Rroxscaffold_5G00381830

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0016044
Physical Location & Seq
Forward (+)
61676547 .. 61678161
1615 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00381830.1

Sequence Viewer

Length: 1509 bp
ATGGGTCTCTCTAGATTTTTCAAGCTTTTACCAAAACCATCCAAAAATCCCTTCTTTCTTTTCCCAAATCCTCAAACTGGTTCTCCCAGATCAGTGAGATCACTCACAAACCTTACTAGTAGTCCAAAACCCTATGTTGAACACCCATCTGGGCTCGTACGCAATCCCAATCCTGGTATTTACAGAGCAATCCATGGCACTCTATACAAAACCCAAGTGCTTGATGAGGCCAAGACCCACGATATCACCCAAGAGGCTGAGAAAATCAGCAAAATTCTATCCACAGCCAACTCCAATCCTCGCATTGAGAGCTTGCTCGACGGCGCTTCAGTCAAGGTGTCACCAACGCTTGTCGTTGAGGTCTTGAAGAAGCTCAACAACGCCGGAGCTCTCGCGCTCTCGTTTTTCCGGTGGGCCGAAAAGCAAAAGGGGTTTAAGCATTGCAGAGAGAGCTACAATGCTCTGATTGAAGCTCTGGGTAAGATCAAACAGTTCAAGATAATATGGGAATTAGTGAATGACATGAACAACAAAGGCCTGCTCAGCAAAGAGACTTTCGCTTTGATTTCGAGGCGGTATGCAAGGGCGAGGAAGGTTTCAGAGGCCATTAAAGCTTTTGAGAAGATGGAGAAGTTTGGGATCAAGTTAGAAGGGTCGGATTTCAATAGACTGATTGATACTCTGAGCAAGTCGAGGCAGGTTGAGAAAGCACAGGAGGTGTTCGATGAAATGAAGCACAGAAGGTTCAAACCTGATATTAAGTCGTACACTATTTTGCTGGAAGGATGGGGTCAGCAACAGAATTTTTTGAGGTTGGATGAGGTTTATAGAGAAATGAAGGCTGAAGGATTCGATCCAGATGTTGTGACTTATGGTATTTTGATCAATGCACATTGTTCAGAGAAGAGGTTGGCTGAAGCTCTTGAGTTTGTCGAACGATATAAAGCCAGTGGTCTAGAACCGGAGGCACCTACTTATAATGCTGTTGTTGGAGCTTACTGCTGGTCTATGCGGATGCCTGATGCGTTTGGGGTGGTGGATGAGATGAGAAAATGTGGGATTGGTCCTAATTCTCGAACCTATGATATAATCTTGCATCACTTGGTAAAGCATCGAAGAACTGAACAAGCTTACTCGGTATTCCAGAAAATCAGTAGCGAGCCTGGCTGCGAACCAACTGTAAGTACATATGAAATCCTAGTGAGGATGTTTTGCAACGAGAATCGAGTGGATATGGCATTACGGGTTTGGGATGAGATGAAGACTAAAGGCGTCCTGCCAGGAATGCACATGTTCTCCACATTGATCAACAGCTTGTGCCATGAGAACAAGTTAGATGACGCGTGCAGGTACTTTCAGGAGATGCTAGACGTGGGTGTTCGGCCTCCAACACAGTTGTTTAGTAACCTAAAGCAAGCCCTTCTTGATGATGGGAGAAAGGATGCTGTTGTAAGTTTCGGTTTGAAGATTGACAAACTGAGAAAAACCCCATTAGTTGGGTTGCGCTAA

Protein Analysis

502

Amino Acids

57.25

Weight (kDa)

9.3

Isoelectric Point (pI)

