RLG00000025934

Pentatricopeptide repeat-containing protein

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
Physical Location & Seq
Reverse (-)
49306213 .. 49308563
2351 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000025934

Sequence Viewer

Length: 2076 bp
ATGGACTCCACCAAACTATTATCCCTCTTAAGAACATGCATCACTTCGAAGTCGCTGAGACCAGGCAAGCTCATCCACCAAAAGATACTCACTCAAGGCTTCCAATACAACACCCTCTTGTGCAAAAACCTCATAGACTTCTACATCTCTTGCCATTTATGCCCTTCTGCAAAGCTTGTTTTCCAATCCATTGAAAACCCATCCAGCATTTCCTTGTGGAATTCTCTCATGACAGGTTACACCAAGAACCTCATGTTCATTGATGCTCTTGAGCTCTATGAAAGGTTACTCTGCTACCCCTATCTGGGTCCTGATAGTTACACCTACCCAAGTGTTCTCAAGGCCTGCGGTGCATTGGGTAGGGTAGGTCTTGGAAAAATGATCCATAACCATTTGATAAAGACTGGTTTCATATCAGATATCGTCGTGGCAAGTTCCCTTGTGGGAATGTATGCGAAATGCAATGTGTTTGATCCTGCAATTCAGCTGTTTGATGAAATGCCTGAAAGAGATGTGGCATGTTGGAATACTGCAATTTCTTGTTATTATCAAAATGGGCAAGCTCAGAAGGCAATGGACTTGTATGAGAAGATGAGGAGTTCTGGCTTTGAGCCTAATTTAGTAACAATCACTACGGTTATTTCATCATGTGCAAGACTTTTGGATTTGGAGAGAGGTAGGGAGATTCACAAGGAGTTGATACAAAATCGATTCATTTTGGATTCCTTTGTTAGTTCTGCTTTGGTAGACATGTATGGGAAATGTGGATGTTTAGATATGGCAAAAGAGATTTTTGAACAAGTCCCAAGAAAGAATGTCATTGCTTGGAATTCCATGATTGCAGCCTATAGTGTAACAGGTGACAGTAAATCTTGTATCGATCTTTTTAGAAGGATGACTGATGAAGGAACTAGTCCCTCTTTGATTACTTTTAGCAGCATTTTGTTGGCTAGTTCAAGATCGGTCCAACTTCAACATGGAAAATTCATGCACGGATATATGATAAGAAACTATGTAGAGGCTGATATCTATGTTTACAGTTCGCTTATTGATCTCTACTTTGTGTGTGGAAGTATCTCGTCTGCTAAAATGGTCTTTGAAAAGACGTCCAAGACAAATGTAGTTTCTTGGAATGTTATGATTTCTGGATATGTGAAAGTGGGAAATTATTTCAGGGCTCTAGGGTTATATGATGAGATGAAAGAAGCTGGTGTAAGGCCAAACGCCATCACGGTAACTAGTATCCTATCGGCTTGTTCACAACTAACAGCACTGGAAAAGGGTAAGGAGATTCACAGAACTGTTGTTGATAGTGAGTTGGAAACCAATGAAATAGTCATGGGGGCTCTCCTTGACATGTATGCTAAATGTGGTGCGGTGGATGAAGCACGTAATGTTTTCAATAGATTACCAGGTAGAGATCTTGTGTCATGGACATCCATGATCACGGCTTATGGGTCTCATGGTCAGACTAAAGAAGCTATAAAGCTTTTTGATGAAATGCAACAATCCAATGCAAAACCAGATGGAGTTACAATTCTTGCAGTGCTATCCGCATGTAGCCATGTTGGATTAGTTGATGAAGGTTGTTGCTATTTCAATAAAATGATCGGTGAATATGGGATTGAACCGAGAATAGAACATTACTCTTGCTTAATAGATCTTCTTGGCCGTGCTGGTAGGTTGAACGAAGCTTACCAAATCATCCAAAGAACTCCACAAATTAGGGAGGATGTTGACTTGTTAAGTACACTATTTTCTGCATGCCGTTTGCATGGAGATCAAGACTTGGGTGTAAAAATTGCAAGATTGCTAATTGAGAAGAATCCTGATGATCCTTCAACATATATTATGTTATCACATAGTCTTGCTTCTGGAAACAAATGGAATGAGGTGCGGAAGGTGAGACTAAAGATGAAAGAATTGGGATTAAGGAAAAATCCTGGGTGTAGCTGGATTGAGATTAATAAGAGGATTCAGCCTTTCTTTGTTCAAGACGAGTCCCACCCAGAATCCGAAATGAATCTTGAGTACGACTATGCCTTCCTGAATCTTTGTTTAGCACAGTGGAATTAG

