RchiOBHm_Chr1g0347541

Pentatricopeptide repeat-containing protein At2g44880-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
OG0008546
Physical Location & Seq
Reverse (-)
40111048 .. 40113309
2262 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 1833 bp
ATGTACAGAGATAACCGCAATTCAAATTACAAAGAAGCGCGCGCGCCAGGCATTACAATGAAAGACCAACTATGGAGATGGAGCTCGTTGGAAAGAAAATGCTTATACCTTCTCCAACAAGCCAACACTACACCACCCTCTCTTCTCCAAATCCATGCCTTCATCCTCCGAAACGCCCTCGAAACCAACCTCAATCTCCTCACCAAATTCATCACCACCAGCTCCTCCTCCCCCTCACACCTGATCAAACACGCCCGCCGCGTCTTCGATCACCAACCCAATAAGCATGACACGTTTCTCTGCAATGCCATGATCAGAGCCCACATGGCCCAATTCGCTGAGTCTTTCGCTCTTTATAGAGATCTTAGACAGGACACCGGTTTCGAGCCGGATGGGTACACATTCACGGCACTTGCCAAGTCGTGCGGGTTAGATGGGGACAGATCCGAAGGAGAAGAGATTCATTGTCATGCTGTTAAGACGGGGCTGTCTTTGGATTTGTATGTTTCGACGTCTTTGGTTGACATGTATGTGAAGTTTGGGACGATGGGTTGCGCAAGGAAGGTGTTTGATGAAATGACTGAGAGAAACATAGTGTCGTGGACGGCTCTTGTTTGCGGGTATGCGAGGACGGGAGATATGGGTAGTGCGAGGAGGCTTTTTGATGAAATTCCTGAGAGGGACTCGGCCGCGTTTAATGCGTTGATTGATGGATATGTCAAGTTGGGGGAAATGGGGGCGGCTCGAAGTTTGTTTGATGAGATGAGGGATAGGAATGTGGTGACTTGGACTAGTATGATATACGGTTACTGCCATCGAGGTGATGTAGAGGCCGCTAAATCACTCTTTGATTCTATGCCCAAGAAGAATCTTATTTCTTGGAATGTGATGATTGGTGGTTATTGCCAAAACAAACGTCCCCGTGAAGCCGTGAGATTGTTTCATGAAATGCAGTCAACTACATCGCTTGAACCAGATGCTGTAACGGTTGTGAGCATTCTTCCGGCTATAGCTGATTTGGGTGCTTTGGATTTAGGGCATTGGGTTCACAACTTTGTACAGAGGAAGAAGCTTGATAGGCTAACCAATATATGCACTGCGCTTGTGGATATGTATGCAAAATGTGGTGAAATAAAAAAGGCCCAAAGACTCTTTGATGAGATTCCTGAAAAAGAAACGGCTTCTTGGAATGCTTTGATAAATGGGTTTGCAGTCAATGGCTATGGAAAGGAGGCACTAGAGGTATTTTTAGAGATGCAACGAGAAAAGTTTGAGCCTAACAATATAACCTTTGTCGGTGTTTTGTCCGCTTGTAACCATTGTGGTCTGGTAGAGGAAGGGAAATTTTGGTTTAGGAAAATGGAAAACTTTGGGCTCATTCCACAGATTGAGCATTATGGTTGTATGGTAGATCTTTTAGGAAGGGCAGGGTGCTTGGAGGAAGCTGAGAAGCTGATCAAGAGCATGCCTTACGATGTTAATGGGATAATTTTGAGTTCCTTTCTTTTTGCATGTGGGTATTGTGAGGATGTCACGAGAGCCAACAAAACTTTAGAGCAGGCTGTCAAACTGGAGCCATGGAATTATGGAAATTATGTTATGTTGAGAAATTTGTATGCCAGAAACAGAAGGTGGAGTGATGCAGATAATATTAAGAGTTCGATGCGGAAGAATCAAGCAGATAAAGAGGTTGGTTATACTGTTATAGAGGTTGATGGTAGAATCAAGCAGTTTGTGGCTGGGGACAGGATGAACACATCTTCGGAAGCTACCTTGCTACAGAGTTGGAAGCACATGATGGGACAAGTCCCATGTTCTATGGCTAAGGTGTGA

Protein Analysis

610

Amino Acids

69.27

Weight (kDa)

7.19