32.53

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 194 - 329 8.8e-11 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 206 - 264 5.1e-08 Pentatricopeptide repeat domain
PPR_2 PF13041 221 - 262 2.3e-11 PPR repeat family
PPR_2 PF13041 274 - 299 7.8e-07 PPR repeat family
PPR_3 PF13812 275 - 333 4.7e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 283 - 312 7.7e-09 PPR repeat
PPR_2 PF13041 287 - 334 3.6e-08 PPR repeat family
PPR_2 PF13041 324 - 370 9.2e-11 PPR repeat family
PPR_3 PF13812 345 - 406 1.7e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 360 - 406 2.3e-08 PPR repeat family
PPR_long PF17177 378 - 485 4.7e-06 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 389 - 421 1.1e-09 PPR repeat
PPR_2 PF13041 403 - 441 1.2e-08 PPR repeat family
PPR_1 PF12854 423 - 455 5.6e-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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Orthologous Genes (Group: OG0016044)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G71060
fragaria_vesca FvH4_4g32230
malus_domestica MD13G1027000.v1.1 MD16G1030100.v1.1
prunus_persica Prupe.1G322900_v2.0.a1
pyrus_communis pycom13g02570
rosa_chinensis RchiOBHm_Chr4g0440971
rosa_laevigata RLG00000006135
rosa_multiflora Rmu_sc0000424.1_g000028
rosa_roxburghii Rroxscaffold_5G00381830
rosa_rugosa Rorug04G0329800
rosa_samantha Rh4BG394900 Rh4CG409800 Rh4DG388100
rosa_wichuraiana Rw4G032870

