Rh2DG076000

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr2D
OG0014633
Physical Location & Seq
Reverse (-)
5918740 .. 5920191
1452 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG076000.1

Sequence Viewer

Length: 1452 bp
ATGGCCTCTGTCACTTCGCTTCAGCCAACCAACTCCATAATCTCTTCTTCTCGATTCAAACCTCCAAACCCTAACCCTGATCATCTCTTCCTGAAAACCCAACATTCCTCCTCCTTCAACCCCACCCCATCAAAACCATTTCGCTCTTTCGCAGTCAACAATCCCAGCATCAATCGCCGCCGCTACGACCGCTCCTCCCAGCCGCAAACCACCAGGCCTCGCTCCAAACCCGTCTACAAGACCCAACCTTTACAAAAGGACAGCAACTACCCCAACCCAAATGAACCCACAAATGAGTCCGACGGTCAAAATGTGAGTGACCCATTACGAAAAGATGTGGACTTGATGGGTTTGTGCAAGGAGGGTAAGGTCGAAGAGGCCTTGGAGTATATGGGCCATGGCGTTTCTGCTGATTATGGTGTTTTCTGTATGTTAATGGAGTCCTGTGACGACTTGAAGGTTGGGAGAAAAATTGACCAGTACTTGAAGTTGGCTCCTTTTGGGGGAGATATCGAGTTGAATGTGAAATTGATCGAAATGTATGGGAGGTGTGGGAGTATGAGAGATGCACGCAAGGTGTTTGATAGAATGCCTGAGAGAAATTTGAGTTTGTGGCATTCGATGATCAATGGGTATGCTTTGAATGGGAAAGGGGGTGAGGGGGTGTTGTTGTTTGAGCAAATGAGGAGTTCAGGGTTGAAGCCGGACAAGGAGACTGTAAAGGTGGTTTTGGGGGCCTGTGCTAGTGCGGGAGCTGTGGAAGAAGGGCTAACATACTTTGAATCGATGAAGGATGAGTATGGGATTGTGCCGGAGATTGAGCATTATGTAGGGGTTATTGATGTTCTTGGGAAGTCTGGTCATTTGAATGAAGCTGAGGAGTTCATTGCGAAAATGCCATTTGAGCCTACCGCCGAAGTTTGGGAGGCTCTTAGGAACTTGGCGCGAATTCATGGAGATCTTGAGCTTGAAGATCGCGCTGAGGAATTGTTGGTTAGTGTTGATCCTTCTAAGGCCAATGCTGATAAAATCCCGTTGCCTCTGCGGAAGAAGTACTCAGAGATTAACATGCTAGAGGAGAGGAATATGGTGAGTGAGTATAGGTGTACAGACATATATGGAGAGTCATATGAGCAATCGAAAGGTTTGAGAGGACAGATGAGGGAAGCAGGATACGTGCCGGATACTAGATATGTGCTTCACGACATTGATCAGGAAGCCAAAGAGCAGGCTTTGCAGTATCACAGCGAGCGGTTGGCAATTGCTTATGGTCTGATCAGTACTCCTGCTAGGCAAACTCTAAGGATAATAAAGAACCTTCGAATCTGTGGTGACTGCCACAATGCAATAAAAATCATGTCAAAGATTGTAGGGAGGGAGCTGATTGTTAGGGATAACAAGCGATTCCATCATTTCAAGAATGGGAAATGCTCTTGTGGAGATTACTGGTAA

Protein Analysis

483

Amino Acids

54.64

Weight (kDa)

6.49

Isoelectric Point (pI)

45.82

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 203 - 248 1.6e-06 PPR repeat family
DYW_deaminase PF14432 391 - 483 2.7e-44 DYW family of nucleic acid deaminases
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Orthologous Genes (Group: OG0014633)

Species Orthologous Gene IDs
fragaria_vesca FvH4_1g07130
malus_domestica MD02G1075300.v1.1 MD02G1075700.v1.1 MD15G1204400.v1.1
prunus_persica Prupe.7G212800_v2.0.a1
pyrus_communis pycom02g05940 pycom15g18120
rosa_chinensis RchiOBHm_Chr2g0093011
rosa_laevigata RLG00000016359
rosa_multiflora Rmu_sc0000965.1_g000023
rosa_roxburghii Rroxscaffold_2G00148620
rosa_rugosa Rorug02G0031500
rosa_samantha Rh2AG077200 Rh2BG078600 Rh2CG080800 Rh2DG076000
rosa_wichuraiana Rw2G006900

