Zsp2I ATGCAT 2 cut(s) 748, 1372
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.