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 978
Acc36I ACCTGC 2 cut(s) 688, 1338
AccB1I GGYRCC 1 cut(s) 967
AccB7I CCANNNNNTGG 1 cut(s) 1496
AccII CGCG 2 cut(s) 395, 1343
AciI CCGC 2 cut(s) 574, 1012
AclWI GGATC 2 cut(s) 647, 848
AcsI RAATTY 2 cut(s) 273, 802
AcuI CTGAAG 3 cut(s) 312, 864, 936
AcyI GRCGYC 1 cut(s) 1272
AfaI GTAC 4 cut(s) 159, 767, 1186, 1352
AfiI CCNNNNNNNGG 3 cut(s) 77, 173, 1496
AflIII ACRYGT 2 cut(s) 1290, 1341
AgsI TTSAA 8 cut(s) 22, 140, 367, 470, 496, 664, 748, 1465
AhlI ACTAGT 1 cut(s) 116
AjiI CACGTC 1 cut(s) 1372
AjnI CCWGG 3 cut(s) 172, 1162, 1279
AjuI GAANNNNNNNTTGG 2 cut(s) 35, 67
Alw21I GWGCWC 1 cut(s) 391
Alw26I GTCTC 2 cut(s) 11, 545
AlwI GGATC 2 cut(s) 647, 848
AoxI GGCC 5 cut(s) 228, 414, 535, 603, 1382
ApeKI GCWGC 1 cut(s) 1167
ApoI RAATTY 2 cut(s) 273, 802
ArsI GACNNNNNNTTYG 2 cut(s) 544, 576
AspLEI GCGC 3 cut(s) 326, 397, 1506
AspS9I GGNCC 2 cut(s) 414, 1064
AsuHPI GGTGA 2 cut(s) 238, 333
AvaII GGWCC 1 cut(s) 1064
BanI GGYRCC 1 cut(s) 967
BanII GRGCYC 2 cut(s) 156, 391
BbsI GAAGAC 1 cut(s) 1268
Bbv12I GWGCWC 1 cut(s) 391
BbvI GCAGC 1 cut(s) 1154
BccI CCATC 5 cut(s) 46, 154, 619, 780, 1424
BceAI ACGGC 1 cut(s) 337
BciT130I CCWGG 3 cut(s) 174, 1164, 1281
BclI TGATCA 2 cut(s) 882, 1305
BcoDI GTCTC 2 cut(s) 11, 545
BcuI ACTAGT 1 cut(s) 116
BfaI CTAG 5 cut(s) 12, 117, 956, 1199, 1367
BfoI RGCGCY 1 cut(s) 327
BfuAI ACCTGC 2 cut(s) 688, 1338
BisI GCNGC 1 cut(s) 1168
BlpI GCTNAGC 1 cut(s) 542
BlsI GCNGC 1 cut(s) 1169
Bme1390I CCNGG 3 cut(s) 174, 1164, 1281
Bme18I GGWCC 1 cut(s) 1064
BmgBI CACGTC 1 cut(s) 1372
BmgT120I GGNCC 2 cut(s) 414, 1064
BmiI GGNNCC 1 cut(s) 969
BmrFI CCNGG 3 cut(s) 174, 1164, 1281
BmsI GCATC 6 cut(s) 1005, 1012, 1105, 1120, 1353, 1432
BpiI GAAGAC 1 cut(s) 1268
Bpu1102I GCTNAGC 1 cut(s) 542
BpuEI CTTGAG 1 cut(s) 944
BsaHI GRCGYC 1 cut(s) 1272
BsaI GGTCTC 1 cut(s) 11
BsaJI CCNNGG 1 cut(s) 193
BsaWI WCCGGW 2 cut(s) 408, 961
BsaXI ACNNNNNCTCC 4 cut(s) 67, 97, 1280, 1310
Bsc4I CCNNNNNNNGG 3 cut(s) 77, 173, 1496
Bse1I ACTGG 2 cut(s) 82, 948
Bse3DI GCAATG 1 cut(s) 439
BseBI CCWGG 3 cut(s) 174, 1164, 1281
BseDI CCNNGG 1 cut(s) 193
BseGI GGATG 8 cut(s) 38, 791, 823, 1020, 1045, 1212, 1258, 1447
BseLI CCNNNNNNNGG 3 cut(s) 77, 173, 1496
BseMI GCAATG 1 cut(s) 439
BseMII CTCAG 4 cut(s) 249, 556, 674, 1469
BseNI ACTGG 2 cut(s) 82, 948
BseXI GCAGC 1 cut(s) 1154
BsgI GTGCAG 1 cut(s) 1366
Bsh1236I CGCG 2 cut(s) 395, 1343