Protein Analysis

692

Amino Acids

77.72

Weight (kDa)

6.55

Isoelectric Point (pI)

43.91

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 170 - 219 1.8e-13 PPR repeat family
PPR PF01535 174 - 203 5.7e-07 PPR repeat
PPR_2 PF13041 271 - 315 1.7e-08 PPR repeat family
PPR_3 PF13812 271 - 315 5e-06 Pentatricopeptide repeat domain
PPR_3 PF13812 371 - 419 1.2e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 373 - 420 3.2e-14 PPR repeat family
PPR PF01535 375 - 405 3.5e-09 PPR repeat
PPR_2 PF13041 474 - 521 1.3e-11 PPR repeat family
PPR PF01535 476 - 504 5.1e-09 PPR repeat
E_motif PF20431 592 - 654 2.7e-14 E motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AatII GACGTC 1 cut(s) 1109
AccI GTMKAC 1 cut(s) 747
AciI CCGC 4 cut(s) 348, 1376, 1554, 1897
AclWI GGATC 3 cut(s) 376, 467, 1829
AcoI YGGCCR 1 cut(s) 1669
AcsI RAATTY 3 cut(s) 220, 829, 983
AcyI GRCGYC 1 cut(s) 1106
AfaI GTAC 2 cut(s) 1750, 2033
AfiI CCNNNNNNNGG 2 cut(s) 304, 305
AflII CTTAAG 1 cut(s) 28
AflIII ACRYGT 2 cut(s) 750, 1356
AhlI ACTAGT 2 cut(s) 911, 1238
AjnI CCWGG 3 cut(s) 61, 1411, 1942
Alw21I GWGCWC 1 cut(s) 276
Alw26I GTCTC 3 cut(s) 52, 1464, 1900
AlwI GGATC 3 cut(s) 376, 467, 1829
AoxI GGCC 3 cut(s) 342, 1217, 1669
ApeKI GCWGC 2 cut(s) 842, 936
ApoI RAATTY 3 cut(s) 220, 829, 983
AseI ATTAAT 1 cut(s) 1965
AspS9I GGNCC 2 cut(s) 308, 964
AsuHPI GGTGA 3 cut(s) 872, 1625, 1915
AsuII TTCGAA 1 cut(s) 47
AvaII GGWCC 2 cut(s) 308, 964
BanII GRGCYC 3 cut(s) 276, 1180, 1348
Bbv12I GWGCWC 1 cut(s) 276
BbvI GCAGC 2 cut(s) 854, 948
BccI CCATC 3 cut(s) 208, 1235, 1520
BceAI ACGGC 3 cut(s) 1464, 1656, 1752
BciT130I CCWGG 3 cut(s) 63, 1413, 1944
BciVI GTATCC 1 cut(s) 1253
BclI TGATCA 1 cut(s) 1443
BcoDI GTCTC 3 cut(s) 52, 1464, 1900
BcuI ACTAGT 2 cut(s) 911, 1238
BfaI CTAG 4 cut(s) 912, 951, 1181, 1239
BfmI CTRYAG 1 cut(s) 847
BfrI CTTAAG 1 cut(s) 28
BfuI GTATCC 1 cut(s) 1253
BglII AGATCT 2 cut(s) 1420, 1660
BisI GCNGC 2 cut(s) 843, 937
BlsI GCNGC 2 cut(s) 844, 938
Bme1390I CCNGG 3 cut(s) 63, 1413, 1944
Bme18I GGWCC 2 cut(s) 308, 964
BmgT120I GGNCC 2 cut(s) 308, 964
BmiI GGNNCC 1 cut(s) 309
BmrFI CCNGG 3 cut(s) 63, 1413, 1944
BmsI GCATC 2 cut(s) 48, 253
Bpu14I TTCGAA 1 cut(s) 47
BpuEI CTTGAG 4 cut(s) 78, 290, 323, 2048
Bsa29I ATCGAT 2 cut(s) 709, 879
BsaAI YACGTR 1 cut(s) 1391
BsaHI GRCGYC 1 cut(s) 1106
BsaI GGTCTC 2 cut(s) 52, 1464
