Rh7AG409400

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr7A
OG0012017
Physical Location & Seq
Reverse (-)
54585530 .. 54588759
3230 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh7AG409400.1

Sequence Viewer

Length: 1518 bp
ATGATGATGGCACTGAAAGCTAAACCCCTCTCATCCCCATCACCATTTTTCAGGTACTCGCCGCAAAACCCAATTTTCTTTCTCCCTCGATTACTCTCTTCCCAAGCCCCAATCGACAGTGACGTCGACACTGTCTACCGCATAGTCAGTAGCTCCACCCATTCCAAAAACTTGAAGCAAAACTTGAAATCGAGTGGTGTTTTCCTCTCGAATGATTTGATAGATGAGGTTCTGAAGCGTGCTAGGTTCAGCCATGGAAACCCTTTACAGGCTCTCGAGTTTTTCAATCACACTGGGAATAGGAGAGGGTTTTATCACACCACATTTGCACTGGACACAATGCTTTATTTGTTGGGAAGAAGTCGAATGGTCGAAAAGATGTGGGAGGTTTTGGTTGAGATCAAGAGTAAGGATAGGAATTTGATAACTCCGCGTACTGTGATGGTAGTGTTAGCTAGGATTGCTAAGGTTTGTTCTGTTAGGGAGACTGTGGAGTGTTTTAGAAAGTTCAAGAAGCTTGTGCCCGAATTCGACACAGCTTGTTTCAATGCGTTGTTGAGGACTCTTTGTCAAGAGAAGAGTATGACTGATGCTAGGAATGTGTATCATAAGCTGAAGCAGAGCTTTAGGCCGAATTTGCAGACCTTTAATATATTGTTATCGGGTTGGAAGTCATCGGAGGAAGCTGAGGGGTTTTTCGAGGAGATGAGGGAGATGGGTCTGAAACCTGATATTGTTTCGTATAATTGTTTGATTGATGTTTATAGTAAGAATAGAGAAATGGAGAAAGCGTTTAAGGTTATGGAAAAAATGCGTGACGAGGATATATCACCTGATAAGATCACATATACTTGTGTCATTGGGGGATTGGGGTTGGTTGGTCAGCCTGATAAAGCCAAAGATGTGTTGAAGGAAATGAAGGAGCTTGGGTGCTACCCAGATGTTGCGGCATACAATGCTGCCATTAGGAATTTTTGCATTGCAAAGAGGCTTGGTGATGCTAATGGGTTGATGGAGGAGATGATAAGTAATGGTTTGAGTCCAAATGCAACTACTTACAATTTGTTCTTTAGGGTTTTCTTTTGGTCAAGTGACTTGCAGAACTCTTGGAGCTTGTATGGGAGAATGATGCATACTGGGTGTCTGCCAAATACACAGTCGTGCATGTTCCTGATCAGGTTGTTTAAGAGGCTGGAAAAGGTGGATATGGCATTGCAGCTGTGGAATGATATGGTCGAGAGGGGTTTTGGGTCTTATATATTGGTATCTGATGTGCTGTTTGATTTGCTGTGTGATATGGGTAAACTAACAGAAGCAGAAACGTGCTTCTTGCAGATGGTGGAGAAGGGGCATAAGCCAAGTAATGTTTCCTTTAGAAGGATCAAGGTGCTTATGGAACTGGCAAACAAGCATGAGGCCCTCAAGAACTTGACGGAGAAAATGACACTTTTTGGCTCTTCAATCCATCTTCCTGAGAGTATGGATAGGTCAACAGAGTTAGAGTCAGAATCACAGTAA

Protein Analysis

505

Amino Acids

57.98

Weight (kDa)

8.67

Isoelectric Point (pI)