BshFI GGCC 5 cut(s) 230, 416, 537, 605, 1384
BshNI GGYRCC 1 cut(s) 967
BsiHKAI GWGCWC 1 cut(s) 391
BsiSI CCGG 3 cut(s) 384, 409, 962
BsiWI CGTACG 1 cut(s) 157
BslI CCNNNNNNNGG 3 cut(s) 77, 173, 1496
BsmAI GTCTC 2 cut(s) 11, 545
BsmI GAATGC 1 cut(s) 1290
BsnI GGCC 5 cut(s) 230, 416, 537, 605, 1384
Bso31I GGTCTC 1 cut(s) 11
Bsp1286I GDGCHC 2 cut(s) 156, 391
Bsp143I GATC 7 cut(s) 89, 98, 483, 639, 853, 882, 1305
Bsp1720I GCTNAGC 1 cut(s) 542
Bsp19I CCATGG 1 cut(s) 193
BspACI CCGC 2 cut(s) 574, 1012
BspANI GGCC 5 cut(s) 230, 416, 537, 605, 1384
BspCNI CTCAG 4 cut(s) 250, 555, 675, 1470
BspFNI CGCG 2 cut(s) 395, 1343
BspLI GGNNCC 1 cut(s) 969
BspMI ACCTGC 2 cut(s) 688, 1338
BspPI GGATC 2 cut(s) 647, 848
BspT107I GGYRCC 1 cut(s) 967
BspTNI GGTCTC 1 cut(s) 11
BsrDI GCAATG 1 cut(s) 439
BsrI ACTGG 2 cut(s) 82, 948
BssECI CCNNGG 1 cut(s) 193
BssMI GATC 7 cut(s) 89, 98, 483, 639, 853, 882, 1305
BssNI GRCGYC 1 cut(s) 1272
BssT1I CCWWGG 1 cut(s) 193
Bst2UI CCWGG 3 cut(s) 174, 1164, 1281
Bst4CI ACNGT 3 cut(s) 492, 1180, 1395
Bst6I CTCTTC 1 cut(s) 899
BstACI GRCGYC 1 cut(s) 1272
BstC8I GCNNGC 5 cut(s) 314, 539, 1160, 1345, 1416
BstDEI CTNAG 4 cut(s) 258, 542, 683, 1478
BstDSI CCRYGG 1 cut(s) 193
BstF5I GGATG 8 cut(s) 38, 791, 823, 1020, 1045, 1212, 1258, 1447
BstFNI CGCG 2 cut(s) 395, 1343
BstH2I RGCGCY 1 cut(s) 327
BstHHI GCGC 3 cut(s) 326, 397, 1506
BstKTI GATC 7 cut(s) 92, 101, 486, 642, 856, 885, 1308
BstMAI GTCTC 2 cut(s) 11, 545
BstMBI GATC 7 cut(s) 89, 98, 483, 639, 853, 882, 1305
BstMWI GCNNNNNNNGC 6 cut(s) 309, 450, 543, 611, 1164, 1285
BstNI CCWGG 3 cut(s) 174, 1164, 1281
BstNSI RCATGY 1 cut(s) 1294
BstSCI CCNGG 3 cut(s) 172, 1162, 1279
BstUI CGCG 2 cut(s) 395, 1343
BstV1I GCAGC 1 cut(s) 1154
BstV2I GAAGAC 1 cut(s) 1268
BsuRI GGCC 5 cut(s) 230, 416, 537, 605, 1384
BtgI CCRYGG 1 cut(s) 193
BtrI CACGTC 1 cut(s) 1372
BtsCI GGATG 8 cut(s) 38, 791, 823, 1020, 1045, 1212, 1258, 1447
BtsIMutI CAGTG 2 cut(s) 99, 955
BveI ACCTGC 2 cut(s) 688, 1338
Cac8I GCNNGC 5 cut(s) 314, 539, 1160, 1345, 1416
CfoI GCGC 3 cut(s) 326, 397, 1506
Cfr13I GGNCC 2 cut(s) 414, 1064
CseI GACGC 2 cut(s) 1261, 1349
Csp6I GTAC 4 cut(s) 158, 766, 1185, 1351
CviAII CATG 4 cut(s) 194, 523, 1291, 1322
CviQI GTAC 4 cut(s) 158, 766, 1185, 1351
DdeI CTNAG 4 cut(s) 258, 542, 683, 1478
DpnI GATC 7 cut(s) 91, 100, 485, 641, 855, 884, 1307
DpnII GATC 7 cut(s) 89, 98, 483, 639, 853, 882, 1305
Eam1104I CTCTTC 1 cut(s) 899
EarI CTCTTC 1 cut(s) 899
