RchiOBHm_Chr6g0312241

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0009978
Physical Location & Seq
Forward (+)
68916661 .. 68921507
4847 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ28087

Sequence Viewer

Length: 1785 bp
ATGGCGTGTGCAATTGTGTGCGGAGAATCATCGCCGTCCCACATTACGCTTTTCAGATGCTTGAATCGAACCCTGGACTCTATTAAGGACAATATCGCTATCATCTTCGCTAACATTTTGGGCTGCCAAGCTGACACCGATGAAAATTTCAGGAGTGAGGATCTAGTTCCATCTAGTTTCGAGGAATTGCTGGAAAAATGGGGTGAGGATAACCACTTGATTGATCAGGATTGGTTTTCGAGGAAGAAGAATGCTGGCAATGATCAGGATCCGCAGGCAGAGTTCAATGTGTTGGATACAATGCTGAAGGATAGTTTGGAGCGTCTGAAAACAATGAGGGAAAGCATATCAGTGGCAAAGATAGGTTTTTTGGGATGCACTTTGAAAGCTAATTACTCAGAACACATGGACATCATAAGGGGTTTATGCGTTGATGGTAAGTTGGGGTCTGCCTTTTGGCTTCGGAGAAAGATGATGAAGAAAGGGATTATTCCAGATGTATCGACACATAATTATCTATTGAATGGACTGTGTAAAGCTGGCGACTTGGAGAAGGCAAATTTGCTTATCAGGGAGATGCTAGAAATGGGTCCCGCTCCCAACTGTGTCACATACAACACTTTTATTAAGGGTTATTGCCTTCTTGATAAAGTGGATAAAGCTCTTTATCTTTTCTCCACAATGGGTAACAGTGGTATTAGGCCGAATAGTATTACTTGTAATATTCTTGTGCATGCATTGTGCAAGAAAGGTCTTGCGGAGAATGCTAGGAAGCTTCTTGAAGAGATATTAGATGATGACGATGATGATGAGAAAACAGACTCAGGTATAATCACCTTAACTACACTTATGGATGGTTATCTTAAAAATGGAAATATGGTTCAGGCACTTAGTCTTTGGGTTGACATCCAAAGGAATACCCAAGTAGATGTCATTGCTTATAATGTTCTCATCCGTGGATTTTGTTTGAGTCGGCAAATGAACCTTGCTTATGGATACTTCTGTGAAATGACCAAAAGAGGTTTACATCCTGATGTTTTTACTTGTAATACACTTATAAGTGGTCTTTGCAAAGAAAGAAAGTTTGAGGAGGCTTGTTACATCCATGGTATTATGCCAAGAATGGGAATTACTCCAGATAAAGTTTCATACAAAATAATTATACAAGGCCTATGTATCCAGGGAGATGTTGTCAAAGCTCATGAATTTCTTCTTAGTATGTTAGAGAAGTCGATGGTGCCTGAGCCTTTGATATGGAATTGTATTATTGATTGTTATGGAAGATATGGGGATCTTAGTAATGCAGTTTCTGTTAAGGATCAGATGTTTGCTTTTGGTGTTCAACCAAACGTATATACTTACAATGCATTGATCCACGCACAAGTGAAAGGAGGAAATATCATTGATGCTCTTTCTCTTGAAAAGGATATGCTTCTGTCTGGTCTTTTTCCTGATGTGGTCACTTATAATATGTTGATAGGGGGAGCTTGTAACTCAGGGCATTTGGAATTTGCCACGGAGCTTTATCATAAAATGCTGAAAATAGGACTTGATCCAGATATATATACTTACACTGAACTAATCAGAGGGAACTGCAAGAGAGGTAATATCAAGGAGGCAGAAAATGTTCTTGCGAAGATACAGGCATCTGGTTTGCCTATTGATGATGTTCCATTTCAGATACTTTTCAAGAAGTACTGCAAAATGAGGGAGCCTGATAAAGCATCTGGCATTTATGAGAAGTGGCTAGCGAGGAGGAATGAGTTGCCCTCTTTAAGAACTTAG

Protein Analysis

594

Amino Acids

66.83

Weight (kDa)

5.78

Isoelectric Point (pI)

