Rroxscaffold_1G00009160

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0018014
Physical Location & Seq
Forward (+)
11575859 .. 11577136
1278 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00009160.1

Sequence Viewer

Length: 1278 bp
ATGGAAGCGATTGAATTGTTTAGTAACATGTTGGAAAGAGACGTTGGGTCTTGGAATTCGCTGATTTGGGGTCTTGGGCATAACTTGGAAGGAAGGACCGGGTTGCCTTTCTTTGAGAAAATGAGATTGGAGGGAGCTGATGTTGATGTTATGACCGTGATAAGTGTTCTTTCAATTTGTTCTGATCTTGCAGCGTTGCTTAACGGTAAACAAGTACATTGTTTGGTGATGAAGTATGGATTCGAGTTGTATTTGTCGGTTGGGAATGCTGTTATTGACTTGTATGCTAAATGTGGGTGCATGGAAGATGCTTTTTTATGTTTCAGGAACATGCCTTTGAAGAATGTAGTTTCATGGACTGCTTTGATTGCGGGTTTTGGGAAACAAGGCCAGGGAATAGGAGCTTTGAAGGCATTTGATGTAATGGAAATAGAAGGTGTTCGACCAAACAGAATCACATTCTTGGGTGCCTTGTATGCGTGTAGTCATGCAGGTTTAGTACAAGAAGGATGGAGGATTTTCAACATGATGGTGAATAAGTATTCGATAACACCAATGATGGAGCACTATACATGCATGGTGGATCTCCTAGCACGATCAGGGTATTTCAATGAGGCCTATAGCTTCATCGAGAGGATGCCTATAAAGCCAGACCCAAAGCTTCTCACAGCATTTCTGAGCTCATGTTGCTCTCACAAGAATTTAGAGCTAGGAAAGACTGTTGGGCAGAAATTGCTTGAATCACAACCTGAAGAAGCAGGAGCCTATATGTTGCTATCCAACTTCTATGGGCTTGTCGGAGACTTGCAAGGTGTGGCAAAAGTGAGAAGATTGATGCTAGATAGAGGAATAAGGAAAGAAAAGGCAAGCACTTGGATTGAGATTAACAAAACTGTTCACAGTTTTCAATCAGGAGACAGATCCCATCCCCTAAGTAAAGACATCTACAACTACTTGCAACATCTTTTTCGGAAGTTGAAAATTAACGGGTACGTTCCAAACACAAGCATGGTAATGCAAAATGTGGATGAACAGACAAAGGAGGAGATAGTTCTCAGTCATAGCGAGAAACTGGCAATTGGACTAGGCCTAATCAGCACACCTCCAGGTACCCGTATCATTATAGTTAAGAACCTGAGAGTGTGCGCAGACTGTCATGTGGTAACTGGCTTAATTTCAAAGATTGAAGGGAGGAGATTGTTGCAAGGGATTCGAGTCGATTCCATCATTTCAAAGATGGACTATGTTCTTGTGGAAATCATTGGTGAGAGATTTTAA
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

Protein Analysis

425

Amino Acids

47.6

Weight (kDa)

7.94

Isoelectric Point (pI)

36.97

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 114 - 158 4.9e-08 PPR repeat family
PPR_long PF17177 128 - 259 8.1e-06 Pentacotripeptide-repeat region of PRORP
E_motif PF20431 232 - 294 1.6e-11 E motif
Eplus_motif PF20430 299 - 326 3.2e-07 E+ motif
DYW_deaminase PF14432 330 - 400 7.3e-22 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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Publication-ready
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Orthologous Genes (Group: OG0018014)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g39961
prunus_persica Prupe.6G045500_v2.0.a1
rosa_chinensis RchiOBHm_Chr5g0071981
rosa_laevigata RLG00000036268
rosa_multiflora Rmu_co8282069.1_g000001
rosa_roxburghii Rroxscaffold_1G00009160
rosa_rugosa Rorug05G0415900
rosa_samantha Rh5AG471900 Rh5BG491900 Rh5CG515700
rosa_wichuraiana Rw5G043870