Isoelectric Point (pI)

42.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 228 - 260 4.3e-07 PPR repeat family
PPR PF01535 231 - 260 4.2e-07 PPR repeat
PPR_2 PF13041 258 - 291 6.8e-09 PPR repeat family
PPR_1 PF12854 259 - 286 2.1e-07 PPR repeat
PPR PF01535 261 - 290 1.3e-08 PPR repeat
PPR_2 PF13041 290 - 334 1.6e-10 PPR repeat family
PPR_1 PF12854 290 - 318 2.4e-06 PPR repeat
PPR PF01535 292 - 319 6.6e-09 PPR repeat
PPR_2 PF13041 393 - 438 2e-10 PPR repeat family
PPR PF01535 395 - 423 9.2e-08 PPR repeat
E_motif PF20431 510 - 570 1.1e-10 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)
AasI GACNNNNNNGTC 1 cut(s) 487
AatII GACGTC 1 cut(s) 515
Acc16I TGCGCA 1 cut(s) 556
AccII CGCG 5 cut(s) 40, 42, 44, 261, 692
AclWI GGATC 1 cut(s) 438
AcoI YGGCCR 1 cut(s) 687
AcsI RAATTY 4 cut(s) 206, 669, 1343, 1609
AcyI GRCGYC 1 cut(s) 512
AfaI GTAC 3 cut(s) 5, 398, 1059
AflIII ACRYGT 2 cut(s) 291, 525
AgeI ACCGGT 1 cut(s) 377
AgsI TTSAA 2 cut(s) 24, 971
AhlI ACTAGT 1 cut(s) 791
AjnI CCWGG 1 cut(s) 46
AluBI AGCT 7 cut(s) 84, 222, 1013, 1072, 1445, 1453, 1769
AluI AGCT 7 cut(s) 84, 222, 1013, 1072, 1445, 1453, 1769
Alw21I GWGCWC 1 cut(s) 86
AlwI GGATC 1 cut(s) 438
AlwNI CAGNNNCTG 1 cut(s) 980
AoxI GGCC 4 cut(s) 327, 687, 831, 1140
ApoI RAATTY 4 cut(s) 206, 669, 1343, 1609
ArsI GACNNNNNNTTYG 4 cut(s) 365, 397, 901, 933
AsiGI ACCGGT 1 cut(s) 377
Asp700I GAANNNNTTC 1 cut(s) 459
AspLEI GCGC 6 cut(s) 40, 42, 44, 46, 557, 1102
AspS9I GGNCC 2 cut(s) 328, 1141
AsuHPI GGTGA 6 cut(s) 193, 205, 263, 793, 833, 1139
BanII GRGCYC 3 cut(s) 86, 322, 1377
BauI CACGAG 1 cut(s) 1534
BbsI GAAGAC 1 cut(s) 256
Bbv12I GWGCWC 1 cut(s) 86
BccI CCATC 8 cut(s) 72, 386, 428, 541, 704, 822, 1709, 1792
BceAI ACGGC 4 cut(s) 423, 621, 914, 1194
BciT130I CCWGG 1 cut(s) 48
BclI TGATCA 3 cut(s) 243, 312, 1455
BcuI ACTAGT 1 cut(s) 791
BfaI CTAG 2 cut(s) 792, 1238
BfmI CTRYAG 2 cut(s) 1008, 1778
BglI GCCNNNNNGGC 1 cut(s) 326
BglII AGATCT 2 cut(s) 361, 1411
BisI GCNGC 4 cut(s) 259, 690, 741, 834
BlsI GCNGC 4 cut(s) 260, 691, 742, 835
Bme1390I CCNGG 1 cut(s) 48
BmgT120I GGNCC 2 cut(s) 328, 1141
BmiI GGNNCC 1 cut(s) 1575
BmrFI CCNGG 1 cut(s) 48
BmsI GCATC 4 cut(s) 967, 1245, 1630, 1653
