Rh3CG006300

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3C
OG0014995
Physical Location & Seq
Reverse (-)
434184 .. 437655
3472 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3CG006300.1

Sequence Viewer

Length: 1419 bp
ATGCCCGAGAGAGATGTCCGGTCATGGACTATACTCATCTCTGGGTTTGCTCGGACTGGAGCTTGTAGAACGGTGCTGGAGCTTTTCAAGGGGATGCAAGCTGAGCGTGTTTGTCCGAACCAATTCACGCTATCGAGTGTTTTGAAGAGTTGTTCTAGTTTAAGCGATTTTCGGATGGGGAAGGGAGTCCACGGATGGATATTGAGAAATGGGATTGAATTGGATGTGGTGTTAGAGAACGCAATGCTTGATGTTTACGTCAAATGTGGGGAGTTGGATTATGCAGAAAGGTTGTTTGAGACTATGAAAGAGAGAGATACAGTTACTTGGAATATAATGATGGGTGCATATATGCATGTTGGGGATATGGAGAAGGCTCTTGAGTTGTTCAGAAGGTTACCCTCCAAAGATGTTGCTAGTTGGAATACAATCGTATACGGATTGATGCAAAACGGGGATGGAAGGTCTGCATTGGAGCTACTTTATGAGATGGTCGAAAATGGAGTTGCATTCGAGGATGTAACTTTCTCTGTAGCTCTCGGTTTGGCTTCATCTTTGTATGTTCTGGAACTCGGGACACAGATTCATGGCTATCTTGTAAGGCGTGGTATTGAAAATGATGGATTTCTCCGAACTTCGTTGATAGATATGTATTGCAAATGTGGGAGAATGGACAAGGCATCACTGATATTCAAAAGAATGCCTCTTAGGGCAAAGTCTAAGTTTACATCTGACGAGATGAAGACTGAAATCGTATCATGGAGTTCAATGGTTTCTGGGTATGTTCGTAACGGTGAGCATGAATATGCTTTGATAACATTCCGTTCTATGCTTCGTGAAAAGATTATGGTGGATAGATTCTCTGTGACCAGTGTTGTTTCTGCATGTGCTAACCTTGGCATTTTGCTTCTGGGTCAAAACATCCATGCAGTCGTTCAGAAAATCGGCATTGCTGTTGGTGCACAACAACAGCCCAGAAGATCAAAATCAGATACAAATCCATCTCCAATAAGAACCAAAGAAGAAGAAGAGGAAGAGGAGGAAGGAGATGGCTTATCAAGTGGTGAGAACATGAAGAACTCATTTAGATCCCTCGCTCTTTCAAAACCAAACATATCTGTTGGTATACATAGGCTCTCCAAGGGTTTCAAGACTTTTTCGCAATTGTTTGTGTACAAGGATGAAATGGAAGAAGAAGAACTGGAAATGGATATGGAAATAGGGTGTCCTACAGATGTGAAGCATGTGACACACATAGGTTTGGATGGTTCTGCTTCTGCTGCAACAACTGACCCAATTCATAAGGGCTCTAGGGATGATCTCATATCTCCTGTTTCTTGGAGGCAGTTTGAGTTCTCGAGGTTTTCACAACCTGATGCTGATGCTGTCAATGTCAATTTCAATGGCTCCTCTTCATGA
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
DYW_deaminase PPR PPR_2 UPF0016

Protein Analysis

472

Amino Acids

52.88

Weight (kDa)

5.49

Isoelectric Point (pI)