BsaJI CCNNGG 1 cut(s) 1943
Bsc4I CCNNNNNNNGG 2 cut(s) 304, 305
Bse1I ACTGG 2 cut(s) 409, 1278
Bse3DI GCAATG 3 cut(s) 469, 579, 819
BseBI CCWGG 3 cut(s) 63, 1413, 1944
BseCI ATCGAT 2 cut(s) 709, 879
BseDI CCNNGG 1 cut(s) 1943
BseGI GGATG 8 cut(s) 72, 200, 773, 900, 1387, 1436, 1704, 1738
BseLI CCNNNNNNNGG 2 cut(s) 304, 305
BseMI GCAATG 3 cut(s) 469, 579, 819
BseMII CTCAG 2 cut(s) 47, 578
BseNI ACTGG 2 cut(s) 409, 1278
BseRI GAGGAG 1 cut(s) 610
BseXI GCAGC 2 cut(s) 854, 948
BshFI GGCC 3 cut(s) 344, 1219, 1671
BshVI ATCGAT 2 cut(s) 709, 879
BsiHKAI GWGCWC 1 cut(s) 276
BslFI GGGAC 3 cut(s) 788, 900, 1987
BslI CCNNNNNNNGG 2 cut(s) 304, 305
BsmAI GTCTC 3 cut(s) 52, 1464, 1900
BsmFI GGGAC 3 cut(s) 788, 900, 1987
BsnI GGCC 3 cut(s) 344, 1219, 1671
Bso31I GGTCTC 2 cut(s) 52, 1464
Bsp119I TTCGAA 1 cut(s) 47
Bsp1286I GDGCHC 3 cut(s) 276, 1180, 1348
BspACI CCGC 4 cut(s) 348, 1376, 1554, 1897
BspANI GGCC 3 cut(s) 344, 1219, 1671
BspCNI CTCAG 2 cut(s) 48, 577
BspDI ATCGAT 2 cut(s) 709, 879
BspHI TCATGA 1 cut(s) 228
BspLI GGNNCC 1 cut(s) 309
BspPI GGATC 3 cut(s) 376, 467, 1829
BspT104I TTCGAA 1 cut(s) 47
BspTI CTTAAG 1 cut(s) 28
BspTNI GGTCTC 2 cut(s) 52, 1464
BsrDI GCAATG 3 cut(s) 469, 579, 819
BsrI ACTGG 2 cut(s) 409, 1278
BssECI CCNNGG 1 cut(s) 1943
BssNI GRCGYC 1 cut(s) 1106
Bst2UI CCWGG 3 cut(s) 63, 1413, 1944
Bst4CI ACNGT 6 cut(s) 637, 866, 1040, 1234, 1303, 2067
BstACI GRCGYC 1 cut(s) 1106
BstAFI CTTAAG 1 cut(s) 28
BstBAI YACGTR 1 cut(s) 1391
BstBI TTCGAA 1 cut(s) 47
BstC8I GCNNGC 4 cut(s) 68, 346, 561, 1765
BstDEI CTNAG 2 cut(s) 56, 564
BstF5I GGATG 8 cut(s) 72, 200, 773, 900, 1387, 1436, 1704, 1738
BstMAI GTCTC 3 cut(s) 52, 1464, 1900
BstMWI GCNNNNNNNGC 3 cut(s) 159, 350, 569
BstNI CCWGG 3 cut(s) 63, 1413, 1944
BstNSI RCATGY 6 cut(s) 39, 522, 754, 1360, 1560, 1767
BstSCI CCNGG 3 cut(s) 61, 1411, 1942
BstSFI CTRYAG 1 cut(s) 847
BstV1I GCAGC 2 cut(s) 854, 948
BstX2I RGATCY 2 cut(s) 1420, 1660
BstYI RGATCY 2 cut(s) 1420, 1660
Bsu15I ATCGAT 2 cut(s) 709, 879
BsuI GTATCC 1 cut(s) 1253
BsuRI GGCC 3 cut(s) 344, 1219, 1671
BsuTUI ATCGAT 2 cut(s) 709, 879
BtsCI GGATG 8 cut(s) 72, 200, 773, 900, 1387, 1436, 1704, 1738
BtsI GCAGTG 1 cut(s) 1551
BtsIMutI CAGTG 3 cut(s) 1271, 1551, 2072
Cac8I GCNNGC 4 cut(s) 68, 346, 561, 1765
CciI TCATGA 1 cut(s) 228
Cfr13I GGNCC 2 cut(s) 308, 964
ClaI ATCGAT 2 cut(s) 709, 879
CsiI ACCWGGT 1 cut(s) 1411