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 1147
Acc36I ACCTGC 1 cut(s) 482
Acc65I GGTACC 1 cut(s) 1109
AccB1I GGYRCC 2 cut(s) 467, 1109
AciI CCGC 1 cut(s) 371
AclWI GGATC 2 cut(s) 591, 915
AcsI RAATTY 2 cut(s) 55, 700
AcuI CTGAAG 1 cut(s) 771
AfaI GTAC 4 cut(s) 216, 501, 992, 1111
AflIII ACRYGT 1 cut(s) 27
AhdI GACNNNNNGTC 1 cut(s) 46
AjnI CCWGG 2 cut(s) 390, 1105
AjuI GAANNNNNNNTTGG 4 cut(s) 27, 59, 110, 142
AluBI AGCT 6 cut(s) 137, 404, 624, 661, 681, 709
AluI AGCT 6 cut(s) 137, 404, 624, 661, 681, 709
Alw21I GWGCWC 2 cut(s) 567, 683
Alw26I GTCTC 3 cut(s) 33, 795, 909
AlwI GGATC 2 cut(s) 591, 915
AoxI GGCC 3 cut(s) 388, 615, 1087
ApeKI GCWGC 1 cut(s) 191
ApoI RAATTY 2 cut(s) 55, 700
Asp700I GAANNNNTTC 1 cut(s) 438
Asp718I GGTACC 1 cut(s) 1109
AspLEI GCGC 1 cut(s) 1148
AspS9I GGNCC 1 cut(s) 96
AsuC2I CCSGG 1 cut(s) 100
AsuHPI GGTGA 3 cut(s) 238, 544, 1277
AvaII GGWCC 1 cut(s) 96
BanI GGYRCC 2 cut(s) 467, 1109
BanII GRGCYC 1 cut(s) 683
Bbv12I GWGCWC 2 cut(s) 567, 683
BbvI GCAGC 1 cut(s) 203
BccI CCATC 6 cut(s) 504, 523, 553, 933, 1231, 1232
BcgI CGANNNNNNTGC 2 cut(s) 1193, 1227
BciT130I CCWGG 2 cut(s) 392, 1107
BcnI CCSGG 1 cut(s) 100
BcoDI GTCTC 3 cut(s) 33, 795, 909
BfaI CTAG 4 cut(s) 590, 710, 839, 1085
BfmI CTRYAG 1 cut(s) 619
BfuAI ACCTGC 1 cut(s) 482
BisI GCNGC 1 cut(s) 192
BlsI GCNGC 1 cut(s) 193
Bme1390I CCNGG 3 cut(s) 100, 392, 1107
Bme18I GGWCC 1 cut(s) 96
BmeRI GACNNNNNGTC 1 cut(s) 46
BmgT120I GGNCC 1 cut(s) 96
BmiI GGNNCC 3 cut(s) 469, 763, 1111
BmrFI CCNGG 3 cut(s) 100, 392, 1107
BmsI GCATC 3 cut(s) 298, 627, 825
BpmI CTGGAG 1 cut(s) 1089
BpuMI CCSGG 1 cut(s) 100
BsaJI CCNNGG 1 cut(s) 391
BsaXI ACNNNNNCTCC 2 cut(s) 126, 156
Bse1I ACTGG 2 cut(s) 1077, 1171
BseBI CCWGG 2 cut(s) 392, 1107
BseDI CCNNGG 1 cut(s) 391
BseGI GGATG 4 cut(s) 515, 642, 925, 1033
BseMII CTCAG 3 cut(s) 668, 1069, 1127
BseNI ACTGG 2 cut(s) 1077, 1171
BseRI GAGGAG 2 cut(s) 1058, 1207
BseXI GCAGC 1 cut(s) 203
BshFI GGCC 3 cut(s) 390, 617, 1089
BshNI GGYRCC 2 cut(s) 467, 1109
BsiHKAI GWGCWC 2 cut(s) 567, 683