44.25

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 5 - 52 4.3e-07 PPR repeat family
PPR_2 PF13041 105 - 136 6.6e-07 PPR repeat family
PPR PF01535 108 - 137 3.8e-07 PPR repeat
PPR_2 PF13041 136 - 180 1.7e-07 PPR repeat family
PPR PF01535 140 - 169 7.9e-06 PPR repeat
PPR_2 PF13041 251 - 298 3.7e-06 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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Publication-ready
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Orthologous Genes (Group: OG0014995)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G16490
fragaria_vesca FvH4_6g00540
malus_domestica MD04G1244300.v1.1
prunus_persica Prupe.6G360900_v2.0.a1
pyrus_communis pycom04g21520 pycom12g23830
rosa_chinensis RchiOBHm_Chr3g0447931
rosa_laevigata RLG00000025960
rosa_multiflora Rmu_sc0005969.1_g000005
rosa_roxburghii Rroxscaffold_6G00426120
rosa_rugosa Rorug02G0607100.1
rosa_samantha Rh3AG006400 Rh3BG005900 Rh3CG006300 Rh3DG006600
rosa_wichuraiana Rw3G000500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 2 cut(s) 435, 1126
AclWI GGATC 1 cut(s) 1083
AfaI GTAC 1 cut(s) 1175
AgsI TTSAA 9 cut(s) 88, 145, 218, 614, 694, 768, 1104, 1150, 1402
AluBI AGCT 5 cut(s) 62, 82, 101, 478, 536
AluI AGCT 5 cut(s) 62, 82, 101, 478, 536
Alw21I GWGCWC 1 cut(s) 964
Alw26I GTCTC 1 cut(s) 293
Alw44I GTGCAC 1 cut(s) 960
AlwI GGATC 1 cut(s) 1083
Ama87I CYCGRG 3 cut(s) 5, 572, 1357
ApaLI GTGCAC 1 cut(s) 960
ApeKI GCWGC 1 cut(s) 1280
Asp700I GAANNNNTTC 1 cut(s) 122
AsuHPI GGTGA 2 cut(s) 806, 1076
AvaI CYCGRG 3 cut(s) 5, 572, 1357
BaeGI GKGCMC 1 cut(s) 964
BanII GRGCYC 1 cut(s) 1310
BbsI GAAGAC 1 cut(s) 749
Bbv12I GWGCWC 1 cut(s) 964
BbvI GCAGC 1 cut(s) 1267
BccI CCATC 9 cut(s) 169, 189, 334, 452, 484, 614, 1009, 1043, 1259
BcoDI GTCTC 1 cut(s) 293
BfaI CTAG 3 cut(s) 156, 417, 1311
BfmI CTRYAG 2 cut(s) 531, 1230
BisI GCNGC 1 cut(s) 1281
BlpI GCTNAGC 1 cut(s) 102
BlsI GCNGC 1 cut(s) 1282
BmeT110I CYCGRG 3 cut(s) 5, 572, 1357
BmiI GGNNCC 1 cut(s) 1408
BmsI GCATC 5 cut(s) 84, 435, 689, 1366, 1372
BpiI GAAGAC 1 cut(s) 749
BpmI CTGGAG 2 cut(s) 78, 98
Bpu1102I GCTNAGC 1 cut(s) 102
BpuEI CTTGAG 1 cut(s) 401
BsaBI GATNNNNATC 2 cut(s) 985, 996
BsaJI CCNNGG 3 cut(s) 190, 895, 1140
BsaWI WCCGGW 1 cut(s) 18
Bse1I ACTGG 3 cut(s) 61, 870, 1206
Bse3DI GCAATG 2 cut(s) 249, 948
Bse8I GATNNNNATC 2 cut(s) 985, 996
BseDI CCNNGG 3 cut(s) 190, 895, 1140
BseJI GATNNNNATC 2 cut(s) 985, 996
BseMI GCAATG 2 cut(s) 249, 948
BseMII CTCAG 1 cut(s) 93
BseNI ACTGG 3 cut(s) 61, 870, 1206
BseRI GAGGAG 2 cut(s) 1052, 1399
BseSI GKGCMC 1 cut(s) 964
BseXI GCAGC 1 cut(s) 1267
BsiHKAI GWGCWC 1 cut(s) 964
BsiHKCI CYCGRG 3 cut(s) 5, 572, 1357
