Rh4DG142200

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4D
OG0012605
Physical Location & Seq
Reverse (-)
28164812 .. 28169930
5119 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4DG142200.1

Sequence Viewer

Length: 1827 bp
ATGTTGTCTACATCTAAACATGGAGCTCTCACTCTTTCTTCAATTCTCTTCAAACATCTCACACCCCTTACAGCCTTTTCACCATTCTCTTCAAAACCCAATTCAAATTTCACAACCCCAAATCAGATTGCCACAATCCCAAAACAACCCACTGCAAGAACAAGAGTCCCACAGGTTTCAGACCCAGTAAGTGCTTCTGTTGTCGATTCTGTATGTTCTTTACTTTCTAGAGAAACCGCTAGTGTTGATAGTTTGTTGAGTGGTTTCAAACACGAGTTGAGTTCAGAAGTGGTGCTTCAAGTTCTGATGAATTATAAGGAGCTGGGAAGGAGAAAGACATTGGACTTCTTTTCTTGGGCTGGGCTTCAAATGCATTTTCAGTTTGAGGACTGTGTGGTTGAGTACATGGCTGATTTCTTAGGTAGGAGGAAGCTCTTTGATGACATGAAATGTCTTTTATTGACTGTGTCCTTGCACAAGGGTCGGGTTTCGTGTCGAACAGTTTCGACTTGTATTAGGTTTCTAGGTAGGCAGGGGAGGATTAAAGAAGCACTTTGCGTGTTTGAAGAAATGGAATCTAAATTTGGGTGTAAACCTGATAATCTTGTGTACAATAATGTGCTTTATGTGCTTTGTAAGAAGAAGTCATCTGGGCATTTGATTGATTTTGCGCTTGCAGTTTTTCGGAGAATTGAGTACCCTGATATGTATTCGTATAGTAATATGCTTGTTGGTTTGTGTAAATTTGGTAGATTTGAGACTGCTGTTGAAGTTTTTGGTGAAATGTGTGGGACTGGTTTGGTTCCTACTAGGTCTGCGGTGAATGTTCTTATTGGAGAGTTGTGTTTATTGAGTGCGAAAGAAGCAGCTGTTTCTAAAGTAAGAGTGAAAAATGTTCGTAGGCCCTTTAAGATTTTGGTTCCAAATGTGCATGAAAAGAGCGGTGCTATCCAGCCTGCACTTGGAGTGTTTTGGGAAGTTTATAAACTAGGCTTATTACCTAGTACTTTTGTCATAATCCGACTTCTATCAGAGCTTTGTCAACTGGGAAAAATGGAAGAGGCTGTTCGGGTCTTGAAGGCTGTTGAGGGTAGGAAGCAGAGTTGCGTTGAGGACGGCTACTGCATTGTGATGAAGGGATTGTGTGAACACTGCTGTGTTGAGGAAGCTAGTCATTTGTTTGGGAGGATGCTCTCTCAGGGCATGAAGCCAAAGTTGACTATTTATAATTCTATTATTTGCATGCTATGCAAACTAGGGAATTTGGATGGTGCTGAAAGTGTCTTTAAGATGATGAACAAGAAGAGATGTCTTCCGGATAGTTGTACTTATTCTGCATTGGTCCACGCTTATTGTAAAGCTGGAAAATGGAAAGCTGCTTATGACTTGATGATAGAAATGCTCGGATTGGGCTGCTCTCCGCCTTTTCACACTTATAGCTTAGTGGATAAACTTTTGAGAGAAAATGAACAAACAGATTTGTGTTTTAAATTGGAAAGGAAGTTGGAAACCCAGATCTTGCAGAAGCTATGCAAAGATGGTCAATTAGAGGATGCATATGAGAAGCTAAAGTCAATGATTGAAAAGGGGTTTTACCCTCCAGTGTATGCAAGAGATGCTTTTAAGAATGCATTTCGAAAGTATGGAAAATTAAATATAGCTCAGGATTTGTTACAGACGATAGATGACATAGACAACAATGAGGAGAAACAACTTACCAATGAACCTATTGACAGAAGTATTTTCCACCGTCAACTGAAGAAGACAATGATGCAGACAAATGGAAGAGCGAGGAAAGATCAAACCAACAATGAAGTTGTGCTGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
PPR PPR_2

Protein Analysis

608

Amino Acids

68.71

Weight (kDa)

