Rorug04G0234200

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0011332
Physical Location & Seq
Forward (+)
39944475 .. 39947254
2780 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0234200.1

Sequence Viewer

Length: 1320 bp
ATGGCTGGGGCAGATGAATGGATACCCCGATTGGAGAATGAAGGTGAAGATCTTCCGAATTACGTACATCCCGATTACTTTACCTGCAAAGTATATCATGGTGGATACTTCGATCACTTAGAACACAAGTATGTCGGTGGAAGCATAAGCTACTACGATAATGTCGACAAGGACAAGATAAGTTTAACTGAGGTGGATGGGATTGTAAGGGGAATCAATCCTTCTTATGTTGGGAGAAAGATTGTTTACTATTACTCCATAGGGTCTAAGGAAGATGCAACCACCAAGCTGAATACTGACAGAGATGTGGTGATAATGTGCTGTTGTGTTCCAGAGATTAGGCTTGTGATCTTGTACCTTGACCACAAAGACTTGCATGGAGATGACTTTGAAAAAGAGGATGATATTTTCTTATATGAGCAAGAAATACTAGGTTTTTGGGATAGTCAAGCCGCCAGCACTGGGGTTGTCATAGAGGAGCTGCCTGATTCACCAAGGAAGCCTAAGTGTTTTGTGAAGATTGAAGAGCTCCCTCCTTCACCTCAAAAGCAGCATGTGAAGGCCAAAAGATATAAGGTTTGTGCTTCAAGGAAGCCTCTGCCTGCTTTGAAGATAACTGAGCATGAGGAAAAAATTCCAACTCAGACAAGTAGAGCTCCCAACATTGATCCATCTGATAAAGGAAAGAAGAAAGTGGAGTTGGTTGAAGAAGATGAGTTTGAAGATGATTTGGATGATGGTTTTCAAGATGAGCACATATATGAAGAAGATGAGACAGTTGTTGATGAAGAAGAGGGTGGGGATGGAGATGAGGAAGGCTCTGATGATGATGACTACAACCCAGCTAAGGATAATGATGAGCTACAGGATTTCAGGTTTCATGCCTTGAAACCAGGTGGAGTGAGAACTAGGGATATGAGGGTGACTCGTTGGTTAGCACCTCCAATTAGTTGGTTCAAGATTAACGTTGATGGTTCCTATCACCATGTCACTAAGACAGGAAGTTTTGTTGTAAGGGATTGGCAAGGCACTATGCATGCTGATGGTGGCTGTGAACTTTGCAGTGAGCAAGCTTTCCTGCCTGCTATTGTCGAAACTGACACACTGTTAGTGCAGCAGCAGTTGGTTAATCAGGATGGAGCTAATACGTCAATCTTGGGACGTATATATGAAGATTTAGGTGTATTGTTGGCTGCTAACCCAAATCTACGAGTTGTTCACACCAAAAGGGATGCAAATAAGGTGGCTCATCTTATGGCAGCATCTTGTATCTCAATTCCAAATGAGACTGCATTAGCAGCTGAAACTTGTAATCTGTAA

Protein Analysis

439

Amino Acids

49.57

Weight (kDa)

4.65

Isoelectric Point (pI)

39.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PB1-like PF26130 25 - 109 5.6e-12 PB1-like domain
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: OG0011332)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G13230
fragaria_vesca FvH4_4g22970 FvH4_4g22970
malus_domestica MD13G1127800.v1.1
prunus_persica Prupe.1G218200_v2.0.a1
pyrus_communis pycom13g11070 pycom16g10860 pycom16g10870
rosa_chinensis RchiOBHm_Chr4g0429241
rosa_laevigata RLG00000007086
rosa_multiflora Rmu_sc0000054.1_g000027
rosa_roxburghii Rroxscaffold_5G00370870
rosa_rugosa Rorug04G0234000 Rorug04G0234100 Rorug04G0234200 Rorug04G0234300 Rorug04G0234400
rosa_samantha Rh4AG290100 Rh4BG295800
rosa_wichuraiana Rw4G025120