29.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 138 - 179 3.6e-09 PPR repeat family
PPR_3 PF13812 155 - 212 5.5e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 161 - 193 6.3e-09 PPR repeat
PPR_2 PF13041 167 - 213 2.5e-12 PPR repeat family
PPR_1 PF12854 197 - 228 1.5e-09 PPR repeat
PPR_2 PF13041 200 - 249 2.6e-15 PPR repeat family
PPR PF01535 203 - 233 7.7e-06 PPR repeat
PPR_1 PF12854 232 - 262 1.1e-06 PPR repeat
PPR_2 PF13041 310 - 358 5.7e-16 PPR repeat family
PPR_3 PF13812 336 - 389 9.1e-07 Pentatricopeptide repeat domain
PPR_1 PF12854 340 - 366 1.3e-07 PPR repeat
PPR_2 PF13041 344 - 392 4.4e-15 PPR repeat family
PPR_1 PF12854 375 - 407 2.4e-06 PPR repeat
PPR_2 PF13041 418 - 460 1.2e-10 PPR repeat family
PPR_long PF17177 427 - 569 2e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 437 - 494 4.2e-10 Pentatricopeptide repeat domain
PPR_2 PF13041 449 - 498 2.3e-12 PPR repeat family
PPR_1 PF12854 481 - 512 3.3e-09 PPR repeat
PPR_2 PF13041 484 - 533 1.2e-15 PPR repeat family
PPR_1 PF12854 516 - 544 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) 942, 1058, 1467
AccB1I GGYRCC 1 cut(s) 1237
AccBSI CCGCTC 1 cut(s) 596
AciI CCGC 4 cut(s) 21, 272, 594, 758
AclWI GGATC 7 cut(s) 168, 263, 276, 1299, 1326, 1366, 1547
AcsI RAATTY 4 cut(s) 145, 559, 1205, 1508
AcuI CTGAAG 1 cut(s) 326
AfaI GTAC 1 cut(s) 1697
AfiI CCNNNNNNNGG 1 cut(s) 1124
AgsI TTSAA 8 cut(s) 64, 286, 385, 523, 782, 1343, 1421, 1690
AjnI CCWGG 2 cut(s) 72, 1179
AjuI GAANNNNNNNTTGG 2 cut(s) 299, 331
AloI GAACNNNNNNTCC 2 cut(s) 864, 896
AluBI AGCT 8 cut(s) 131, 389, 539, 662, 775, 1199, 1487, 1522
AluI AGCT 8 cut(s) 131, 389, 539, 662, 775, 1199, 1487, 1522
AlwI GGATC 7 cut(s) 168, 263, 276, 1299, 1326, 1366, 1547
AlwNI CAGNNNCTG 1 cut(s) 1310
AoxI GGCC 2 cut(s) 701, 1168
ApeKI GCWGC 1 cut(s) 123
ApoI RAATTY 4 cut(s) 145, 559, 1205, 1508
Asp700I GAANNNNTTC 2 cut(s) 1209, 1626
AspS9I GGNCC 1 cut(s) 590
AsuHPI GGTGA 2 cut(s) 215, 826
AsuNHI GCTAGC 1 cut(s) 1747
AvaII GGWCC 1 cut(s) 590
BaeI ACNNNNGTAYC 2 cut(s) 988, 1021
BamHI GGATCC 1 cut(s) 268
BanI GGYRCC 1 cut(s) 1237
BbvI GCAGC 1 cut(s) 110
BccI CCATC 4 cut(s) 178, 428, 848, 1228
BceAI ACGGC 1 cut(s) 19
BciT130I CCWGG 2 cut(s) 74, 1181
BciVI GTATCC 3 cut(s) 289, 989, 1187
BclI TGATCA 2 cut(s) 223, 262
BfaI CTAG 5 cut(s) 164, 174, 581, 768, 1748
BfuI GTATCC 3 cut(s) 289, 989, 1187
BisI GCNGC 1 cut(s) 124
BlsI GCNGC 1 cut(s) 125
BmcAI AGTACT 1 cut(s) 1697
Bme1390I CCNGG 2 cut(s) 74, 1181
Bme18I GGWCC 1 cut(s) 590
BmgT120I GGNCC 1 cut(s) 590