BpiI GAAGAC 1 cut(s) 256
BplI GAGNNNNNCTC 2 cut(s) 668, 700
BpmI CTGGAG 1 cut(s) 1592
Bpu10I CCTNAGC 1 cut(s) 1824
BsaHI GRCGYC 1 cut(s) 512
BsaJI CCNNGG 1 cut(s) 1577
BsaWI WCCGGW 1 cut(s) 377
Bse118I RCCGGY 1 cut(s) 377
Bse1I ACTGG 1 cut(s) 1575
Bse3DI GCAATG 1 cut(s) 310
BseBI CCWGG 1 cut(s) 48
BseDI CCNNGG 1 cut(s) 1577
BseGI GGATG 4 cut(s) 162, 397, 1534, 1755
BseMI GCAATG 1 cut(s) 310
BseMII CTCAG 4 cut(s) 330, 573, 666, 1437
BseNI ACTGG 1 cut(s) 1575
BsePI GCGCGC 3 cut(s) 38, 40, 42
BseRI GAGGAG 4 cut(s) 188, 214, 217, 667
BseX3I CGGCCG 1 cut(s) 687
BseYI CCCAGC 1 cut(s) 1739
Bsh1236I CGCG 5 cut(s) 40, 42, 44, 261, 692
Bsh1285I CGRYCG 1 cut(s) 690
BshFI GGCC 4 cut(s) 329, 689, 833, 1142
BshTI ACCGGT 1 cut(s) 377
BsiEI CGRYCG 1 cut(s) 690
BsiHKAI GWGCWC 1 cut(s) 86
BsiSI CCGG 3 cut(s) 378, 389, 1004
BslFI GGGAC 7 cut(s) 452, 556, 695, 903, 1757, 1793, 1815
BsmFI GGGAC 7 cut(s) 452, 556, 695, 903, 1757, 1793, 1815
BsmI GAATGC 2 cut(s) 996, 1195
BsnI GGCC 4 cut(s) 329, 689, 833, 1142
Bsp1286I GDGCHC 3 cut(s) 86, 322, 1377
Bsp1407I TGTACA 2 cut(s) 3, 1057
Bsp143I GATC 7 cut(s) 243, 268, 312, 361, 443, 1411, 1455
Bsp19I CCATGG 1 cut(s) 1577
BspANI GGCC 4 cut(s) 329, 689, 833, 1142
BspCNI CTCAG 4 cut(s) 331, 574, 667, 1438
BspFNI CGCG 5 cut(s) 40, 42, 44, 261, 692
BspHI TCATGA 1 cut(s) 943
BspLI GGNNCC 1 cut(s) 1575
BspPI GGATC 1 cut(s) 438
BsrDI GCAATG 1 cut(s) 310
BsrFI RCCGGY 1 cut(s) 377
BsrGI TGTACA 2 cut(s) 3, 1057
BsrI ACTGG 1 cut(s) 1575
BssAI RCCGGY 1 cut(s) 377
BssECI CCNNGG 1 cut(s) 1577
BssHII GCGCGC 3 cut(s) 38, 40, 42
BssMI GATC 7 cut(s) 243, 268, 312, 361, 443, 1411, 1455
BssNI GRCGYC 1 cut(s) 512
BssSI CACGAG 1 cut(s) 1534
BssT1I CCWWGG 1 cut(s) 1577
Bst2BI CACGAG 1 cut(s) 1534
Bst2UI CCWGG 1 cut(s) 48
Bst4CI ACNGT 3 cut(s) 806, 988, 1702
Bst6I CTCTTC 2 cut(s) 147, 450
BstACI GRCGYC 1 cut(s) 512
BstAUI TGTACA 2 cut(s) 3, 1057
BstC8I GCNNGC 6 cut(s) 40, 42, 44, 256, 1466, 1560
BstDEI CTNAG 6 cut(s) 339, 365, 582, 675, 1446, 1824
BstDSI CCRYGG 1 cut(s) 1577
BstF5I GGATG 4 cut(s) 162, 397, 1534, 1755
BstFNI CGCG 5 cut(s) 40, 42, 44, 261, 692
BstHHI GCGC 6 cut(s) 40, 42, 44, 46, 557, 1102
BstKTI GATC 7 cut(s) 246, 271, 315, 364, 446, 1414, 1458