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccBSI CCGCTC 2 cut(s) 192, 1252
AccI GTMKAC 1 cut(s) 234
AccII CGCG 2 cut(s) 946, 978
AciI CCGC 8 cut(s) 178, 181, 190, 203, 749, 912, 1045, 1252
AclWI GGATC 1 cut(s) 998
AcsI RAATTY 2 cut(s) 601, 948
AcuI CTGAAG 1 cut(s) 5
AfaI GTAC 4 cut(s) 482, 1055, 1108, 1282
AfiI CCNNNNNNNGG 2 cut(s) 503, 921
AjnI CCWGG 1 cut(s) 212
AluBI AGCT 4 cut(s) 755, 875, 967, 1381
AluI AGCT 4 cut(s) 755, 875, 967, 1381
Alw26I GTCTC 1 cut(s) 707
AlwI GGATC 1 cut(s) 998
AoxI GGCC 6 cut(s) 3, 215, 378, 394, 735, 1014
ApoI RAATTY 2 cut(s) 601, 948
AspLEI GCGC 2 cut(s) 946, 980
AspS9I GGNCC 2 cut(s) 394, 735
AsuHPI GGTGA 3 cut(s) 668, 1102, 1343
AsuII TTCGAA 1 cut(s) 1321
BbvCI CCTCAGC 2 cut(s) 876, 981
BccI CCATC 3 cut(s) 136, 340, 1416
BciT130I CCWGG 1 cut(s) 214
BciVI GTATCC 2 cut(s) 1166, 1177
BclI TGATCA 4 cut(s) 79, 624, 1210, 1275
BcoDI GTCTC 1 cut(s) 707
BfaI CTAG 4 cut(s) 744, 1073, 1188, 1290
BfuI GTATCC 2 cut(s) 1166, 1177
BglII AGATCT 1 cut(s) 958
BisI GCNGC 3 cut(s) 178, 181, 203
BlsI GCNGC 3 cut(s) 179, 182, 204
BmcAI AGTACT 3 cut(s) 482, 1055, 1282
Bme1390I CCNGG 1 cut(s) 214
BmgT120I GGNCC 2 cut(s) 394, 735
BmiI GGNNCC 2 cut(s) 495, 736
BmrFI CCNGG 1 cut(s) 214
BmsI GCATC 2 cut(s) 177, 556
Bpu10I CCTNAGC 2 cut(s) 876, 981
Bpu14I TTCGAA 1 cut(s) 1321
BpuEI CTTGAG 1 cut(s) 983
Bsa29I ATCGAT 1 cut(s) 785
BsaAI YACGTR 1 cut(s) 1177
BsaJI CCNNGG 2 cut(s) 381, 397
BsaXI ACNNNNNCTCC 4 cut(s) 176, 179, 206, 209
Bsc4I CCNNNNNNNGG 2 cut(s) 503, 921
Bse1I ACTGG 2 cut(s) 478, 1451
Bse3DI GCAATG 1 cut(s) 885
BseBI CCWGG 1 cut(s) 214
BseCI ATCGAT 1 cut(s) 785
BseDI CCNNGG 2 cut(s) 381, 397
BseGI GGATG 1 cut(s) 799
BseLI CCNNNNNNNGG 2 cut(s) 503, 921
BseMI GCAATG 1 cut(s) 885
BseMII CTCAG 4 cut(s) 585, 867, 972, 1071
BseNI ACTGG 2 cut(s) 478, 1451
BseRI GAGGAG 5 cut(s) 100, 184, 700, 893, 1091
BseYI CCCAGC 2 cut(s) 164, 198
Bsh1236I CGCG 2 cut(s) 946, 978
Bsh1285I CGRYCG 1 cut(s) 190
BshFI GGCC 6 cut(s) 5, 217, 380, 396, 737, 1016
BshVI ATCGAT 1 cut(s) 785
BsiEI CGRYCG 1 cut(s) 190
BsiSI CCGG 3 cut(s) 704, 812, 1181
BslI CCNNNNNNNGG 2 cut(s) 503, 921
BsmAI GTCTC 1 cut(s) 707
BsmI GAATGC 2 cut(s) 594, 616
BsnI GGCC 6 cut(s) 5, 217, 380, 396, 737, 1016
Bsp119I TTCGAA 1 cut(s) 1321
Bsp1407I TGTACA 1 cut(s) 1106