44.04

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 178 - 222 6.2e-07 PPR repeat family
PPR_3 PF13812 233 - 289 2e-11 Pentatricopeptide repeat domain
PPR_long PF17177 233 - 359 4.6e-10 Pentacotripeptide-repeat region of PRORP
TPR_24 PF23276 236 - 336 1.3e-07 Fungal tetratrico peptide repeats
PPR_1 PF12854 239 - 272 2.7e-09 PPR repeat
PPR_2 PF13041 243 - 290 7.1e-17 PPR repeat family
PPR PF01535 246 - 275 6.7e-08 PPR repeat
PPR_3 PF13812 266 - 323 8.7e-09 Pentatricopeptide repeat domain
PPR_1 PF12854 275 - 307 6.9e-06 PPR repeat
PPR PF01535 281 - 311 7.8e-07 PPR repeat
PPR_2 PF13041 284 - 326 2.3e-07 PPR repeat family
PPR_3 PF13812 302 - 359 7.4e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 313 - 360 3.7e-10 PPR repeat family
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: OG0012017)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G02420
fragaria_vesca FvH4_5g32610 FvH4_5g32610 FvH4_5g32610
malus_domestica MD08G1216300.v1.1
prunus_persica Prupe.1G549200_v2.0.a1
pyrus_communis pycom08g18730
rosa_chinensis RchiOBHm_Chr7g0230241
rosa_laevigata RLG00000001507
rosa_multiflora Rmu_sc0002822.1_g000019 Rmu_sc0008506.1_g000024
rosa_roxburghii Rroxscaffold_3G00230280
rosa_rugosa Rorug07G0260000
rosa_samantha Rh7AG409400 Rh7BG389300 Rh7CG428000 Rh7DG407000
rosa_wichuraiana Rw0G018590 Rw0G022620