BmiI GGNNCC 5 cut(s) 270, 591, 592, 1239, 1713
BmrFI CCNGG 2 cut(s) 74, 1181
BmsI GCATC 6 cut(s) 47, 365, 567, 1396, 1655, 1733
BmtI GCTAGC 1 cut(s) 1751
BplI GAGNNNNNCTC 1 cut(s) 1754
BpmI CTGGAG 1 cut(s) 1119
Bpu10I CCTNAGC 1 cut(s) 1242
BsaBI GATNNNNATC 2 cut(s) 267, 858
BsaJI CCNNGG 5 cut(s) 72, 955, 1105, 1180, 1515
BsaXI ACNNNNNCTCC 2 cut(s) 1176, 1206
Bsc4I CCNNNNNNNGG 1 cut(s) 1124
Bse3DI GCAATG 2 cut(s) 265, 933
Bse8I GATNNNNATC 2 cut(s) 267, 858
BseBI CCWGG 2 cut(s) 74, 1181
BseDI CCNNGG 5 cut(s) 72, 955, 1105, 1180, 1515
BseGI GGATG 6 cut(s) 380, 859, 906, 951, 1027, 1101
BseJI GATNNNNATC 2 cut(s) 267, 858
BseLI CCNNNNNNNGG 1 cut(s) 1124
BseMI GCAATG 2 cut(s) 265, 933
BseMII CTCAG 4 cut(s) 411, 837, 1233, 1509
BseRI GAGGAG 2 cut(s) 1103, 1768
BseXI GCAGC 1 cut(s) 110
BshFI GGCC 2 cut(s) 703, 1170
BshNI GGYRCC 1 cut(s) 1237
BslFI GGGAC 2 cut(s) 22, 576
BslI CCNNNNNNNGG 1 cut(s) 1124
BsmFI GGGAC 2 cut(s) 22, 576
BsmI GAATGC 2 cut(s) 256, 769
BsnI GGCC 2 cut(s) 703, 1170
Bsp143I GATC 8 cut(s) 160, 223, 262, 268, 1291, 1318, 1371, 1552
Bsp19I CCATGG 1 cut(s) 1105
BspACI CCGC 4 cut(s) 21, 272, 594, 758
BspANI GGCC 2 cut(s) 703, 1170
BspCNI CTCAG 4 cut(s) 410, 836, 1234, 1508
BspHI TCATGA 1 cut(s) 1201
BspLI GGNNCC 5 cut(s) 270, 591, 592, 1239, 1713
BspOI GCTAGC 1 cut(s) 1751
BspPI GGATC 7 cut(s) 168, 263, 276, 1299, 1326, 1366, 1547
BspT107I GGYRCC 1 cut(s) 1237
BsrBI CCGCTC 1 cut(s) 596
BsrDI GCAATG 2 cut(s) 265, 933
BssECI CCNNGG 5 cut(s) 72, 955, 1105, 1180, 1515
BssMI GATC 8 cut(s) 160, 223, 262, 268, 1291, 1318, 1371, 1552
BssT1I CCWWGG 1 cut(s) 1105
Bst2UI CCWGG 2 cut(s) 74, 1181
Bst4CI ACNGT 3 cut(s) 531, 605, 692
Bst6I CTCTTC 1 cut(s) 777
BstC8I GCNNGC 5 cut(s) 256, 276, 541, 735, 1749
BstDEI CTNAG 8 cut(s) 397, 823, 890, 1214, 1242, 1295, 1495, 1782
BstDSI CCRYGG 3 cut(s) 955, 1105, 1515
BstF5I GGATG 6 cut(s) 380, 859, 906, 951, 1027, 1101
BstKTI GATC 8 cut(s) 163, 226, 265, 271, 1294, 1321, 1374, 1555
BstMBI GATC 8 cut(s) 160, 223, 262, 268, 1291, 1318, 1371, 1552
BstMWI GCNNNNNNNGC 1 cut(s) 764
BstNI CCWGG 2 cut(s) 74, 1181
BstNSI RCATGY 1 cut(s) 737
BstSCI CCNGG 2 cut(s) 72, 1179
BstV1I GCAGC 1 cut(s) 110
BstX2I RGATCY 3 cut(s) 160, 268, 1291
BstYI RGATCY 3 cut(s) 160, 268, 1291
BsuI GTATCC 3 cut(s) 289, 989, 1187
BsuRI GGCC 2 cut(s) 703, 1170
BtgI CCRYGG 3 cut(s) 955, 1105, 1515
BtgZI GCGATG 1 cut(s) 15
BtsCI GGATG 6 cut(s) 380, 859, 906, 951, 1027, 1101
BtsIMutI CAGTG 3 cut(s) 357, 697, 1572
Cac8I GCNNGC 5 cut(s) 256, 276, 541, 735, 1749
CaiI CAGNNNCTG 1 cut(s) 1310