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 92
AccI GTMKAC 1 cut(s) 165
AciI CCGC 1 cut(s) 453
AclI AACGTT 1 cut(s) 966
AclWI GGATC 1 cut(s) 662
AcsI RAATTY 1 cut(s) 633
AfaI GTAC 2 cut(s) 66, 356
AfiI CCNNNNNNNGG 2 cut(s) 462, 847
AgsI TTSAA 9 cut(s) 392, 524, 588, 610, 707, 722, 746, 889, 958
AjnI CCWGG 1 cut(s) 892
AjuI GAANNNNNNNTTGG 2 cut(s) 683, 715
Alw21I GWGCWC 3 cut(s) 531, 658, 756
Alw26I GTCTC 2 cut(s) 767, 1280
AlwI GGATC 1 cut(s) 662
AoxI GGCC 1 cut(s) 561
ApeKI GCWGC 7 cut(s) 481, 550, 1114, 1117, 1193, 1259, 1298
ApoI RAATTY 1 cut(s) 633
Asp700I GAANNNNTTC 2 cut(s) 51, 633
AsuHPI GGTGA 6 cut(s) 56, 322, 483, 531, 934, 974
BanII GRGCYC 2 cut(s) 531, 658
Bbv12I GWGCWC 3 cut(s) 531, 658, 756
BbvI GCAGC 7 cut(s) 468, 562, 1126, 1129, 1180, 1271, 1310
BccI CCATC 7 cut(s) 191, 679, 731, 797, 965, 1037, 1130
BciT130I CCWGG 1 cut(s) 894
BciVI GTATCC 2 cut(s) 15, 98
BcoDI GTCTC 2 cut(s) 767, 1280
BfaI CTAG 2 cut(s) 431, 909
BfmI CTRYAG 1 cut(s) 863
BfuAI ACCTGC 1 cut(s) 92
BfuI GTATCC 2 cut(s) 15, 98
BglII AGATCT 1 cut(s) 49
BisI GCNGC 8 cut(s) 453, 482, 551, 1115, 1118, 1194, 1260, 1299
BlsI GCNGC 8 cut(s) 454, 483, 552, 1116, 1119, 1195, 1261, 1300
Bme1390I CCNGG 1 cut(s) 894
BmiI GGNNCC 1 cut(s) 976
BmrFI CCNGG 1 cut(s) 894
BmrI ACTGGG 1 cut(s) 471
BmsI GCATC 3 cut(s) 265, 1222, 1271
BmuI ACTGGG 1 cut(s) 471
BplI GAGNNNNNCTC 4 cut(s) 803, 835, 910, 942
Bpu10I CCTNAGC 1 cut(s) 846
BsaAI YACGTR 1 cut(s) 64
BsaJI CCNNGG 1 cut(s) 494
BsaXI ACNNNNNCTCC 2 cut(s) 239, 269
Bsc4I CCNNNNNNNGG 2 cut(s) 462, 847
Bse1I ACTGG 1 cut(s) 466
BseBI CCWGG 1 cut(s) 894
BseDI CCNNGG 1 cut(s) 494
BseGI GGATG 7 cut(s) 67, 202, 406, 739, 808, 1141, 1237
BseLI CCNNNNNNNGG 2 cut(s) 462, 847
BseMII CTCAG 3 cut(s) 180, 609, 656
BseNI ACTGG 1 cut(s) 466
BseRI GAGGAG 1 cut(s) 491
BseXI GCAGC 7 cut(s) 468, 562, 1126, 1129, 1180, 1271, 1310
BseYI CCCAGC 2 cut(s) 5, 841
BsgI GTGCAG 1 cut(s) 1133
BshFI GGCC 1 cut(s) 563
BsiHKAI GWGCWC 3 cut(s) 531, 658, 756
BslFI GGGAC 1 cut(s) 1173
BslI CCNNNNNNNGG 2 cut(s) 462, 847
BsmAI GTCTC 2 cut(s) 767, 1280
BsmFI GGGAC 1 cut(s) 1173
BsnI GGCC 1 cut(s) 563
Bsp1286I GDGCHC 3 cut(s) 531, 658, 756
Bsp143I GATC 4 cut(s) 49, 112, 348, 667
BspACI CCGC 1 cut(s) 453
BspANI GGCC 1 cut(s) 563
BspCNI CTCAG 3 cut(s) 181, 610, 655
BspLI GGNNCC 1 cut(s) 976
BspMI ACCTGC 1 cut(s) 92
BspPI GGATC 1 cut(s) 662
BspQI GCTCTTC 1 cut(s) 519
BsrI ACTGG 1 cut(s) 466
BssECI CCNNGG 1 cut(s) 494
BssMI GATC 4 cut(s) 49, 112, 348, 667