Bsp143I GATC 8 cut(s) 79, 531, 624, 958, 973, 1003, 1210, 1275
Bsp19I CCATGG 1 cut(s) 397
BspACI CCGC 8 cut(s) 178, 181, 190, 203, 749, 912, 1045, 1252
BspANI GGCC 6 cut(s) 5, 217, 380, 396, 737, 1016
BspCNI CTCAG 4 cut(s) 586, 868, 973, 1070
BspDI ATCGAT 1 cut(s) 785
BspFNI CGCG 2 cut(s) 946, 978
BspLI GGNNCC 2 cut(s) 495, 736
BspPI GGATC 1 cut(s) 998
BspT104I TTCGAA 1 cut(s) 1321
BsrBI CCGCTC 2 cut(s) 192, 1252
BsrDI GCAATG 1 cut(s) 885
BsrGI TGTACA 1 cut(s) 1106
BsrI ACTGG 2 cut(s) 478, 1451
BssECI CCNNGG 2 cut(s) 381, 397
BssMI GATC 8 cut(s) 79, 531, 624, 958, 973, 1003, 1210, 1275
BssT1I CCWWGG 2 cut(s) 381, 397
Bst2UI CCWGG 1 cut(s) 214
Bst4CI ACNGT 2 cut(s) 305, 718
Bst6I CTCTTC 3 cut(s) 49, 92, 369
BstAPI GCANNNNNTGC 1 cut(s) 1234
BstAUI TGTACA 1 cut(s) 1106
BstBAI YACGTR 1 cut(s) 1177
BstBI TTCGAA 1 cut(s) 1321
BstC8I GCNNGC 3 cut(s) 571, 1230, 1250
BstDEI CTNAG 7 cut(s) 594, 876, 932, 981, 1011, 1057, 1301
BstDSI CCRYGG 1 cut(s) 397
BstF5I GGATG 1 cut(s) 799
BstFNI CGCG 2 cut(s) 946, 978
BstHHI GCGC 2 cut(s) 946, 980
BstKTI GATC 8 cut(s) 82, 534, 627, 961, 976, 1006, 1213, 1278
BstMAI GTCTC 1 cut(s) 707
BstMBI GATC 8 cut(s) 79, 531, 624, 958, 973, 1003, 1210, 1275
BstMCI CGRYCG 1 cut(s) 190
BstMWI GCNNNNNNNGC 4 cut(s) 174, 189, 904, 1234
BstNI CCWGG 1 cut(s) 214
BstNSI RCATGY 1 cut(s) 1072
BstSCI CCNGG 1 cut(s) 212
BstUI CGCG 2 cut(s) 946, 978
BstX2I RGATCY 1 cut(s) 958
BstYI RGATCY 1 cut(s) 958
Bsu15I ATCGAT 1 cut(s) 785
BsuI GTATCC 2 cut(s) 1166, 1177
BsuRI GGCC 6 cut(s) 5, 217, 380, 396, 737, 1016
BsuTUI ATCGAT 1 cut(s) 785
BtgI CCRYGG 1 cut(s) 397
BtsCI GGATG 1 cut(s) 799
Cac8I GCNNGC 3 cut(s) 571, 1230, 1250
CfoI GCGC 2 cut(s) 946, 980
Cfr13I GGNCC 2 cut(s) 394, 735
ClaI ATCGAT 1 cut(s) 785
Csp6I GTAC 4 cut(s) 481, 1054, 1107, 1281
CviAII CATG 4 cut(s) 398, 953, 1069, 1357
CviQI GTAC 4 cut(s) 481, 1054, 1107, 1281
DdeI CTNAG 7 cut(s) 594, 876, 932, 981, 1011, 1057, 1301
DpnI GATC 8 cut(s) 81, 533, 626, 960, 975, 1005, 1212, 1277
DpnII GATC 8 cut(s) 79, 531, 624, 958, 973, 1003, 1210, 1275
Eam1104I CTCTTC 3 cut(s) 49, 92, 369
EarI CTCTTC 3 cut(s) 49, 92, 369
Eco130I CCWWGG 2 cut(s) 381, 397
Eco147I AGGCCT 2 cut(s) 217, 380
Eco32I GATATC 1 cut(s) 511
Eco57I CTGAAG 1 cut(s) 5
EcoO109I RGGNCCY 1 cut(s) 735
EcoRI GAATTC 1 cut(s) 948