BstMBI GATC 7 cut(s) 243, 268, 312, 361, 443, 1411, 1455
BstMCI CGRYCG 1 cut(s) 690
BstMWI GCNNNNNNNGC 5 cut(s) 48, 326, 335, 698, 1078
BstNI CCWGG 1 cut(s) 48
BstNSI RCATGY 3 cut(s) 529, 1468, 1515
BstSCI CCNGG 1 cut(s) 46
BstSFI CTRYAG 2 cut(s) 1008, 1778
BstUI CGCG 5 cut(s) 40, 42, 44, 261, 692
BstV2I GAAGAC 1 cut(s) 256
BstX2I RGATCY 3 cut(s) 361, 443, 1411
BstYI RGATCY 3 cut(s) 361, 443, 1411
BstZI CGGCCG 1 cut(s) 687
BsuRI GGCC 4 cut(s) 329, 689, 833, 1142
BtgI CCRYGG 1 cut(s) 1577
BtgZI GCGATG 1 cut(s) 948
BtsCI GGATG 4 cut(s) 162, 397, 1534, 1755
BtsI GCAGTG 1 cut(s) 1095
BtsIMutI CAGTG 1 cut(s) 1095
Cac8I GCNNGC 6 cut(s) 40, 42, 44, 256, 1466, 1560
CaiI CAGNNNCTG 1 cut(s) 980
CciI TCATGA 1 cut(s) 943
CfoI GCGC 6 cut(s) 40, 42, 44, 46, 557, 1102
Cfr10I RCCGGY 1 cut(s) 377
Cfr13I GGNCC 2 cut(s) 328, 1141
CseI GACGC 1 cut(s) 250
Csp6I GTAC 3 cut(s) 4, 397, 1058
CspAI ACCGGT 1 cut(s) 377
CviQI GTAC 3 cut(s) 4, 397, 1058
DdeI CTNAG 6 cut(s) 339, 365, 582, 675, 1446, 1824
DpnI GATC 7 cut(s) 245, 270, 314, 363, 445, 1413, 1457
DpnII GATC 7 cut(s) 243, 268, 312, 361, 443, 1411, 1455
DrdI GACNNNNNNGTC 1 cut(s) 487
DseDI GACNNNNNNGTC 1 cut(s) 487
EaeI YGGCCR 1 cut(s) 687
EagI CGGCCG 1 cut(s) 687
Eam1104I CTCTTC 2 cut(s) 147, 450
EarI CTCTTC 2 cut(s) 147, 450
Ecl136II GAGCTC 1 cut(s) 84
EclXI CGGCCG 1 cut(s) 687
Eco130I CCWWGG 1 cut(s) 1577
Eco24I GRGCYC 3 cut(s) 86, 322, 1377
Eco52I CGGCCG 1 cut(s) 687
Eco53kI GAGCTC 1 cut(s) 84
EcoICRI GAGCTC 1 cut(s) 84
EcoRII CCWGG 1 cut(s) 46
EcoT14I CCWWGG 1 cut(s) 1577
EcoT38I GRGCYC 3 cut(s) 86, 322, 1377
ErhI CCWWGG 1 cut(s) 1577
FaqI GGGAC 7 cut(s) 452, 556, 695, 903, 1757, 1793, 1815
FauI CCCGC 3 cut(s) 263, 419, 611
FbaI TGATCA 3 cut(s) 243, 312, 1455
Fnu4HI GCNGC 4 cut(s) 259, 690, 741, 834
FokI GGATG 4 cut(s) 149, 404, 1541, 1762
FriOI GRGCYC 3 cut(s) 86, 322, 1377
Fsp4HI GCNGC 4 cut(s) 259, 690, 741, 834
FspBI CTAG 2 cut(s) 792, 1238
FspI TGCGCA 1 cut(s) 556
GlaI GCGC 6 cut(s) 39, 41, 43, 45, 556, 1101
GluI GCNGC 4 cut(s) 259, 690, 741, 834
GsaI CCCAGC 1 cut(s) 1743
GsuI CTGGAG 1 cut(s) 1592
HaeIII GGCC 4 cut(s) 329, 689, 833, 1142
HapII CCGG 3 cut(s) 378, 389, 1004