BsiSI CCGG 1 cut(s) 99
BsmAI GTCTC 3 cut(s) 33, 795, 909
BsmBI CGTCTC 1 cut(s) 33
BsmI GAATGC 1 cut(s) 271
BsnI GGCC 3 cut(s) 390, 617, 1089
Bsp1286I GDGCHC 2 cut(s) 567, 683
Bsp143I GATC 4 cut(s) 184, 583, 596, 920
BspACI CCGC 1 cut(s) 371
BspANI GGCC 3 cut(s) 390, 617, 1089
BspCNI CTCAG 3 cut(s) 669, 1068, 1128
BspLI GGNNCC 3 cut(s) 469, 763, 1111
BspMI ACCTGC 1 cut(s) 482
BspPI GGATC 2 cut(s) 591, 915
BspT107I GGYRCC 2 cut(s) 467, 1109
BsrI ACTGG 2 cut(s) 1077, 1171
BssECI CCNNGG 1 cut(s) 391
BssMI GATC 4 cut(s) 184, 583, 596, 920
Bst2UI CCWGG 2 cut(s) 392, 1107
Bst4CI ACNGT 6 cut(s) 157, 206, 721, 895, 902, 1154
BstAPI GCANNNNNTGC 1 cut(s) 733
BstC8I GCNNGC 1 cut(s) 868
BstDEI CTNAG 4 cut(s) 677, 932, 1055, 1136
BstF5I GGATG 4 cut(s) 515, 642, 925, 1033
BstHHI GCGC 1 cut(s) 1148
BstKTI GATC 4 cut(s) 187, 586, 599, 923
BstMAI GTCTC 3 cut(s) 33, 795, 909
BstMBI GATC 4 cut(s) 184, 583, 596, 920
BstMWI GCNNNNNNNGC 7 cut(s) 368, 410, 476, 646, 687, 733, 1095
BstNI CCWGG 2 cut(s) 392, 1107
BstNSI RCATGY 3 cut(s) 31, 334, 576
BstSCI CCNGG 3 cut(s) 98, 390, 1105
BstSFI CTRYAG 1 cut(s) 619
BstV1I GCAGC 1 cut(s) 203
BstX2I RGATCY 2 cut(s) 583, 920
BstYI RGATCY 2 cut(s) 583, 920
BsuRI GGCC 3 cut(s) 390, 617, 1089
BtsCI GGATG 4 cut(s) 515, 642, 925, 1033
BveI ACCTGC 1 cut(s) 482
Cac8I GCNNGC 1 cut(s) 868
CfoI GCGC 1 cut(s) 1148
Cfr13I GGNCC 1 cut(s) 96
Csp6I GTAC 4 cut(s) 215, 500, 991, 1110
CviQI GTAC 4 cut(s) 215, 500, 991, 1110
DdeI CTNAG 4 cut(s) 677, 932, 1055, 1136
DpnI GATC 4 cut(s) 186, 585, 598, 922
DpnII GATC 4 cut(s) 184, 583, 596, 920
DriI GACNNNNNGTC 1 cut(s) 46
Eam1105I GACNNNNNGTC 1 cut(s) 46
Ecl136II GAGCTC 1 cut(s) 681
Eco147I AGGCCT 2 cut(s) 617, 1089
Eco24I GRGCYC 1 cut(s) 683
Eco47I GGWCC 1 cut(s) 96
Eco53kI GAGCTC 1 cut(s) 681
Eco57I CTGAAG 1 cut(s) 771
EcoICRI GAGCTC 1 cut(s) 681
EcoRI GAATTC 1 cut(s) 55
EcoRII CCWGG 2 cut(s) 390, 1105
EcoT22I ATGCAT 1 cut(s) 578
EcoT38I GRGCYC 1 cut(s) 683
Esp3I CGTCTC 1 cut(s) 33
FauI CCCGC 1 cut(s) 364
Fnu4HI GCNGC 1 cut(s) 192