BsiSI CCGG 1 cut(s) 19
BslFI GGGAC 1 cut(s) 589
BsmAI GTCTC 1 cut(s) 293
BsmFI GGGAC 1 cut(s) 589
BsmI GAATGC 2 cut(s) 509, 705
BsoBI CYCGRG 3 cut(s) 5, 572, 1357
Bsp1286I GDGCHC 2 cut(s) 964, 1310
Bsp1407I TGTACA 1 cut(s) 1173
Bsp143I GATC 3 cut(s) 980, 1088, 1318
Bsp1720I GCTNAGC 1 cut(s) 102
BspCNI CTCAG 1 cut(s) 94
BspHI TCATGA 1 cut(s) 1415
BspLI GGNNCC 1 cut(s) 1408
BspPI GGATC 1 cut(s) 1083
BsrDI GCAATG 2 cut(s) 249, 948
BsrGI TGTACA 1 cut(s) 1173
BsrI ACTGG 3 cut(s) 61, 870, 1206
BssECI CCNNGG 3 cut(s) 190, 895, 1140
BssMI GATC 3 cut(s) 980, 1088, 1318
BssNAI GTATAC 2 cut(s) 436, 1127
BssT1I CCWWGG 2 cut(s) 895, 1140
Bst1107I GTATAC 2 cut(s) 436, 1127
Bst4CI ACNGT 3 cut(s) 73, 322, 794
Bst6I CTCTTC 3 cut(s) 140, 1023, 1029
BstAUI TGTACA 1 cut(s) 1173
BstC8I GCNNGC 1 cut(s) 99
BstDEI CTNAG 3 cut(s) 102, 707, 720
BstDSI CCRYGG 1 cut(s) 190
BstEII GGTNACC 1 cut(s) 396
BstKTI GATC 3 cut(s) 983, 1091, 1321
BstMAI GTCTC 1 cut(s) 293
BstMBI GATC 3 cut(s) 980, 1088, 1318
BstMWI GCNNNNNNNGC 3 cut(s) 103, 959, 1280
BstNSI RCATGY 3 cut(s) 359, 888, 1247
BstPI GGTNACC 1 cut(s) 396
BstSFI CTRYAG 2 cut(s) 531, 1230
BstSLI GKGCMC 1 cut(s) 964
BstV1I GCAGC 1 cut(s) 1267
BstV2I GAAGAC 1 cut(s) 749
BstX2I RGATCY 1 cut(s) 1088
BstYI RGATCY 1 cut(s) 1088
BstZ17I GTATAC 2 cut(s) 436, 1127
BtgI CCRYGG 1 cut(s) 190
BtsIMutI CAGTG 2 cut(s) 683, 877
Cac8I GCNNGC 1 cut(s) 99
CciI TCATGA 1 cut(s) 1415
Csp6I GTAC 1 cut(s) 1174
CviQI GTAC 1 cut(s) 1174
DdeI CTNAG 3 cut(s) 102, 707, 720
DpnI GATC 3 cut(s) 982, 1090, 1320
DpnII GATC 3 cut(s) 980, 1088, 1318
Eam1104I CTCTTC 3 cut(s) 140, 1023, 1029
EarI CTCTTC 3 cut(s) 140, 1023, 1029
Eco130I CCWWGG 2 cut(s) 895, 1140
Eco24I GRGCYC 1 cut(s) 1310
Eco88I CYCGRG 3 cut(s) 5, 572, 1357
Eco91I GGTNACC 1 cut(s) 396
EcoO65I GGTNACC 1 cut(s) 396
EcoT14I CCWWGG 2 cut(s) 895, 1140
EcoT22I ATGCAT 1 cut(s) 357
EcoT38I GRGCYC 1 cut(s) 1310
ErhI CCWWGG 2 cut(s) 895, 1140
FaqI GGGAC 1 cut(s) 589
FblI GTMKAC 2 cut(s) 435, 1126
Fnu4HI GCNGC 1 cut(s) 1281
FriOI GRGCYC 1 cut(s) 1310
Fsp4HI GCNGC 1 cut(s) 1281
FspBI CTAG 3 cut(s) 156, 417, 1311
GluI GCNGC 1 cut(s) 1281
GsuI CTGGAG 2 cut(s) 78, 98
HapII CCGG 1 cut(s) 19
HinfI GANTC 3 cut(s) 186, 583, 858
HpaII CCGG 1 cut(s) 19
HphI GGTGA 2 cut(s) 806, 1076
Hpy166II GTNNAC 7 cut(s) 190, 256, 436, 726, 962, 1127, 1174
Hpy188I TCNGA 8 cut(s) 54, 117, 174, 392, 632, 733, 939, 991
Hpy188III TCNNGA 7 cut(s) 380, 566, 574, 836, 1150, 1357, 1416
Hpy8I GTNNAC 7 cut(s) 190, 256, 436, 726, 962, 1127, 1174
HpyAV CCTTC 5 cut(s) 175, 367, 387, 456, 1037
HpyCH4III ACNGT 3 cut(s) 73, 322, 794
HpyCH4IV ACGT 1 cut(s) 258
HpyF10VI GCNNNNNNNGC 3 cut(s) 103, 959, 1280