HgaI GACGC 1 cut(s) 250
HhaI GCGC 6 cut(s) 40, 42, 44, 46, 557, 1102
Hin1I GRCGYC 1 cut(s) 512
Hin6I GCGC 6 cut(s) 38, 40, 42, 44, 555, 1100
HinP1I GCGC 6 cut(s) 38, 40, 42, 44, 555, 1100
HincII GTYRAC 2 cut(s) 523, 957
HindII GTYRAC 2 cut(s) 523, 957
HindIII AAGCTT 1 cut(s) 1070
HinfI GANTC 9 cut(s) 341, 460, 683, 851, 868, 1149, 1162, 1672, 1722
HpaII CCGG 3 cut(s) 378, 389, 1004
HphI GGTGA 6 cut(s) 193, 205, 263, 793, 833, 1139
Hpy166II GTNNAC 5 cut(s) 399, 523, 603, 957, 1048
Hpy188I TCNGA 4 cut(s) 170, 317, 448, 1765
Hpy188III TCNNGA 5 cut(s) 674, 944, 1166, 1459, 1534
Hpy8I GTNNAC 5 cut(s) 399, 523, 603, 957, 1048
Hpy99I CGWCG 1 cut(s) 514
HpyAV CCTTC 7 cut(s) 119, 169, 443, 556, 1331, 1416, 1623
HpyCH4III ACNGT 3 cut(s) 806, 988, 1702
HpyCH4IV ACGT 3 cut(s) 293, 512, 916
HpyCH4V TGCA 8 cut(s) 303, 952, 1095, 1118, 1211, 1258, 1511, 1643
HpyF10VI GCNNNNNNNGC 5 cut(s) 48, 326, 335, 698, 1078
HpyF3I CTNAG 6 cut(s) 339, 365, 582, 675, 1446, 1824
HpySE526I ACGT 3 cut(s) 293, 512, 916
Hsp92I GRCGYC 1 cut(s) 512
HspAI GCGC 6 cut(s) 38, 40, 42, 44, 555, 1100
Ksp22I TGATCA 3 cut(s) 243, 312, 1455
Kzo9I GATC 7 cut(s) 243, 268, 312, 361, 443, 1411, 1455
LmnI GCTCC 3 cut(s) 81, 227, 1573
LweI GCATC 4 cut(s) 967, 1245, 1630, 1653
MaeI CTAG 2 cut(s) 792, 1238
MaeII ACGT 3 cut(s) 293, 512, 916
MaeIII GTNAC 5 cut(s) 781, 806, 982, 1313, 1531
MalI GATC 7 cut(s) 245, 270, 314, 363, 445, 1413, 1457
MauBI CGCGCGCG 1 cut(s) 40
MboI GATC 7 cut(s) 243, 268, 312, 361, 443, 1411, 1455
MboII GAAGA 8 cut(s) 134, 256, 467, 877, 992, 1078, 1681, 1752
MflI RGATCY 3 cut(s) 361, 443, 1411
MhlI GDGCHC 3 cut(s) 86, 322, 1377
MlyI GAGTC 3 cut(s) 350, 677, 1143
MmeI TCCRAC 3 cut(s) 69, 139, 1766
MroXI GAANNNNTTC 1 cut(s) 459
MseI TTAA 4 cut(s) 477, 696, 1479, 1653
MslI CAYNNNNRTG 4 cut(s) 56, 468, 530, 819
MspI CCGG 3 cut(s) 378, 389, 1004
MspR9I CCNGG 1 cut(s) 48
Mva1269I GAATGC 2 cut(s) 996, 1195
MvaI CCWGG 1 cut(s) 48
MvnI CGCG 5 cut(s) 40, 42, 44, 261, 692
MwoI GCNNNNNNNGC 5 cut(s) 48, 326, 335, 698, 1078
NcoI CCATGG 1 cut(s) 1577
NdeII GATC 7 cut(s) 243, 268, 312, 361, 443, 1411, 1455
NlaIV GGNNCC 1 cut(s) 1575
NmeAIII GCCGAG 1 cut(s) 665