BssT1I CCWWGG 1 cut(s) 494
Bst2UI CCWGG 1 cut(s) 894
Bst4CI ACNGT 2 cut(s) 778, 1107
Bst6I CTCTTC 2 cut(s) 519, 786
BstBAI YACGTR 1 cut(s) 64
BstC8I GCNNGC 5 cut(s) 457, 603, 1038, 1071, 1083
BstDEI CTNAG 8 cut(s) 118, 189, 267, 504, 618, 642, 846, 993
BstF5I GGATG 7 cut(s) 67, 202, 406, 739, 808, 1141, 1237
BstKTI GATC 4 cut(s) 52, 115, 351, 670
BstMAI GTCTC 2 cut(s) 767, 1280
BstMBI GATC 4 cut(s) 49, 112, 348, 667
BstMWI GCNNNNNNNGC 1 cut(s) 1298
BstNI CCWGG 1 cut(s) 894
BstNSI RCATGY 2 cut(s) 557, 1040
BstSCI CCNGG 1 cut(s) 892
BstSFI CTRYAG 1 cut(s) 863
BstSNI TACGTA 1 cut(s) 64
BstV1I GCAGC 7 cut(s) 468, 562, 1126, 1129, 1180, 1271, 1310
BstX2I RGATCY 1 cut(s) 49
BstXI CCANNNNNNTGG 1 cut(s) 951
BstYI RGATCY 1 cut(s) 49
BsuI GTATCC 2 cut(s) 15, 98
BsuRI GGCC 1 cut(s) 563
BtsCI GGATG 7 cut(s) 67, 202, 406, 739, 808, 1141, 1237
BtsI GCAGTG 1 cut(s) 1069
BtsIMutI CAGTG 3 cut(s) 459, 1069, 1103
BveI ACCTGC 1 cut(s) 92
Cac8I GCNNGC 5 cut(s) 457, 603, 1038, 1071, 1083
CsiI ACCWGGT 1 cut(s) 892
Csp6I GTAC 2 cut(s) 65, 355
CspCI CAANNNNNGTGG 2 cut(s) 1224, 1259
CviAII CATG 7 cut(s) 98, 377, 554, 623, 881, 986, 1037
CviQI GTAC 2 cut(s) 65, 355
DdeI CTNAG 8 cut(s) 118, 189, 267, 504, 618, 642, 846, 993
DpnI GATC 4 cut(s) 51, 114, 350, 669
DpnII GATC 4 cut(s) 49, 112, 348, 667
Eam1104I CTCTTC 2 cut(s) 519, 786
EarI CTCTTC 2 cut(s) 519, 786
Ecl136II GAGCTC 2 cut(s) 529, 656
Eco105I TACGTA 1 cut(s) 64
Eco130I CCWWGG 1 cut(s) 494
Eco24I GRGCYC 2 cut(s) 531, 658
Eco53kI GAGCTC 2 cut(s) 529, 656
EcoICRI GAGCTC 2 cut(s) 529, 656
EcoRII CCWGG 1 cut(s) 892
EcoT14I CCWWGG 1 cut(s) 494
EcoT22I ATGCAT 1 cut(s) 1038
EcoT38I GRGCYC 2 cut(s) 531, 658
ErhI CCWWGG 1 cut(s) 494
FaeI CATG 7 cut(s) 101, 380, 557, 626, 884, 989, 1040
FaqI GGGAC 1 cut(s) 1173
FatI CATG 7 cut(s) 97, 376, 553, 622, 880, 985, 1036
FblI GTMKAC 1 cut(s) 165
Fnu4HI GCNGC 8 cut(s) 453, 482, 551, 1115, 1118, 1194, 1260, 1299
FokI GGATG 7 cut(s) 54, 209, 413, 746, 815, 1148, 1244
FriOI GRGCYC 2 cut(s) 531, 658
Fsp4HI GCNGC 8 cut(s) 453, 482, 551, 1115, 1118, 1194, 1260, 1299
FspBI CTAG 2 cut(s) 431, 909
GluI GCNGC 8 cut(s) 453, 482, 551, 1115, 1118, 1194, 1260, 1299
GsaI CCCAGC 2 cut(s) 9, 845
HaeIII GGCC 1 cut(s) 563
Hin1II CATG 7 cut(s) 101, 380, 557, 626, 884, 989, 1040
HincII GTYRAC 1 cut(s) 166
HindII GTYRAC 1 cut(s) 166
HindIII AAGCTT 1 cut(s) 1071
HinfI GANTC 3 cut(s) 213, 488, 925
HphI GGTGA 6 cut(s) 56, 322, 483, 531, 934, 974
Hpy166II GTNNAC 4 cut(s) 166, 247, 1055, 1219