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 122
AatII GACGTC 1 cut(s) 126
AccI GTMKAC 2 cut(s) 126, 135
AccII CGCG 1 cut(s) 433
AciI CCGC 4 cut(s) 62, 139, 431, 947
AclWI GGATC 1 cut(s) 1388
AcsI RAATTY 4 cut(s) 418, 527, 634, 970
AcuI CTGAAG 2 cut(s) 254, 635
AcyI GRCGYC 1 cut(s) 123
AfaI GTAC 2 cut(s) 56, 436
AfiI CCNNNNNNNGG 2 cut(s) 268, 1377
AgsI TTSAA 7 cut(s) 175, 187, 286, 511, 547, 910, 1461
AhdI GACNNNNNGTC 1 cut(s) 567
AjuI GAANNNNNNNTTGG 2 cut(s) 1351, 1383
AleI CACNNNNGTG 1 cut(s) 1159
Alw26I GTCTC 1 cut(s) 479
AlwI GGATC 1 cut(s) 1388
Ama87I CYCGRG 1 cut(s) 275
AoxI GGCC 2 cut(s) 629, 1416
ApeKI GCWGC 2 cut(s) 959, 1216
ApoI RAATTY 4 cut(s) 418, 527, 634, 970
ArsI GACNNNNNNTTYG 2 cut(s) 1142, 1174
AspS9I GGNCC 1 cut(s) 1417
AsuHPI GGTGA 3 cut(s) 33, 822, 1007
AvaI CYCGRG 1 cut(s) 275
BaeGI GKGCMC 1 cut(s) 525
BbvCI CCTCAGC 1 cut(s) 687
BbvI GCAGC 2 cut(s) 946, 1228
BccI CCATC 6 cut(s) 46, 436, 709, 1006, 1330, 1473
BclI TGATCA 1 cut(s) 1173
BcoDI GTCTC 1 cut(s) 479
BfaI CTAG 3 cut(s) 243, 456, 594
BisI GCNGC 4 cut(s) 62, 948, 960, 1217
BlsI GCNGC 4 cut(s) 63, 949, 961, 1218
BmeRI GACNNNNNGTC 1 cut(s) 567
BmeT110I CYCGRG 1 cut(s) 275
BmgT120I GGNCC 1 cut(s) 1417
BmrI ACTGGG 2 cut(s) 303, 1146
BmsI GCATC 3 cut(s) 580, 988, 1119
BmuI ACTGGG 2 cut(s) 303, 1146
Bpu10I CCTNAGC 2 cut(s) 465, 687
BpuEI CTTGAG 1 cut(s) 1406
BsaHI GRCGYC 1 cut(s) 123
BsaJI CCNNGG 1 cut(s) 253
BsaXI ACNNNNNCTCC 4 cut(s) 776, 806, 914, 944
Bsc4I CCNNNNNNNGG 2 cut(s) 268, 1377
Bse1I ACTGG 4 cut(s) 298, 336, 1141, 1404
Bse3DI GCAATG 2 cut(s) 978, 1211
BseDI CCNNGG 1 cut(s) 253
BseGI GGATG 1 cut(s) 32
BseLI CCNNNNNNNGG 2 cut(s) 268, 1377
BseMI GCAATG 2 cut(s) 978, 1211
BseMII CTCAG 2 cut(s) 678, 1464
BseNI ACTGG 4 cut(s) 298, 336, 1141, 1404
BseRI GAGGAG 2 cut(s) 716, 1031
BseSI GKGCMC 1 cut(s) 525
BseXI GCAGC 2 cut(s) 946, 1228
Bsh1236I CGCG 1 cut(s) 433
BshFI GGCC 2 cut(s) 631, 1418
BsiHKCI CYCGRG 1 cut(s) 275
BslI CCNNNNNNNGG 2 cut(s) 268, 1377
BsmAI GTCTC 1 cut(s) 479
BsnI GGCC 2 cut(s) 631, 1418
BsoBI CYCGRG 1 cut(s) 275
Bsp1286I GDGCHC 1 cut(s) 525
Bsp143I GATC 4 cut(s) 399, 840, 1173, 1380
Bsp19I CCATGG 1 cut(s) 253
BspACI CCGC 4 cut(s) 62, 139, 431, 947
BspANI GGCC 2 cut(s) 631, 1418
BspCNI CTCAG 2 cut(s) 679, 1465
BspFNI CGCG 1 cut(s) 433
BspPI GGATC 1 cut(s) 1388
BspQI GCTCTTC 1 cut(s) 1462
BsrDI GCAATG 2 cut(s) 978, 1211
BsrI ACTGG 4 cut(s) 298, 336, 1141, 1404
BssECI CCNNGG 1 cut(s) 253
BssMI GATC 4 cut(s) 399, 840, 1173, 1380
BssNI GRCGYC 1 cut(s) 123
BssT1I CCWWGG 1 cut(s) 253
Bst4CI ACNGT 6 cut(s) 119, 133, 439, 490, 1158, 1515
Bst6I CTCTTC 3 cut(s) 103, 572, 1462
BstACI GRCGYC 1 cut(s) 123