EcoRII CCWGG 1 cut(s) 212
EcoRV GATATC 1 cut(s) 511
EcoT14I CCWWGG 2 cut(s) 381, 397
ErhI CCWWGG 2 cut(s) 381, 397
FaeI CATG 4 cut(s) 401, 956, 1072, 1360
FatI CATG 4 cut(s) 397, 952, 1068, 1356
FauI CCCGC 1 cut(s) 742
FauNDI CATATG 1 cut(s) 1129
FbaI TGATCA 4 cut(s) 79, 624, 1210, 1275
FblI GTMKAC 1 cut(s) 234
Fnu4HI GCNGC 3 cut(s) 178, 181, 203
FokI GGATG 1 cut(s) 806
Fsp4HI GCNGC 3 cut(s) 178, 181, 203
FspBI CTAG 4 cut(s) 744, 1073, 1188, 1290
GlaI GCGC 2 cut(s) 945, 979
GluI GCNGC 3 cut(s) 178, 181, 203
GsaI CCCAGC 2 cut(s) 168, 202
HaeIII GGCC 6 cut(s) 5, 217, 380, 396, 737, 1016
HapII CCGG 3 cut(s) 704, 812, 1181
HhaI GCGC 2 cut(s) 946, 980
Hin1II CATG 4 cut(s) 401, 956, 1072, 1360
Hin6I GCGC 2 cut(s) 944, 978
HinP1I GCGC 2 cut(s) 944, 978
HincII GTYRAC 1 cut(s) 157
HindII GTYRAC 1 cut(s) 157
HinfI GANTC 7 cut(s) 54, 296, 440, 782, 1124, 1323, 1404
HpaII CCGG 3 cut(s) 704, 812, 1181
HphI GGTGA 3 cut(s) 668, 1102, 1343
Hpy166II GTNNAC 4 cut(s) 157, 235, 340, 1107
Hpy188I TCNGA 3 cut(s) 301, 1060, 1275
Hpy188III TCNNGA 6 cut(s) 51, 91, 962, 1202, 1214, 1417
Hpy8I GTNNAC 4 cut(s) 157, 235, 340, 1107
Hpy99I CGWCG 1 cut(s) 305
HpyAV CCTTC 6 cut(s) 124, 451, 758, 784, 1017, 1328
HpyCH4III ACNGT 2 cut(s) 305, 718
HpyCH4IV ACGT 1 cut(s) 1176
HpyCH4V TGCA 4 cut(s) 357, 569, 1237, 1346
HpyF10VI GCNNNNNNNGC 4 cut(s) 174, 189, 904, 1234
HpyF3I CTNAG 7 cut(s) 594, 876, 932, 981, 1011, 1057, 1301
HpySE526I ACGT 1 cut(s) 1176
Hsp92II CATG 4 cut(s) 401, 956, 1072, 1360
HspAI GCGC 2 cut(s) 944, 978
Ksp22I TGATCA 4 cut(s) 79, 624, 1210, 1275
Kzo9I GATC 8 cut(s) 79, 531, 624, 958, 973, 1003, 1210, 1275
LmnI GCTCC 5 cut(s) 197, 227, 499, 752, 1378
LweI GCATC 2 cut(s) 177, 556
MaeI CTAG 4 cut(s) 744, 1073, 1188, 1290
MaeII ACGT 1 cut(s) 1176
MaeIII GTNAC 4 cut(s) 10, 317, 446, 1331
MalI GATC 8 cut(s) 81, 533, 626, 960, 975, 1005, 1212, 1277
MbiI CCGCTC 2 cut(s) 192, 1252
MboI GATC 8 cut(s) 79, 531, 624, 958, 973, 1003, 1210, 1275
MboII GAAGA 7 cut(s) 36, 39, 79, 386, 773, 983, 1060
MfeI CAATTG 1 cut(s) 1260
MflI RGATCY 1 cut(s) 958
MluCI AATT 6 cut(s) 471, 527, 601, 948, 986, 1260
MlyI GAGTC 3 cut(s) 305, 449, 1133
MmeI TCCRAC 1 cut(s) 324
MseI TTAA 2 cut(s) 434, 1065
MslI CAYNNNNRTG 1 cut(s) 867
MspI CCGG 3 cut(s) 704, 812, 1181
MspR9I CCNGG 1 cut(s) 214