CciI TCATGA 1 cut(s) 1201
Cfr13I GGNCC 1 cut(s) 590
CseI GACGC 1 cut(s) 311
Csp6I GTAC 1 cut(s) 1696
CviAII CATG 4 cut(s) 406, 734, 1106, 1202
CviQI GTAC 1 cut(s) 1696
DdeI CTNAG 8 cut(s) 397, 823, 890, 1214, 1242, 1295, 1495, 1782
DpnI GATC 8 cut(s) 162, 225, 264, 270, 1293, 1320, 1373, 1554
DpnII GATC 8 cut(s) 160, 223, 262, 268, 1291, 1318, 1371, 1552
Eam1104I CTCTTC 1 cut(s) 777
EarI CTCTTC 1 cut(s) 777
Eco130I CCWWGG 1 cut(s) 1105
Eco147I AGGCCT 1 cut(s) 1170
Eco47I GGWCC 1 cut(s) 590
Eco57I CTGAAG 1 cut(s) 326
EcoO109I RGGNCCY 1 cut(s) 590
EcoRII CCWGG 2 cut(s) 72, 1179
EcoT14I CCWWGG 1 cut(s) 1105
EcoT22I ATGCAT 2 cut(s) 739, 1369
ErhI CCWWGG 1 cut(s) 1105
FaeI CATG 4 cut(s) 409, 737, 1109, 1205
FaqI GGGAC 2 cut(s) 22, 576
FatI CATG 4 cut(s) 405, 733, 1105, 1201
FauI CCCGC 1 cut(s) 601
FbaI TGATCA 2 cut(s) 223, 262
Fnu4HI GCNGC 1 cut(s) 124
FokI GGATG 6 cut(s) 387, 866, 893, 938, 1014, 1088
Fsp4HI GCNGC 1 cut(s) 124
FspBI CTAG 5 cut(s) 164, 174, 581, 768, 1748
GluI GCNGC 1 cut(s) 124
GsuI CTGGAG 1 cut(s) 1119
HaeIII GGCC 2 cut(s) 703, 1170
HgaI GACGC 1 cut(s) 311
Hin1II CATG 4 cut(s) 409, 737, 1109, 1205
HincII GTYRAC 1 cut(s) 904
HindII GTYRAC 1 cut(s) 904
HindIII AAGCTT 1 cut(s) 773
HinfI GANTC 5 cut(s) 26, 64, 77, 821, 970
HphI GGTGA 2 cut(s) 215, 826
Hpy166II GTNNAC 2 cut(s) 904, 1025
Hpy188I TCNGA 7 cut(s) 56, 327, 400, 465, 1323, 1586, 1680
Hpy8I GTNNAC 2 cut(s) 904, 1025
HpyAV CCTTC 3 cut(s) 301, 547, 650
HpyCH4III ACNGT 3 cut(s) 531, 605, 692
HpyCH4IV ACGT 1 cut(s) 1350
HpyF10VI GCNNNNNNNGC 1 cut(s) 764
HpyF3I CTNAG 8 cut(s) 397, 823, 890, 1214, 1242, 1295, 1495, 1782
HpySE526I ACGT 1 cut(s) 1350
Hsp92II CATG 4 cut(s) 409, 737, 1109, 1205
KflI GGGWCCC 1 cut(s) 590
Ksp22I TGATCA 2 cut(s) 223, 262
Kzo9I GATC 8 cut(s) 160, 223, 262, 268, 1291, 1318, 1371, 1552
LmnI GCTCC 5 cut(s) 319, 601, 1484, 1519, 1711
Lsp1109I GCAGC 1 cut(s) 110
LweI GCATC 6 cut(s) 47, 365, 567, 1396, 1655, 1733
MaeI CTAG 5 cut(s) 164, 174, 581, 768, 1748
MaeII ACGT 1 cut(s) 1350
MaeIII GTNAC 5 cut(s) 607, 686, 1097, 1459, 1490
MalI GATC 8 cut(s) 162, 225, 264, 270, 1293, 1320, 1373, 1554
MbiI CCGCTC 1 cut(s) 596
MboI GATC 8 cut(s) 160, 223, 262, 268, 1291, 1318, 1371, 1552
MboII GAAGA 8 cut(s) 97, 256, 259, 490, 794, 1202, 1293, 1648
MfeI CAATTG 1 cut(s) 12
MflI RGATCY 3 cut(s) 160, 268, 1291
MlyI GAGTC 3 cut(s) 71, 815, 979
MmeI TCCRAC 1 cut(s) 273
Mph1103I ATGCAT 2 cut(s) 739, 1369
MroXI GAANNNNTTC 2 cut(s) 1209, 1626
MseI TTAA 6 cut(s) 84, 627, 839, 864, 1314, 1775