8.93

Isoelectric Point (pI)

37.15

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 169 - 213 9.9e-07 PPR repeat family
PPR_2 PF13041 234 - 282 2e-07 PPR repeat family
PPR_long PF17177 386 - 474 1.2e-07 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 395 - 451 1.2e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 401 - 432 2.4e-06 PPR repeat
PPR_2 PF13041 406 - 453 1.8e-13 PPR repeat family
PPR PF01535 408 - 437 3e-06 PPR repeat
PPR_1 PF12854 436 - 467 2.1e-09 PPR repeat
PPR_2 PF13041 439 - 480 8.2e-10 PPR repeat family
PPR PF01535 443 - 472 6.6e-07 PPR repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 3 cut(s) 315, 984, 1227
AccBSI CCGCTC 1 cut(s) 942
AccI GTMKAC 1 cut(s) 8
AccIII TCCGGA 1 cut(s) 1315
AciI CCGC 4 cut(s) 237, 818, 942, 1421
AcsI RAATTY 4 cut(s) 106, 581, 743, 1261
AcuI CTGAAG 1 cut(s) 1778
AfaI GTAC 5 cut(s) 404, 611, 698, 1006, 1327
AfiI CCNNNNNNNGG 1 cut(s) 962
AjuI GAANNNNNNNTTGG 4 cut(s) 92, 124, 567, 599
AleI CACNNNNGTG 1 cut(s) 1155
Alw21I GWGCWC 1 cut(s) 28
Alw26I GTCTC 1 cut(s) 752
Aor13HI TCCGGA 1 cut(s) 1315
AoxI GGCC 1 cut(s) 902
ApeKI GCWGC 3 cut(s) 866, 1376, 1413
ApoI RAATTY 4 cut(s) 106, 581, 743, 1261
Asp700I GAANNNNTTC 1 cut(s) 502
AspLEI GCGC 1 cut(s) 673
AspS9I GGNCC 2 cut(s) 903, 1342
AsuHPI GGTGA 3 cut(s) 72, 791, 832
AsuII TTCGAA 1 cut(s) 1636
AvaII GGWCC 1 cut(s) 1342
BanII GRGCYC 1 cut(s) 28
BauI CACGAG 1 cut(s) 272
BbsI GAAGAC 2 cut(s) 1304, 1769
Bbv12I GWGCWC 1 cut(s) 28
BbvI GCAGC 3 cut(s) 878, 1363, 1400
BccI CCATC 2 cut(s) 1262, 1532
BceAI ACGGC 1 cut(s) 1132
BcgI CGANNNNNNTGC 2 cut(s) 464, 498
BcoDI GTCTC 1 cut(s) 752
BfaI CTAG 8 cut(s) 228, 240, 524, 810, 989, 1002, 1170, 1256
BglII AGATCT 1 cut(s) 1515
BisI GCNGC 3 cut(s) 867, 1377, 1414
BlsI GCNGC 3 cut(s) 868, 1378, 1415
BmcAI AGTACT 1 cut(s) 1006
Bme18I GGWCC 1 cut(s) 1342
BmgT120I GGNCC 2 cut(s) 903, 1342
BmiI GGNNCC 2 cut(s) 804, 921
BmrI ACTGGG 2 cut(s) 179, 1055
BmsI GCATC 4 cut(s) 1179, 1543, 1606, 1761
BmuI ACTGGG 2 cut(s) 179, 1055
BpiI GAAGAC 2 cut(s) 1304, 1769
BpmI CTGGAG 1 cut(s) 1584
Bpu10I CCTNAGC 1 cut(s) 1662
Bpu14I TTCGAA 1 cut(s) 1636
BsaWI WCCGGW 1 cut(s) 1315
Bsc4I CCNNNNNNNGG 1 cut(s) 962
Bse1I ACTGG 4 cut(s) 185, 799, 1050, 1601
BseAI TCCGGA 1 cut(s) 1315
BseGI GGATG 3 cut(s) 1194, 1273, 1558
BseLI CCNNNNNNNGG 1 cut(s) 962
BseMII CTCAG 2 cut(s) 1211, 1676