BstAPI GCANNNNNTGC 1 cut(s) 956
BstC8I GCNNGC 1 cut(s) 240
BstDEI CTNAG 3 cut(s) 465, 687, 1473
BstDSI CCRYGG 1 cut(s) 253
BstENI CCTNNNNNAGG 1 cut(s) 1375
BstF5I GGATG 1 cut(s) 32
BstFNI CGCG 1 cut(s) 433
BstKTI GATC 4 cut(s) 402, 843, 1176, 1383
BstMAI GTCTC 1 cut(s) 479
BstMBI GATC 4 cut(s) 399, 840, 1173, 1380
BstMWI GCNNNNNNNGC 4 cut(s) 17, 461, 637, 956
BstNSI RCATGY 1 cut(s) 1168
BstSLI GKGCMC 1 cut(s) 525
BstUI CGCG 1 cut(s) 433
BstV1I GCAGC 2 cut(s) 946, 1228
BsuRI GGCC 2 cut(s) 631, 1418
BtgI CCRYGG 1 cut(s) 253
BtsCI GGATG 1 cut(s) 32
BtsIMutI CAGTG 5 cut(s) 11, 124, 129, 291, 329
Cac8I GCNNGC 1 cut(s) 240
Cfr13I GGNCC 1 cut(s) 1417
Csp6I GTAC 2 cut(s) 55, 435
CviAII CATG 3 cut(s) 254, 1165, 1412
CviQI GTAC 2 cut(s) 55, 435
DdeI CTNAG 3 cut(s) 465, 687, 1473
DpnI GATC 4 cut(s) 401, 842, 1175, 1382
DpnII GATC 4 cut(s) 399, 840, 1173, 1380
DrdI GACNNNNNNGTC 1 cut(s) 122
DriI GACNNNNNGTC 1 cut(s) 567
DseDI GACNNNNNNGTC 1 cut(s) 122
Eam1104I CTCTTC 3 cut(s) 103, 572, 1462
Eam1105I GACNNNNNGTC 1 cut(s) 567
EarI CTCTTC 3 cut(s) 103, 572, 1462
Eco130I CCWWGG 1 cut(s) 253
Eco57I CTGAAG 2 cut(s) 254, 635
Eco88I CYCGRG 1 cut(s) 275
EcoNI CCTNNNNNAGG 1 cut(s) 1375
EcoO109I RGGNCCY 1 cut(s) 1417
EcoRI GAATTC 1 cut(s) 527
EcoT14I CCWWGG 1 cut(s) 253
EcoT22I ATGCAT 1 cut(s) 1134
ErhI CCWWGG 1 cut(s) 253
FaeI CATG 3 cut(s) 257, 1168, 1415
FalI AAGNNNNNCTT 4 cut(s) 167, 199, 608, 640
FatI CATG 3 cut(s) 253, 1164, 1411
FbaI TGATCA 1 cut(s) 1173
FblI GTMKAC 2 cut(s) 126, 135
Fnu4HI GCNGC 4 cut(s) 62, 948, 960, 1217
FokI GGATG 1 cut(s) 19
Fsp4HI GCNGC 4 cut(s) 62, 948, 960, 1217
FspBI CTAG 3 cut(s) 243, 456, 594
GluI GCNGC 4 cut(s) 62, 948, 960, 1217
HaeIII GGCC 2 cut(s) 631, 1418
Hin1I GRCGYC 1 cut(s) 123
Hin1II CATG 3 cut(s) 257, 1168, 1415
HincII GTYRAC 2 cut(s) 127, 1491
HindII GTYRAC 2 cut(s) 127, 1491
HindIII AAGCTT 1 cut(s) 515
HinfI GANTC 4 cut(s) 562, 1039, 1502, 1508
HphI GGTGA 3 cut(s) 33, 822, 1007
Hpy166II GTNNAC 4 cut(s) 127, 136, 1304, 1491
Hpy188I TCNGA 5 cut(s) 234, 679, 723, 1270, 1507
Hpy188III TCNNGA 9 cut(s) 208, 275, 403, 511, 572, 1171, 1237, 1423, 1472
Hpy8I GTNNAC 4 cut(s) 127, 136, 1304, 1491
Hpy99I CGWCG 1 cut(s) 128
HpyAV CCTTC 4 cut(s) 904, 913, 1339, 1371
HpyCH4III ACNGT 6 cut(s) 119, 133, 439, 490, 1158, 1515
HpyCH4IV ACGT 2 cut(s) 123, 1322
HpyF10VI GCNNNNNNNGC 4 cut(s) 17, 461, 637, 956
HpyF3I CTNAG 3 cut(s) 465, 687, 1473
HpySE526I ACGT 2 cut(s) 123, 1322
Hsp92I GRCGYC 1 cut(s) 123
Hsp92II CATG 3 cut(s) 257, 1168, 1415
Ksp22I TGATCA 1 cut(s) 1173
Kzo9I GATC 4 cut(s) 399, 840, 1173, 1380
LguI GCTCTTC 1 cut(s) 1462
LmnI GCTCC 3 cut(s) 158, 922, 1110
Lsp1109I GCAGC 2 cut(s) 946, 1228