MslI CAYNNNNRTG 2 cut(s) 350, 1032
MspR9I CCNGG 2 cut(s) 74, 1181
MunI CAATTG 1 cut(s) 12
Mva1269I GAATGC 2 cut(s) 256, 769
MvaI CCWGG 2 cut(s) 74, 1181
MwoI GCNNNNNNNGC 1 cut(s) 764
NcoI CCATGG 1 cut(s) 1105
NdeII GATC 8 cut(s) 160, 223, 262, 268, 1291, 1318, 1371, 1552
NheI GCTAGC 1 cut(s) 1747
NlaIII CATG 4 cut(s) 409, 737, 1109, 1205
NlaIV GGNNCC 5 cut(s) 270, 591, 592, 1239, 1713
NmuCI GTSAC 2 cut(s) 607, 1459
NsiI ATGCAT 2 cut(s) 739, 1369
NspI RCATGY 1 cut(s) 737
PaeI GCATGC 1 cut(s) 737
PagI TCATGA 1 cut(s) 1201
PceI AGGCCT 1 cut(s) 1170
PctI GAATGC 2 cut(s) 256, 769
PdmI GAANNNNTTC 2 cut(s) 1209, 1626
PfeI GAWTC 2 cut(s) 26, 64
PkrI GCNGC 1 cut(s) 125
PleI GAGTC 3 cut(s) 71, 815, 978
PpsI GAGTC 3 cut(s) 71, 815, 978
PpuMI RGGWCCY 1 cut(s) 590
PsiI TTATAA 3 cut(s) 942, 1058, 1467
Psp5II RGGWCCY 1 cut(s) 590
Psp6I CCWGG 2 cut(s) 72, 1179
PspGI CCWGG 2 cut(s) 72, 1179
PspN4I GGNNCC 5 cut(s) 270, 591, 592, 1239, 1713
PspPI GGNCC 1 cut(s) 590
PspPPI RGGWCCY 1 cut(s) 590
PstNI CAGNNNCTG 1 cut(s) 1310
PsuI RGATCY 3 cut(s) 160, 268, 1291
RsaI GTAC 1 cut(s) 1697
RsaNI GTAC 1 cut(s) 1696
RseI CAYNNNNRTG 2 cut(s) 350, 1032
SaqAI TTAA 6 cut(s) 84, 627, 839, 864, 1314, 1775
SatI GCNGC 1 cut(s) 124
Sau3AI GATC 8 cut(s) 160, 223, 262, 268, 1291, 1318, 1371, 1552
Sau96I GGNCC 1 cut(s) 590
ScaI AGTACT 1 cut(s) 1697
SchI GAGTC 3 cut(s) 71, 815, 979
ScrFI CCNGG 2 cut(s) 74, 1181
SfaNI GCATC 6 cut(s) 47, 365, 567, 1396, 1655, 1733
SinI GGWCC 1 cut(s) 590
SmiMI CAYNNNNRTG 2 cut(s) 350, 1032
SphI GCATGC 1 cut(s) 737
SseBI AGGCCT 1 cut(s) 1170
SsiI CCGC 4 cut(s) 21, 272, 594, 758
SspI AATATT 1 cut(s) 724
SspMI CTAG 5 cut(s) 164, 174, 581, 768, 1748
StuI AGGCCT 1 cut(s) 1170
StyD4I CCNGG 2 cut(s) 72, 1179
StyI CCWWGG 1 cut(s) 1105
TaaI ACNGT 3 cut(s) 531, 605, 692
TaiI ACGT 1 cut(s) 1353
TaqI TCGA 5 cut(s) 67, 180, 239, 503, 1232
TatI WGTACW 1 cut(s) 1695
TfiI GAWTC 2 cut(s) 26, 64
Tru1I TTAA 6 cut(s) 84, 627, 839, 864, 1314, 1775
Tru9I TTAA 6 cut(s) 84, 627, 839, 864, 1314, 1775
TscAI CASTG 3 cut(s) 357, 697, 1579
TseFI GTSAC 2 cut(s) 607, 1459
TseI GCWGC 1 cut(s) 123
Tsp45I GTSAC 2 cut(s) 607, 1459
TspDTI ATGAA 5 cut(s) 156, 491, 995, 1137, 1218
TspGWI ACGGA 2 cut(s) 944, 1532
TspRI CASTG 3 cut(s) 357, 697, 1579
VpaK11BI GGWCC 1 cut(s) 590
XapI RAATTY 4 cut(s) 145, 559, 1205, 1508
XceI RCATGY 1 cut(s) 737
XmnI GAANNNNTTC 2 cut(s) 1209, 1626
XspI CTAG 5 cut(s) 164, 174, 581, 768, 1748
ZrmI AGTACT 1 cut(s) 1697
Zsp2I ATGCAT 2 cut(s) 739, 1369
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.