MunI CAATTG 1 cut(s) 1260
Mva1269I GAATGC 2 cut(s) 594, 616
MvaI CCWGG 1 cut(s) 214
MvnI CGCG 2 cut(s) 946, 978
MwoI GCNNNNNNNGC 4 cut(s) 174, 189, 904, 1234
NcoI CCATGG 1 cut(s) 397
NdeI CATATG 1 cut(s) 1129
NdeII GATC 8 cut(s) 79, 531, 624, 958, 973, 1003, 1210, 1275
NlaIII CATG 4 cut(s) 401, 956, 1072, 1360
NlaIV GGNNCC 2 cut(s) 495, 736
NmuCI GTSAC 4 cut(s) 10, 317, 446, 1331
NspI RCATGY 1 cut(s) 1072
NspV TTCGAA 1 cut(s) 1321
PceI AGGCCT 2 cut(s) 217, 380
PctI GAATGC 2 cut(s) 594, 616
PfeI GAWTC 4 cut(s) 54, 782, 1323, 1404
PkrI GCNGC 3 cut(s) 179, 182, 204
PleI GAGTC 3 cut(s) 304, 448, 1132
PpsI GAGTC 3 cut(s) 304, 448, 1132
Ppu21I YACGTR 1 cut(s) 1177
Psp6I CCWGG 1 cut(s) 212
PspFI CCCAGC 2 cut(s) 164, 198
PspGI CCWGG 1 cut(s) 212
PspN4I GGNNCC 2 cut(s) 495, 736
PspPI GGNCC 2 cut(s) 394, 735
PsuI RGATCY 1 cut(s) 958
RsaI GTAC 4 cut(s) 482, 1055, 1108, 1282
RsaNI GTAC 4 cut(s) 481, 1054, 1107, 1281
RseI CAYNNNNRTG 1 cut(s) 867
SaqAI TTAA 2 cut(s) 434, 1065
SatI GCNGC 3 cut(s) 178, 181, 203
Sau3AI GATC 8 cut(s) 79, 531, 624, 958, 973, 1003, 1210, 1275
Sau96I GGNCC 2 cut(s) 394, 735
ScaI AGTACT 3 cut(s) 482, 1055, 1282
SchI GAGTC 3 cut(s) 305, 449, 1133
ScrFI CCNGG 1 cut(s) 214
SfaNI GCATC 2 cut(s) 177, 556
SfuI TTCGAA 1 cut(s) 1321
SmiMI CAYNNNNRTG 1 cut(s) 867
SmlI CTYRAG 1 cut(s) 962
SmoI CTYRAG 1 cut(s) 962
Sse9I AATT 6 cut(s) 471, 527, 601, 948, 986, 1260
SseBI AGGCCT 2 cut(s) 217, 380
SsiI CCGC 8 cut(s) 178, 181, 190, 203, 749, 912, 1045, 1252
SspMI CTAG 4 cut(s) 744, 1073, 1188, 1290
StuI AGGCCT 2 cut(s) 217, 380
StyD4I CCNGG 1 cut(s) 212
StyI CCWWGG 2 cut(s) 381, 397
TaaI ACNGT 2 cut(s) 305, 718
TaiI ACGT 1 cut(s) 1179
TaqI TCGA 8 cut(s) 52, 372, 513, 534, 620, 785, 1139, 1321
TasI AATT 6 cut(s) 471, 527, 601, 948, 986, 1260
TatI WGTACW 4 cut(s) 480, 1053, 1106, 1280
TauI GCSGC 3 cut(s) 180, 183, 205
TfiI GAWTC 4 cut(s) 54, 782, 1323, 1404
Tru1I TTAA 2 cut(s) 434, 1065
Tru9I TTAA 2 cut(s) 434, 1065
TseFI GTSAC 4 cut(s) 10, 317, 446, 1331
Tsp45I GTSAC 4 cut(s) 10, 317, 446, 1331
TspDTI ATGAA 5 cut(s) 297, 803, 874, 885, 941
XapI RAATTY 2 cut(s) 601, 948
XceI RCATGY 1 cut(s) 1072
XmiI GTMKAC 1 cut(s) 234
XspI CTAG 4 cut(s) 744, 1073, 1188, 1290
ZrmI AGTACT 3 cut(s) 482, 1055, 1282
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.