LweI GCATC 3 cut(s) 580, 988, 1119
MaeI CTAG 3 cut(s) 243, 456, 594
MaeII ACGT 2 cut(s) 123, 1322
MaeIII GTNAC 3 cut(s) 119, 815, 1091
MalI GATC 4 cut(s) 401, 842, 1175, 1382
MboI GATC 4 cut(s) 399, 840, 1173, 1380
MboII GAAGA 5 cut(s) 90, 369, 589, 1449, 1460
MhlI GDGCHC 1 cut(s) 525
MluCI AATT 7 cut(s) 72, 418, 527, 634, 745, 970, 1060
MlyI GAGTC 3 cut(s) 556, 1048, 1511
MmeI TCCRAC 1 cut(s) 647
Mph1103I ATGCAT 1 cut(s) 1134
MseI TTAA 3 cut(s) 648, 795, 1185
MslI CAYNNNNRTG 1 cut(s) 1159
MspA1I CMGCKG 1 cut(s) 1219
MvnI CGCG 1 cut(s) 433
MwoI GCNNNNNNNGC 4 cut(s) 17, 461, 637, 956
NcoI CCATGG 1 cut(s) 253
NdeII GATC 4 cut(s) 399, 840, 1173, 1380
NlaIII CATG 3 cut(s) 257, 1168, 1415
NmuCI GTSAC 3 cut(s) 119, 815, 1091
NsiI ATGCAT 1 cut(s) 1134
NspI RCATGY 1 cut(s) 1168
OliI CACNNNNGTG 1 cut(s) 1159
PaeR7I CTCGAG 1 cut(s) 275
PciSI GCTCTTC 1 cut(s) 1462
PcsI WCGNNNNNNNCGW 1 cut(s) 120
PfeI GAWTC 1 cut(s) 1508
PflFI GACNNNGTC 1 cut(s) 131
PkrI GCNGC 4 cut(s) 63, 949, 961, 1218
PleI GAGTC 3 cut(s) 556, 1047, 1510
PpsI GAGTC 3 cut(s) 556, 1047, 1510
PspPI GGNCC 1 cut(s) 1417
PsyI GACNNNGTC 1 cut(s) 131
PvuII CAGCTG 1 cut(s) 1219
RsaI GTAC 2 cut(s) 56, 436
RsaNI GTAC 2 cut(s) 55, 435
RseI CAYNNNNRTG 1 cut(s) 1159
SalI GTCGAC 1 cut(s) 125
SapI GCTCTTC 1 cut(s) 1462
SaqAI TTAA 3 cut(s) 648, 795, 1185
SatI GCNGC 4 cut(s) 62, 948, 960, 1217
Sau3AI GATC 4 cut(s) 399, 840, 1173, 1380
Sau96I GGNCC 1 cut(s) 1417
SchI GAGTC 3 cut(s) 556, 1048, 1511
SduI GDGCHC 1 cut(s) 525
SfaNI GCATC 3 cut(s) 580, 988, 1119
Sfr274I CTCGAG 1 cut(s) 275
SlaI CTCGAG 1 cut(s) 275
SmiMI CAYNNNNRTG 1 cut(s) 1159
SmlI CTYRAG 2 cut(s) 275, 1421
SmoI CTYRAG 2 cut(s) 275, 1421
Sse9I AATT 7 cut(s) 72, 418, 527, 634, 745, 970, 1060
SsiI CCGC 4 cut(s) 62, 139, 431, 947
SspMI CTAG 3 cut(s) 243, 456, 594
StyI CCWWGG 1 cut(s) 253
TaaI ACNGT 6 cut(s) 119, 133, 439, 490, 1158, 1515
TaiI ACGT 2 cut(s) 126, 1325
TasI AATT 7 cut(s) 72, 418, 527, 634, 745, 970, 1060
TauI GCSGC 2 cut(s) 64, 950
TfiI GAWTC 1 cut(s) 1508
Tru1I TTAA 3 cut(s) 648, 795, 1185
Tru9I TTAA 3 cut(s) 648, 795, 1185
TscAI CASTG 5 cut(s) 18, 124, 136, 298, 336
TseFI GTSAC 3 cut(s) 119, 815, 1091
TseI GCWGC 2 cut(s) 959, 1216
Tsp45I GTSAC 3 cut(s) 119, 815, 1091
TspDTI ATGAA 1 cut(s) 932
TspGWI ACGGA 1 cut(s) 1448
TspRI CASTG 5 cut(s) 18, 124, 136, 298, 336
Tth111I GACNNNGTC 1 cut(s) 131
XagI CCTNNNNNAGG 1 cut(s) 1375
XapI RAATTY 4 cut(s) 418, 527, 634, 970
XceI RCATGY 1 cut(s) 1168
XcmI CCANNNNNNNNNTGG 1 cut(s) 328
XhoI CTCGAG 1 cut(s) 275
XmiI GTMKAC 2 cut(s) 126, 135
XspI CTAG 3 cut(s) 243, 456, 594
ZraI GACGTC 1 cut(s) 124
Zsp2I ATGCAT 1 cut(s) 1134
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.