Ecl136II GAGCTC 1 cut(s) 389
Eco130I CCWWGG 1 cut(s) 193
Eco147I AGGCCT 1 cut(s) 537
Eco24I GRGCYC 2 cut(s) 156, 391
Eco31I GGTCTC 1 cut(s) 11
Eco32I GATATC 1 cut(s) 244
Eco47I GGWCC 1 cut(s) 1064
Eco53kI GAGCTC 1 cut(s) 389
Eco57I CTGAAG 3 cut(s) 312, 864, 936
EcoICRI GAGCTC 1 cut(s) 389
EcoRII CCWGG 3 cut(s) 172, 1162, 1279
EcoRV GATATC 1 cut(s) 244
EcoT14I CCWWGG 1 cut(s) 193
EcoT38I GRGCYC 2 cut(s) 156, 391
ErhI CCWWGG 1 cut(s) 193
FaeI CATG 4 cut(s) 197, 526, 1294, 1325
FalI AAGNNNNNCTT 2 cut(s) 1407, 1439
FatI CATG 4 cut(s) 193, 522, 1290, 1321
FauNDI CATATG 1 cut(s) 1189
FbaI TGATCA 2 cut(s) 882, 1305
Fnu4HI GCNGC 1 cut(s) 1168
FokI GGATG 8 cut(s) 25, 798, 830, 1027, 1052, 1219, 1265, 1454
FriOI GRGCYC 2 cut(s) 156, 391
Fsp4HI GCNGC 1 cut(s) 1168
FspBI CTAG 5 cut(s) 12, 117, 956, 1199, 1367
GlaI GCGC 3 cut(s) 325, 396, 1505
GluI GCNGC 1 cut(s) 1168
HaeII RGCGCY 1 cut(s) 327
HaeIII GGCC 5 cut(s) 230, 416, 537, 605, 1384
HapII CCGG 3 cut(s) 384, 409, 962
HgaI GACGC 2 cut(s) 1261, 1349
HhaI GCGC 3 cut(s) 326, 397, 1506
Hin1I GRCGYC 1 cut(s) 1272
Hin1II CATG 4 cut(s) 197, 526, 1294, 1325
Hin6I GCGC 3 cut(s) 324, 395, 1504
HinP1I GCGC 3 cut(s) 324, 395, 1504
HindIII AAGCTT 3 cut(s) 23, 612, 1128
HinfI GANTC 2 cut(s) 849, 1222
HpaII CCGG 3 cut(s) 384, 409, 962
HphI GGTGA 2 cut(s) 238, 333
Hpy166II GTNNAC 1 cut(s) 768
Hpy188I TCNGA 5 cut(s) 465, 601, 658, 684, 901
Hpy8I GTNNAC 1 cut(s) 768
Hpy99I CGWCG 1 cut(s) 323
HpyAV CCTTC 8 cut(s) 61, 586, 644, 735, 776, 832, 839, 1430
HpyCH4III ACNGT 3 cut(s) 492, 1180, 1395
HpyCH4IV ACGT 1 cut(s) 1371
HpyCH4V TGCA 7 cut(s) 444, 581, 890, 1096, 1215, 1288, 1347
HpyF10VI GCNNNNNNNGC 6 cut(s) 309, 450, 543, 611, 1164, 1285
HpyF3I CTNAG 4 cut(s) 258, 542, 683, 1478
HpySE526I ACGT 1 cut(s) 1371
Hsp92I GRCGYC 1 cut(s) 1272
Hsp92II CATG 4 cut(s) 197, 526, 1294, 1325
HspAI GCGC 3 cut(s) 324, 395, 1504
Ksp22I TGATCA 2 cut(s) 882, 1305
Kzo9I GATC 7 cut(s) 89, 98, 483, 639, 853, 882, 1305
LmnI GCTCC 2 cut(s) 386, 992
Lsp1109I GCAGC 1 cut(s) 1154
LweI GCATC 6 cut(s) 1005, 1012, 1105, 1120, 1353, 1432
MaeI CTAG 5 cut(s) 12, 117, 956, 1199, 1367
MaeII ACGT 1 cut(s) 1371
MaeIII GTNAC 3 cut(s) 339, 865, 1403
MalI GATC 7 cut(s) 91, 100, 485, 641, 855, 884, 1307
MboI GATC 7 cut(s) 89, 98, 483, 639, 853, 882, 1305
MboII GAAGA 6 cut(s) 379, 634, 916, 1128, 1273, 1477
MhlI GDGCHC 2 cut(s) 156, 391
MluCI AATT 4 cut(s) 273, 509, 802, 1069
MluI ACGCGT 1 cut(s) 1341