HpyF3I CTNAG 3 cut(s) 102, 707, 720
HpySE526I ACGT 1 cut(s) 258
Kzo9I GATC 3 cut(s) 980, 1088, 1318
LmnI GCTCC 4 cut(s) 59, 79, 475, 1412
Lsp1109I GCAGC 1 cut(s) 1267
LweI GCATC 5 cut(s) 84, 435, 689, 1366, 1372
MaeI CTAG 3 cut(s) 156, 417, 1311
MaeII ACGT 1 cut(s) 258
MaeIII GTNAC 6 cut(s) 322, 396, 520, 788, 865, 1246
MalI GATC 3 cut(s) 982, 1090, 1320
MboI GATC 3 cut(s) 980, 1088, 1318
MfeI CAATTG 1 cut(s) 1163
MflI RGATCY 1 cut(s) 1088
MhlI GDGCHC 2 cut(s) 964, 1310
MluCI AATT 5 cut(s) 122, 218, 1163, 1296, 1396
MlyI GAGTC 1 cut(s) 195
MmeI TCCRAC 2 cut(s) 255, 401
MnlI CCTC 9 cut(s) 412, 508, 714, 1024, 1030, 1033, 1103, 1335, 1353
Mph1103I ATGCAT 1 cut(s) 357
MroXI GAANNNNTTC 1 cut(s) 122
MseI TTAA 1 cut(s) 161
MslI CAYNNNNRTG 1 cut(s) 804
MspI CCGG 1 cut(s) 19
MunI CAATTG 1 cut(s) 1163
Mva1269I GAATGC 2 cut(s) 509, 705
MwoI GCNNNNNNNGC 3 cut(s) 103, 959, 1280
NdeII GATC 3 cut(s) 980, 1088, 1318
NlaIV GGNNCC 1 cut(s) 1408
NmuCI GTSAC 2 cut(s) 865, 1246
NsiI ATGCAT 1 cut(s) 357
NspI RCATGY 3 cut(s) 359, 888, 1247
PaeR7I CTCGAG 1 cut(s) 1357
PagI TCATGA 1 cut(s) 1415
PctI GAATGC 2 cut(s) 509, 705
PdmI GAANNNNTTC 1 cut(s) 122
PfeI GAWTC 2 cut(s) 583, 858
PkrI GCNGC 1 cut(s) 1282
PleI GAGTC 1 cut(s) 194
PpsI GAGTC 1 cut(s) 194
PspEI GGTNACC 1 cut(s) 396
PspN4I GGNNCC 1 cut(s) 1408
PsuI RGATCY 1 cut(s) 1088
RsaI GTAC 1 cut(s) 1175
RsaNI GTAC 1 cut(s) 1174
RseI CAYNNNNRTG 1 cut(s) 804
SaqAI TTAA 1 cut(s) 161
SatI GCNGC 1 cut(s) 1281
Sau3AI GATC 3 cut(s) 980, 1088, 1318
SchI GAGTC 1 cut(s) 195
SduI GDGCHC 2 cut(s) 964, 1310
SfaNI GCATC 5 cut(s) 84, 435, 689, 1366, 1372
SfcI CTRYAG 2 cut(s) 531, 1230
Sfr274I CTCGAG 1 cut(s) 1357
SlaI CTCGAG 1 cut(s) 1357
SmiMI CAYNNNNRTG 1 cut(s) 804
SmlI CTYRAG 2 cut(s) 380, 1357
SmoI CTYRAG 2 cut(s) 380, 1357
Sse9I AATT 5 cut(s) 122, 218, 1163, 1296, 1396
SspMI CTAG 3 cut(s) 156, 417, 1311
StyI CCWWGG 2 cut(s) 895, 1140
TaaI ACNGT 3 cut(s) 73, 322, 794
TaiI ACGT 1 cut(s) 261
TaqI TCGA 4 cut(s) 134, 495, 513, 1358
TasI AATT 5 cut(s) 122, 218, 1163, 1296, 1396
TatI WGTACW 1 cut(s) 1173
TfiI GAWTC 2 cut(s) 583, 858
Tru1I TTAA 1 cut(s) 161
Tru9I TTAA 1 cut(s) 161
TscAI CASTG 2 cut(s) 690, 877
TseFI GTSAC 2 cut(s) 865, 1246
TseI GCWGC 1 cut(s) 1280
Tsp45I GTSAC 2 cut(s) 865, 1246
TspDTI ATGAA 9 cut(s) 320, 540, 575, 755, 816, 1088, 1197, 1289, 1404
TspGWI ACGGA 3 cut(s) 207, 453, 812
TspRI CASTG 2 cut(s) 690, 877
VneI GTGCAC 1 cut(s) 960
XceI RCATGY 3 cut(s) 359, 888, 1247
XhoI CTCGAG 1 cut(s) 1357
XmiI GTMKAC 2 cut(s) 435, 1126
XmnI GAANNNNTTC 1 cut(s) 122
XspI CTAG 3 cut(s) 156, 417, 1311
Zsp2I ATGCAT 1 cut(s) 357
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.