BseNI ACTGG 4 cut(s) 185, 799, 1050, 1601
BseRI GAGGAG 1 cut(s) 1718
BseXI GCAGC 3 cut(s) 878, 1363, 1400
BseYI CCCAGC 2 cut(s) 322, 359
BsgI GTGCAG 1 cut(s) 942
BshFI GGCC 1 cut(s) 904
BsiHKAI GWGCWC 1 cut(s) 28
BsiSI CCGG 1 cut(s) 1316
BslFI GGGAC 2 cut(s) 152, 805
BslI CCNNNNNNNGG 1 cut(s) 962
BsmAI GTCTC 1 cut(s) 752
BsmFI GGGAC 2 cut(s) 152, 805
BsmI GAATGC 1 cut(s) 1633
BsnI GGCC 1 cut(s) 904
Bsp119I TTCGAA 1 cut(s) 1636
Bsp1286I GDGCHC 1 cut(s) 28
Bsp13I TCCGGA 1 cut(s) 1315
Bsp1407I TGTACA 1 cut(s) 609
Bsp143I GATC 2 cut(s) 1515, 1798
BspACI CCGC 4 cut(s) 237, 818, 942, 1421
BspANI GGCC 1 cut(s) 904
BspCNI CTCAG 2 cut(s) 1210, 1675
BspEI TCCGGA 1 cut(s) 1315
BspLI GGNNCC 2 cut(s) 804, 921
BspQI GCTCTTC 1 cut(s) 1780
BspT104I TTCGAA 1 cut(s) 1636
BsrBI CCGCTC 1 cut(s) 942
BsrGI TGTACA 1 cut(s) 609
BsrI ACTGG 4 cut(s) 185, 799, 1050, 1601
BssMI GATC 2 cut(s) 1515, 1798
BssSI CACGAG 1 cut(s) 272
Bst2BI CACGAG 1 cut(s) 272
Bst4CI ACNGT 4 cut(s) 392, 466, 502, 1751
Bst6I CTCTTC 5 cut(s) 53, 94, 1053, 1298, 1780
BstAPI GCANNNNNTGC 2 cut(s) 1248, 1616
BstAUI TGTACA 1 cut(s) 609
BstBI TTCGAA 1 cut(s) 1636
BstC8I GCNNGC 3 cut(s) 675, 957, 1244
BstDEI CTNAG 4 cut(s) 418, 1197, 1441, 1662
BstF5I GGATG 3 cut(s) 1194, 1273, 1558
BstHHI GCGC 1 cut(s) 673
BstKTI GATC 2 cut(s) 1518, 1801
BstMAI GTCTC 1 cut(s) 752
BstMBI GATC 2 cut(s) 1515, 1798
BstMWI GCNNNNNNNGC 5 cut(s) 370, 628, 863, 1248, 1616
BstNSI RCATGY 1 cut(s) 1246
BstV1I GCAGC 3 cut(s) 878, 1363, 1400
BstV2I GAAGAC 2 cut(s) 1304, 1769
BstX2I RGATCY 1 cut(s) 1515
BstYI RGATCY 1 cut(s) 1515
BsuRI GGCC 1 cut(s) 904
BtsCI GGATG 3 cut(s) 1194, 1273, 1558
BtsI GCAGTG 2 cut(s) 150, 1150
BtsIMutI CAGTG 3 cut(s) 150, 1150, 1608
Cac8I GCNNGC 3 cut(s) 675, 957, 1244
CfoI GCGC 1 cut(s) 673
Cfr13I GGNCC 2 cut(s) 903, 1342
Csp6I GTAC 5 cut(s) 403, 610, 697, 1005, 1326
CspCI CAANNNNNGTGG 2 cut(s) 1334, 1369
CviAII CATG 6 cut(s) 20, 406, 445, 932, 1204, 1243
CviQI GTAC 5 cut(s) 403, 610, 697, 1005, 1326
DdeI CTNAG 4 cut(s) 418, 1197, 1441, 1662
DpnI GATC 2 cut(s) 1517, 1800
DpnII GATC 2 cut(s) 1515, 1798
DraI TTTAAA 1 cut(s) 1489
Eam1104I CTCTTC 5 cut(s) 53, 94, 1053, 1298, 1780
EarI CTCTTC 5 cut(s) 53, 94, 1053, 1298, 1780
EciI GGCGGA 1 cut(s) 1410
Ecl136II GAGCTC 1 cut(s) 26
Eco24I GRGCYC 1 cut(s) 28
Eco47I GGWCC 1 cut(s) 1342