FokI GGATG 4 cut(s) 522, 649, 912, 1040
FriOI GRGCYC 1 cut(s) 683
Fsp4HI GCNGC 1 cut(s) 192
FspBI CTAG 4 cut(s) 590, 710, 839, 1085
FspI TGCGCA 1 cut(s) 1147
GlaI GCGC 1 cut(s) 1147
GluI GCNGC 1 cut(s) 192
GsuI CTGGAG 1 cut(s) 1089
HaeIII GGCC 3 cut(s) 390, 617, 1089
HapII CCGG 1 cut(s) 99
HhaI GCGC 1 cut(s) 1148
Hin6I GCGC 1 cut(s) 1146
HinP1I GCGC 1 cut(s) 1146
HindIII AAGCTT 1 cut(s) 659
HinfI GANTC 6 cut(s) 240, 453, 740, 1210, 1215, 1220
HpaII CCGG 1 cut(s) 99
HphI GGTGA 3 cut(s) 238, 544, 1277
Hpy166II GTNNAC 2 cut(s) 209, 898
Hpy188I TCNGA 4 cut(s) 184, 678, 800, 972
Hpy188III TCNNGA 3 cut(s) 325, 631, 912
Hpy8I GTNNAC 2 cut(s) 209, 898
HpyAV CCTTC 6 cut(s) 83, 87, 403, 428, 500, 1181
HpyCH4III ACNGT 6 cut(s) 157, 206, 721, 895, 902, 1154
HpyCH4IV ACGT 2 cut(s) 42, 993
HpyCH4V TGCA 8 cut(s) 191, 300, 491, 576, 808, 958, 1018, 1204
HpyF10VI GCNNNNNNNGC 7 cut(s) 368, 410, 476, 646, 687, 733, 1095
HpyF3I CTNAG 4 cut(s) 677, 932, 1055, 1136
HpySE526I ACGT 2 cut(s) 42, 993
HspAI GCGC 1 cut(s) 1146
KpnI GGTACC 1 cut(s) 1113
Kzo9I GATC 4 cut(s) 184, 583, 596, 920
LmnI GCTCC 4 cut(s) 134, 401, 562, 761
Lsp1109I GCAGC 1 cut(s) 203
LweI GCATC 3 cut(s) 298, 627, 825
MaeI CTAG 4 cut(s) 590, 710, 839, 1085
MaeII ACGT 2 cut(s) 42, 993
MaeIII GTNAC 2 cut(s) 23, 1162
MalI GATC 4 cut(s) 186, 585, 598, 922
MboI GATC 4 cut(s) 184, 583, 596, 920
MboII GAAGA 4 cut(s) 317, 352, 764, 840
MfeI CAATTG 1 cut(s) 1077
MflI RGATCY 2 cut(s) 583, 920
MhlI GDGCHC 2 cut(s) 567, 683
MluCI AATT 8 cut(s) 14, 55, 174, 700, 731, 981, 1077, 1173
MlyI GAGTC 1 cut(s) 1224
MmeI TCCRAC 3 cut(s) 12, 778, 804
MnlI CCTC 8 cut(s) 124, 507, 607, 627, 839, 1036, 1113, 1185
Mph1103I ATGCAT 1 cut(s) 578
MroXI GAANNNNTTC 1 cut(s) 438
MseI TTAA 6 cut(s) 201, 885, 984, 1128, 1172, 1276
MslI CAYNNNNRTG 3 cut(s) 530, 1007, 1013
MspI CCGG 1 cut(s) 99
MspR9I CCNGG 3 cut(s) 100, 392, 1107
MunI CAATTG 1 cut(s) 1077
Mva1269I GAATGC 1 cut(s) 271
MvaI CCWGG 2 cut(s) 392, 1107
MwoI GCNNNNNNNGC 7 cut(s) 368, 410, 476, 646, 687, 733, 1095
NciI CCSGG 1 cut(s) 100