MmeI TCCRAC 4 cut(s) 636, 795, 970, 1412
MseI TTAA 3 cut(s) 435, 609, 759
MspI CCGG 3 cut(s) 384, 409, 962
MspR9I CCNGG 3 cut(s) 174, 1164, 1281
Mva1269I GAATGC 1 cut(s) 1290
MvaI CCWGG 3 cut(s) 174, 1164, 1281
MvnI CGCG 2 cut(s) 395, 1343
MwoI GCNNNNNNNGC 6 cut(s) 309, 450, 543, 611, 1164, 1285
NcoI CCATGG 1 cut(s) 193
NdeI CATATG 1 cut(s) 1189
NdeII GATC 7 cut(s) 89, 98, 483, 639, 853, 882, 1305
NlaIII CATG 4 cut(s) 197, 526, 1294, 1325
NlaIV GGNNCC 1 cut(s) 969
NmuCI GTSAC 2 cut(s) 339, 865
NspI RCATGY 1 cut(s) 1294
PceI AGGCCT 1 cut(s) 537
PciI ACATGT 1 cut(s) 1290
PctI GAATGC 1 cut(s) 1290
PfeI GAWTC 2 cut(s) 849, 1222
Pfl23II CGTACG 1 cut(s) 157
PflMI CCANNNNNTGG 1 cut(s) 1496
PkrI GCNGC 1 cut(s) 1169
PscI ACATGT 1 cut(s) 1290
PsiI TTATAA 1 cut(s) 978
Psp124BI GAGCTC 1 cut(s) 391
Psp6I CCWGG 3 cut(s) 172, 1162, 1279
PspGI CCWGG 3 cut(s) 172, 1162, 1279
PspLI CGTACG 1 cut(s) 157
PspN4I GGNNCC 1 cut(s) 969
PspPI GGNCC 2 cut(s) 414, 1064
RsaI GTAC 4 cut(s) 159, 767, 1186, 1352
RsaNI GTAC 4 cut(s) 158, 766, 1185, 1351
SacI GAGCTC 1 cut(s) 391
SaqAI TTAA 3 cut(s) 435, 609, 759
SatI GCNGC 1 cut(s) 1168
Sau3AI GATC 7 cut(s) 89, 98, 483, 639, 853, 882, 1305
Sau96I GGNCC 2 cut(s) 414, 1064
ScrFI CCNGG 3 cut(s) 174, 1164, 1281
SduI GDGCHC 2 cut(s) 156, 391
SfaNI GCATC 6 cut(s) 1005, 1012, 1105, 1120, 1353, 1432
SinI GGWCC 1 cut(s) 1064
SmlI CTYRAG 1 cut(s) 923
SmoI CTYRAG 1 cut(s) 923
SpeI ACTAGT 1 cut(s) 116
Sse9I AATT 4 cut(s) 273, 509, 802, 1069
SseBI AGGCCT 1 cut(s) 537
SsiI CCGC 2 cut(s) 574, 1012
SspMI CTAG 5 cut(s) 12, 117, 956, 1199, 1367
SstI GAGCTC 1 cut(s) 391
StuI AGGCCT 1 cut(s) 537
StyD4I CCNGG 3 cut(s) 172, 1162, 1279
StyI CCWWGG 1 cut(s) 193
TaaI ACNGT 3 cut(s) 492, 1180, 1395
TaiI ACGT 1 cut(s) 1374
TaqI TCGA 9 cut(s) 318, 569, 692, 723, 852, 933, 1075, 1114, 1225
TasI AATT 4 cut(s) 273, 509, 802, 1069
TatI WGTACW 1 cut(s) 1184
TfiI GAWTC 2 cut(s) 849, 1222
Tru1I TTAA 3 cut(s) 435, 609, 759
Tru9I TTAA 3 cut(s) 435, 609, 759
TscAI CASTG 2 cut(s) 99, 955
TseFI GTSAC 2 cut(s) 339, 865
TseI GCWGC 1 cut(s) 1167
Tsp45I GTSAC 2 cut(s) 339, 865
TspDTI ATGAA 6 cut(s) 539, 741, 746, 851, 1206, 1274
TspRI CASTG 2 cut(s) 99, 955
Van91I CCANNNNNTGG 1 cut(s) 1496
VpaK11BI GGWCC 1 cut(s) 1064
XapI RAATTY 2 cut(s) 273, 802
XbaI TCTAGA 2 cut(s) 11, 955
XceI RCATGY 1 cut(s) 1294
XspI CTAG 5 cut(s) 12, 117, 956, 1199, 1367
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.