Csp6I GTAC 2 cut(s) 1749, 2032
CviQI GTAC 2 cut(s) 1749, 2032
DdeI CTNAG 2 cut(s) 56, 564
EaeI YGGCCR 1 cut(s) 1669
Ecl136II GAGCTC 1 cut(s) 274
Eco147I AGGCCT 1 cut(s) 344
Eco24I GRGCYC 3 cut(s) 276, 1180, 1348
Eco31I GGTCTC 2 cut(s) 52, 1464
Eco32I GATATC 2 cut(s) 421, 1027
Eco47I GGWCC 2 cut(s) 308, 964
Eco53kI GAGCTC 1 cut(s) 274
EcoICRI GAGCTC 1 cut(s) 274
EcoO109I RGGNCCY 1 cut(s) 308
EcoRI GAATTC 2 cut(s) 220, 829
EcoRII CCWGG 3 cut(s) 61, 1411, 1942
EcoRV GATATC 2 cut(s) 421, 1027
EcoT22I ATGCAT 1 cut(s) 41
EcoT38I GRGCYC 3 cut(s) 276, 1180, 1348
FaqI GGGAC 3 cut(s) 788, 900, 1987
FbaI TGATCA 1 cut(s) 1443
FblI GTMKAC 1 cut(s) 747
Fnu4HI GCNGC 2 cut(s) 843, 937
FokI GGATG 8 cut(s) 59, 187, 780, 907, 1394, 1423, 1691, 1745
FriOI GRGCYC 3 cut(s) 276, 1180, 1348
Fsp4HI GCNGC 2 cut(s) 843, 937
FspBI CTAG 4 cut(s) 912, 951, 1181, 1239
GluI GCNGC 2 cut(s) 843, 937
HaeIII GGCC 3 cut(s) 344, 1219, 1671
Hin1I GRCGYC 1 cut(s) 1106
HincII GTYRAC 1 cut(s) 1738
HindII GTYRAC 1 cut(s) 1738
HindIII AAGCTT 3 cut(s) 173, 1487, 1692
HphI GGTGA 3 cut(s) 872, 1625, 1915
Hpy166II GTNNAC 5 cut(s) 748, 1036, 1259, 1738, 1751
Hpy188I TCNGA 4 cut(s) 418, 567, 1470, 2017
Hpy8I GTNNAC 5 cut(s) 748, 1036, 1259, 1738, 1751
Hpy99I CGWCG 1 cut(s) 428
HpyAV CCTTC 8 cut(s) 174, 562, 885, 899, 1577, 1848, 1894, 2053
HpyCH4III ACNGT 6 cut(s) 637, 866, 1040, 1234, 1303, 2067
HpyCH4IV ACGT 2 cut(s) 1106, 1390
HpyF10VI GCNNNNNNNGC 3 cut(s) 159, 350, 569
HpyF3I CTNAG 2 cut(s) 56, 564
HpySE526I ACGT 2 cut(s) 1106, 1390
Hsp92I GRCGYC 1 cut(s) 1106
Ksp22I TGATCA 1 cut(s) 1443
Lsp1109I GCAGC 2 cut(s) 854, 948
LweI GCATC 2 cut(s) 48, 253
MabI ACCWGGT 1 cut(s) 1411
MaeI CTAG 4 cut(s) 912, 951, 1181, 1239
MaeII ACGT 2 cut(s) 1106, 1390
MaeIII GTNAC 8 cut(s) 236, 285, 317, 622, 853, 860, 1234, 1531
MboII GAAGA 3 cut(s) 601, 1655, 1834
MflI RGATCY 2 cut(s) 1420, 1660
MhlI GDGCHC 3 cut(s) 276, 1180, 1348
MlyI GAGTC 1 cut(s) 2009
MmeI TCCRAC 4 cut(s) 503, 991, 1299, 1549
Mph1103I ATGCAT 1 cut(s) 41
MseI TTAA 5 cut(s) 29, 1655, 1745, 1931, 1965
MspA1I CMGCKG 1 cut(s) 487
MspCI CTTAAG 1 cut(s) 28
MspR9I CCNGG 3 cut(s) 63, 1413, 1944
MvaI CCWGG 3 cut(s) 63, 1413, 1944
MwoI GCNNNNNNNGC 3 cut(s) 159, 350, 569
NlaIV GGNNCC 1 cut(s) 309
NmuCI GTSAC 1 cut(s) 860
NsiI ATGCAT 1 cut(s) 41
NspI RCATGY 6 cut(s) 39, 522, 754, 1360, 1560, 1767
NspV TTCGAA 1 cut(s) 47