NdeII GATC 4 cut(s) 184, 583, 596, 920
NlaIV GGNNCC 3 cut(s) 469, 763, 1111
NsbI TGCGCA 1 cut(s) 1147
NsiI ATGCAT 1 cut(s) 578
NspI RCATGY 3 cut(s) 31, 334, 576
PceI AGGCCT 2 cut(s) 617, 1089
PciI ACATGT 1 cut(s) 27
PctI GAATGC 1 cut(s) 271
PdmI GAANNNNTTC 1 cut(s) 438
PfeI GAWTC 5 cut(s) 240, 453, 740, 1210, 1220
PkrI GCNGC 1 cut(s) 193
PleI GAGTC 1 cut(s) 1223
PpsI GAGTC 1 cut(s) 1223
PscI ACATGT 1 cut(s) 27
Psp124BI GAGCTC 1 cut(s) 683
Psp6I CCWGG 2 cut(s) 390, 1105
PspGI CCWGG 2 cut(s) 390, 1105
PspN4I GGNNCC 3 cut(s) 469, 763, 1111
PspPI GGNCC 1 cut(s) 96
PsuI RGATCY 2 cut(s) 583, 920
RsaI GTAC 4 cut(s) 216, 501, 992, 1111
RsaNI GTAC 4 cut(s) 215, 500, 991, 1110
RseI CAYNNNNRTG 3 cut(s) 530, 1007, 1013
SacI GAGCTC 1 cut(s) 683
SaqAI TTAA 6 cut(s) 201, 885, 984, 1128, 1172, 1276
SatI GCNGC 1 cut(s) 192
Sau3AI GATC 4 cut(s) 184, 583, 596, 920
Sau96I GGNCC 1 cut(s) 96
SchI GAGTC 1 cut(s) 1224
ScrFI CCNGG 3 cut(s) 100, 392, 1107
SduI GDGCHC 2 cut(s) 567, 683
SfaNI GCATC 3 cut(s) 298, 627, 825
SfcI CTRYAG 1 cut(s) 619
SinI GGWCC 1 cut(s) 96
SmiMI CAYNNNNRTG 3 cut(s) 530, 1007, 1013
Sse9I AATT 8 cut(s) 14, 55, 174, 700, 731, 981, 1077, 1173
SseBI AGGCCT 2 cut(s) 617, 1089
SsiI CCGC 1 cut(s) 371
SspMI CTAG 4 cut(s) 590, 710, 839, 1085
SstI GAGCTC 1 cut(s) 683
StuI AGGCCT 2 cut(s) 617, 1089
StyD4I CCNGG 3 cut(s) 98, 390, 1105
TaaI ACNGT 6 cut(s) 157, 206, 721, 895, 902, 1154
TaiI ACGT 2 cut(s) 45, 996
TaqI TCGA 6 cut(s) 243, 442, 545, 630, 1213, 1218
TasI AATT 8 cut(s) 14, 55, 174, 700, 731, 981, 1077, 1173
TatI WGTACW 2 cut(s) 214, 499
TfiI GAWTC 5 cut(s) 240, 453, 740, 1210, 1220
Tru1I TTAA 6 cut(s) 201, 885, 984, 1128, 1172, 1276
Tru9I TTAA 6 cut(s) 201, 885, 984, 1128, 1172, 1276
TseI GCWGC 1 cut(s) 191
TspDTI ATGAA 4 cut(s) 245, 342, 616, 1044
VpaK11BI GGWCC 1 cut(s) 96
XapI RAATTY 2 cut(s) 55, 700
XceI RCATGY 3 cut(s) 31, 334, 576
XmnI GAANNNNTTC 1 cut(s) 438
XspI CTAG 4 cut(s) 590, 710, 839, 1085
Zsp2I ATGCAT 1 cut(s) 578
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.