NmuCI GTSAC 2 cut(s) 781, 1531
NsbI TGCGCA 1 cut(s) 556
NspI RCATGY 3 cut(s) 529, 1468, 1515
PaeI GCATGC 1 cut(s) 1468
PagI TCATGA 1 cut(s) 943
PauI GCGCGC 3 cut(s) 38, 40, 42
PciI ACATGT 1 cut(s) 525
PcsI WCGNNNNNNNCGW 1 cut(s) 258
PctI GAATGC 2 cut(s) 996, 1195
PdmI GAANNNNTTC 1 cut(s) 459
PfeI GAWTC 6 cut(s) 460, 851, 868, 1162, 1672, 1722
PinAI ACCGGT 1 cut(s) 377
PkrI GCNGC 4 cut(s) 260, 691, 742, 835
PleI GAGTC 3 cut(s) 349, 677, 1143
PpsI GAGTC 3 cut(s) 349, 677, 1143
PscI ACATGT 1 cut(s) 525
Psp124BI GAGCTC 1 cut(s) 86
Psp6I CCWGG 1 cut(s) 46
PspFI CCCAGC 1 cut(s) 1739
PspGI CCWGG 1 cut(s) 46
PspN4I GGNNCC 1 cut(s) 1575
PspPI GGNCC 2 cut(s) 328, 1141
PstNI CAGNNNCTG 1 cut(s) 980
PsuI RGATCY 3 cut(s) 361, 443, 1411
PteI GCGCGC 3 cut(s) 38, 40, 42
RsaI GTAC 3 cut(s) 5, 398, 1059
RsaNI GTAC 3 cut(s) 4, 397, 1058
RseI CAYNNNNRTG 4 cut(s) 56, 468, 530, 819
SacI GAGCTC 1 cut(s) 86
SaqAI TTAA 4 cut(s) 477, 696, 1479, 1653
SatI GCNGC 4 cut(s) 259, 690, 741, 834
Sau3AI GATC 7 cut(s) 243, 268, 312, 361, 443, 1411, 1455
Sau96I GGNCC 2 cut(s) 328, 1141
SchI GAGTC 3 cut(s) 350, 677, 1143
ScrFI CCNGG 1 cut(s) 48
SduI GDGCHC 3 cut(s) 86, 322, 1377
SfaNI GCATC 4 cut(s) 967, 1245, 1630, 1653
SfcI CTRYAG 2 cut(s) 1008, 1778
SmiMI CAYNNNNRTG 4 cut(s) 56, 468, 530, 819
SpeI ACTAGT 1 cut(s) 791
SphI GCATGC 1 cut(s) 1468
SspI AATATT 1 cut(s) 1651
SspMI CTAG 2 cut(s) 792, 1238
SstI GAGCTC 1 cut(s) 86
StyD4I CCNGG 1 cut(s) 46
StyI CCWWGG 1 cut(s) 1577
TaaI ACNGT 3 cut(s) 806, 988, 1702
TaiI ACGT 3 cut(s) 296, 515, 919
TaqI TCGA 7 cut(s) 180, 267, 384, 509, 745, 817, 1661
TatI WGTACW 2 cut(s) 3, 1057
TauI GCSGC 4 cut(s) 261, 692, 743, 836
TfiI GAWTC 6 cut(s) 460, 851, 868, 1162, 1672, 1722
Tru1I TTAA 4 cut(s) 477, 696, 1479, 1653
Tru9I TTAA 4 cut(s) 477, 696, 1479, 1653
TscAI CASTG 1 cut(s) 1102
TseFI GTSAC 2 cut(s) 781, 1531
Tsp45I GTSAC 2 cut(s) 781, 1531
TspDTI ATGAA 9 cut(s) 74, 151, 199, 452, 588, 681, 932, 960, 1766
TspRI CASTG 1 cut(s) 1102
XapI RAATTY 4 cut(s) 206, 669, 1343, 1609
XceI RCATGY 3 cut(s) 529, 1468, 1515
XmnI GAANNNNTTC 1 cut(s) 459
XspI CTAG 2 cut(s) 792, 1238
ZraI GACGTC 1 cut(s) 513
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.