PaeI GCATGC 1 cut(s) 1767
PagI TCATGA 1 cut(s) 228
PceI AGGCCT 1 cut(s) 344
PciI ACATGT 2 cut(s) 750, 1356
PfeI GAWTC 9 cut(s) 685, 711, 722, 1291, 1825, 1975, 2012, 2023, 2050
PkrI GCNGC 2 cut(s) 844, 938
PleI GAGTC 1 cut(s) 2008
PpsI GAGTC 1 cut(s) 2008
Ppu21I YACGTR 1 cut(s) 1391
PpuMI RGGWCCY 1 cut(s) 308
PscI ACATGT 2 cut(s) 750, 1356
PshBI ATTAAT 1 cut(s) 1965
Psp124BI GAGCTC 1 cut(s) 276
Psp5II RGGWCCY 1 cut(s) 308
Psp6I CCWGG 3 cut(s) 61, 1411, 1942
PspGI CCWGG 3 cut(s) 61, 1411, 1942
PspN4I GGNNCC 1 cut(s) 309
PspPI GGNCC 2 cut(s) 308, 964
PspPPI RGGWCCY 1 cut(s) 308
PsrI GAACNNNNNNTAC 2 cut(s) 1679, 1711
PsuI RGATCY 2 cut(s) 1420, 1660
PvuII CAGCTG 1 cut(s) 487
RsaI GTAC 2 cut(s) 1750, 2033
RsaNI GTAC 2 cut(s) 1749, 2032
SacI GAGCTC 1 cut(s) 276
SaqAI TTAA 5 cut(s) 29, 1655, 1745, 1931, 1965
SatI GCNGC 2 cut(s) 843, 937
Sau96I GGNCC 2 cut(s) 308, 964
SchI GAGTC 1 cut(s) 2009
ScrFI CCNGG 3 cut(s) 63, 1413, 1944
SduI GDGCHC 3 cut(s) 276, 1180, 1348
SexAI ACCWGGT 1 cut(s) 1411
SfaNI GCATC 2 cut(s) 48, 253
SfcI CTRYAG 1 cut(s) 847
SfuI TTCGAA 1 cut(s) 47
SinI GGWCC 2 cut(s) 308, 964
SmlI CTYRAG 5 cut(s) 28, 93, 269, 338, 2027
SmoI CTYRAG 5 cut(s) 28, 93, 269, 338, 2027
SpeI ACTAGT 2 cut(s) 911, 1238
SphI GCATGC 1 cut(s) 1767
SseBI AGGCCT 1 cut(s) 344
SsiI CCGC 4 cut(s) 348, 1376, 1554, 1897
SspMI CTAG 4 cut(s) 912, 951, 1181, 1239
SstI GAGCTC 1 cut(s) 276
StuI AGGCCT 1 cut(s) 344
StyD4I CCNGG 3 cut(s) 61, 1411, 1942
TaaI ACNGT 6 cut(s) 637, 866, 1040, 1234, 1303, 2067
TaiI ACGT 2 cut(s) 1109, 1393
TaqI TCGA 3 cut(s) 47, 709, 879
TaqII GACCGA 1 cut(s) 952
TatI WGTACW 1 cut(s) 1748
TfiI GAWTC 9 cut(s) 685, 711, 722, 1291, 1825, 1975, 2012, 2023, 2050
Tru1I TTAA 5 cut(s) 29, 1655, 1745, 1931, 1965
Tru9I TTAA 5 cut(s) 29, 1655, 1745, 1931, 1965
TscAI CASTG 3 cut(s) 1278, 1551, 2072
TseFI GTSAC 1 cut(s) 860
TseI GCWGC 2 cut(s) 842, 936
Tsp45I GTSAC 1 cut(s) 860
TspGWI ACGGA 1 cut(s) 1008
TspRI CASTG 3 cut(s) 1278, 1551, 2072
Vha464I CTTAAG 1 cut(s) 28
VpaK11BI GGWCC 2 cut(s) 308, 964
VspI ATTAAT 1 cut(s) 1965
XapI RAATTY 3 cut(s) 220, 829, 983
XceI RCATGY 6 cut(s) 39, 522, 754, 1360, 1560, 1767
XcmI CCANNNNNNNNNTGG 1 cut(s) 974
XmiI GTMKAC 1 cut(s) 747
XspI CTAG 4 cut(s) 912, 951, 1181, 1239
ZraI GACGTC 1 cut(s) 1107
Zsp2I ATGCAT 1 cut(s) 41
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.