Eco53kI GAGCTC 1 cut(s) 26
Eco57I CTGAAG 1 cut(s) 1778
EcoICRI GAGCTC 1 cut(s) 26
EcoO109I RGGNCCY 1 cut(s) 903
EcoT22I ATGCAT 3 cut(s) 375, 1558, 1633
EcoT38I GRGCYC 1 cut(s) 28
FaeI CATG 6 cut(s) 23, 409, 448, 935, 1207, 1246
FalI AAGNNNNNCTT 6 cut(s) 279, 311, 537, 569, 1603, 1635
FaqI GGGAC 2 cut(s) 152, 805
FatI CATG 6 cut(s) 19, 405, 444, 931, 1203, 1242
FauNDI CATATG 1 cut(s) 1558
FblI GTMKAC 1 cut(s) 8
Fnu4HI GCNGC 3 cut(s) 867, 1377, 1414
FokI GGATG 3 cut(s) 1201, 1280, 1565
FriOI GRGCYC 1 cut(s) 28
Fsp4HI GCNGC 3 cut(s) 867, 1377, 1414
FspBI CTAG 8 cut(s) 228, 240, 524, 810, 989, 1002, 1170, 1256
GlaI GCGC 1 cut(s) 672
GluI GCNGC 3 cut(s) 867, 1377, 1414
GsaI CCCAGC 2 cut(s) 326, 363
GsuI CTGGAG 1 cut(s) 1584
HaeIII GGCC 1 cut(s) 904
HapII CCGG 1 cut(s) 1316
HhaI GCGC 1 cut(s) 673
Hin1II CATG 6 cut(s) 23, 409, 448, 935, 1207, 1246
Hin6I GCGC 1 cut(s) 671
HinP1I GCGC 1 cut(s) 671
HincII GTYRAC 3 cut(s) 1043, 1218, 1754
HindII GTYRAC 3 cut(s) 1043, 1218, 1754
HinfI GANTC 3 cut(s) 165, 206, 575
HpaII CCGG 1 cut(s) 1316
HphI GGTGA 3 cut(s) 72, 791, 832
Hpy166II GTNNAC 8 cut(s) 9, 593, 610, 1043, 1148, 1218, 1345, 1754
Hpy188I TCNGA 8 cut(s) 126, 181, 286, 306, 687, 1022, 1033, 1406
Hpy188III TCNNGA 4 cut(s) 228, 1075, 1316, 1664
Hpy8I GTNNAC 8 cut(s) 9, 593, 610, 1043, 1148, 1218, 1345, 1754
HpyAV CCTTC 3 cut(s) 321, 1072, 1129
HpyCH4III ACNGT 4 cut(s) 392, 466, 502, 1751
HpyF10VI GCNNNNNNNGC 5 cut(s) 370, 628, 863, 1248, 1616
HpyF3I CTNAG 4 cut(s) 418, 1197, 1441, 1662
Hsp92II CATG 6 cut(s) 23, 409, 448, 935, 1207, 1246
HspAI GCGC 1 cut(s) 671
Kpn2I TCCGGA 1 cut(s) 1315
Kzo9I GATC 2 cut(s) 1515, 1798
LguI GCTCTTC 1 cut(s) 1780
LmnI GCTCC 2 cut(s) 23, 319
Lsp1109I GCAGC 3 cut(s) 878, 1363, 1400
LweI GCATC 4 cut(s) 1179, 1543, 1606, 1761
MaeI CTAG 8 cut(s) 228, 240, 524, 810, 989, 1002, 1170, 1256
MaeIII GTNAC 1 cut(s) 1671
MalI GATC 2 cut(s) 1517, 1800
MbiI CCGCTC 1 cut(s) 942
MboI GATC 2 cut(s) 1515, 1798
MflI RGATCY 1 cut(s) 1515
MhlI GDGCHC 1 cut(s) 28
MlyI GAGTC 1 cut(s) 174
MmeI TCCRAC 2 cut(s) 1045, 1485
Mph1103I ATGCAT 3 cut(s) 375, 1558, 1633
MroI TCCGGA 1 cut(s) 1315
MroXI GAANNNNTTC 1 cut(s) 502
MseI TTAA 6 cut(s) 543, 909, 1287, 1488, 1623, 1652
MslI CAYNNNNRTG 2 cut(s) 1130, 1155
MspA1I CMGCKG 1 cut(s) 869
MspI CCGG 1 cut(s) 1316
Mva1269I GAATGC 1 cut(s) 1633
MwoI GCNNNNNNNGC 5 cut(s) 370, 628, 863, 1248, 1616
NdeI CATATG 1 cut(s) 1558
NdeII GATC 2 cut(s) 1515, 1798
NlaIII CATG 6 cut(s) 23, 409, 448, 935, 1207, 1246
NlaIV GGNNCC 2 cut(s) 804, 921
NsiI ATGCAT 3 cut(s) 375, 1558, 1633
NspI RCATGY 1 cut(s) 1246
NspV TTCGAA 1 cut(s) 1636
OliI CACNNNNGTG 1 cut(s) 1155
PaeI GCATGC 1 cut(s) 1246
PciSI GCTCTTC 1 cut(s) 1780
PctI GAATGC 1 cut(s) 1633
PdmI GAANNNNTTC 1 cut(s) 502
PfeI GAWTC 2 cut(s) 206, 575
PflFI GACNNNGTC 1 cut(s) 466
PkrI GCNGC 3 cut(s) 868, 1378, 1415
PleI GAGTC 1 cut(s) 173
PpsI GAGTC 1 cut(s) 173
PsiI TTATAA 3 cut(s) 315, 984, 1227
Psp124BI GAGCTC 1 cut(s) 28
PspFI CCCAGC 2 cut(s) 322, 359
PspN4I GGNNCC 2 cut(s) 804, 921
PspPI GGNCC 2 cut(s) 903, 1342
PsuI RGATCY 1 cut(s) 1515
PsyI GACNNNGTC 1 cut(s) 466
PvuII CAGCTG 1 cut(s) 869
RsaI GTAC 5 cut(s) 404, 611, 698, 1006, 1327
RsaNI GTAC 5 cut(s) 403, 610, 697, 1005, 1326
RseI CAYNNNNRTG 2 cut(s) 1130, 1155
SacI GAGCTC 1 cut(s) 28
SapI GCTCTTC 1 cut(s) 1780
SaqAI TTAA 6 cut(s) 543, 909, 1287, 1488, 1623, 1652
SatI GCNGC 3 cut(s) 867, 1377, 1414
Sau3AI GATC 2 cut(s) 1515, 1798
Sau96I GGNCC 2 cut(s) 903, 1342
ScaI AGTACT 1 cut(s) 1006
SchI GAGTC 1 cut(s) 174
SduI GDGCHC 1 cut(s) 28
SfaNI GCATC 4 cut(s) 1179, 1543, 1606, 1761
SfuI TTCGAA 1 cut(s) 1636
SinI GGWCC 1 cut(s) 1342
SmiMI CAYNNNNRTG 2 cut(s) 1130, 1155
SphI GCATGC 1 cut(s) 1246
SsiI CCGC 4 cut(s) 237, 818, 942, 1421
SspMI CTAG 8 cut(s) 228, 240, 524, 810, 989, 1002, 1170, 1256
SstI GAGCTC 1 cut(s) 28
TaaI ACNGT 4 cut(s) 392, 466, 502, 1751
TaqI TCGA 4 cut(s) 204, 496, 506, 1636
TatI WGTACW 4 cut(s) 402, 609, 1004, 1325
TfiI GAWTC 2 cut(s) 206, 575
Tru1I TTAA 6 cut(s) 543, 909, 1287, 1488, 1623, 1652
Tru9I TTAA 6 cut(s) 543, 909, 1287, 1488, 1623, 1652
TscAI CASTG 3 cut(s) 157, 1157, 1608
TseI GCWGC 3 cut(s) 866, 1376, 1413
TspDTI ATGAA 9 cut(s) 323, 461, 948, 1148, 1220, 1310, 1482, 1737, 1827
TspRI CASTG 3 cut(s) 157, 1157, 1608
Tth111I GACNNNGTC 1 cut(s) 466
VpaK11BI GGWCC 1 cut(s) 1342
XapI RAATTY 4 cut(s) 106, 581, 743, 1261
XbaI TCTAGA 1 cut(s) 227
XceI RCATGY 1 cut(s) 1246
XcmI CCANNNNNNNNNTGG 1 cut(s) 959
XmiI GTMKAC 1 cut(s) 8
XmnI GAANNNNTTC 1 cut(s) 502
XspI CTAG 8 cut(s) 228, 240, 524, 810, 989, 1002, 1170, 1256
ZrmI AGTACT 1 cut(s) 1006
Zsp2I ATGCAT 3 cut(s) 375, 1558, 1633
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.