Hpy188I TCNGA 4 cut(s) 57, 645, 676, 823
Hpy188III TCNNGA 5 cut(s) 71, 332, 746, 958, 1133
Hpy8I GTNNAC 4 cut(s) 166, 247, 1055, 1219
HpyAV CCTTC 5 cut(s) 35, 231, 546, 553, 809
HpyCH4III ACNGT 2 cut(s) 778, 1107
HpyCH4IV ACGT 4 cut(s) 63, 966, 1148, 1162
HpyCH4V TGCA 8 cut(s) 87, 278, 376, 1036, 1062, 1114, 1235, 1292
HpyF10VI GCNNNNNNNGC 1 cut(s) 1298
HpyF3I CTNAG 8 cut(s) 118, 189, 267, 504, 618, 642, 846, 993
HpySE526I ACGT 4 cut(s) 63, 966, 1148, 1162
Hsp92II CATG 7 cut(s) 101, 380, 557, 626, 884, 989, 1040
Kzo9I GATC 4 cut(s) 49, 112, 348, 667
LguI GCTCTTC 1 cut(s) 519
LmnI GCTCC 4 cut(s) 478, 534, 661, 1139
Lsp1109I GCAGC 7 cut(s) 468, 562, 1126, 1129, 1180, 1271, 1310
LweI GCATC 3 cut(s) 265, 1222, 1271
MabI ACCWGGT 1 cut(s) 892
MaeI CTAG 2 cut(s) 431, 909
MaeII ACGT 4 cut(s) 63, 966, 1148, 1162
MaeIII GTNAC 2 cut(s) 922, 988
MalI GATC 4 cut(s) 51, 114, 350, 669
MboI GATC 4 cut(s) 49, 112, 348, 667
MflI RGATCY 1 cut(s) 49
MhlI GDGCHC 3 cut(s) 531, 658, 756
MluCI AATT 4 cut(s) 58, 633, 945, 1275
MlyI GAGTC 1 cut(s) 919
MmeI TCCRAC 1 cut(s) 662
Mph1103I ATGCAT 1 cut(s) 1038
MroXI GAANNNNTTC 2 cut(s) 51, 633
MseI TTAA 3 cut(s) 185, 963, 1128
MslI CAYNNNNRTG 4 cut(s) 129, 381, 759, 1041
MspA1I CMGCKG 1 cut(s) 1301
MspR9I CCNGG 1 cut(s) 894
MvaI CCWGG 1 cut(s) 894
MwoI GCNNNNNNNGC 1 cut(s) 1298
NdeII GATC 4 cut(s) 49, 112, 348, 667
NlaIII CATG 7 cut(s) 101, 380, 557, 626, 884, 989, 1040
NlaIV GGNNCC 1 cut(s) 976
NmuCI GTSAC 2 cut(s) 922, 988
NsiI ATGCAT 1 cut(s) 1038
NspI RCATGY 2 cut(s) 557, 1040
PaeI GCATGC 1 cut(s) 1040
PciSI GCTCTTC 1 cut(s) 519
PcsI WCGNNNNNNNCGW 2 cut(s) 69, 162
PdmI GAANNNNTTC 2 cut(s) 51, 633
PfeI GAWTC 2 cut(s) 213, 488
PkrI GCNGC 8 cut(s) 454, 483, 552, 1116, 1119, 1195, 1261, 1300
PleI GAGTC 1 cut(s) 919
PpsI GAGTC 1 cut(s) 919
Ppu21I YACGTR 1 cut(s) 64
Psp124BI GAGCTC 2 cut(s) 531, 658
Psp1406I AACGTT 1 cut(s) 966
Psp6I CCWGG 1 cut(s) 892
PspFI CCCAGC 2 cut(s) 5, 841
PspGI CCWGG 1 cut(s) 892
PspN4I GGNNCC 1 cut(s) 976
PsuI RGATCY 1 cut(s) 49
PvuII CAGCTG 1 cut(s) 1301
RsaI GTAC 2 cut(s) 66, 356
RsaNI GTAC 2 cut(s) 65, 355
RseI CAYNNNNRTG 4 cut(s) 129, 381, 759, 1041
SacI GAGCTC 2 cut(s) 531, 658
SalI GTCGAC 1 cut(s) 164
SapI GCTCTTC 1 cut(s) 519
SaqAI TTAA 3 cut(s) 185, 963, 1128
SatI GCNGC 8 cut(s) 453, 482, 551, 1115, 1118, 1194, 1260, 1299
Sau3AI GATC 4 cut(s) 49, 112, 348, 667
SchI GAGTC 1 cut(s) 919
ScrFI CCNGG 1 cut(s) 894
SduI GDGCHC 3 cut(s) 531, 658, 756
SexAI ACCWGGT 1 cut(s) 892
SfaNI GCATC 3 cut(s) 265, 1222, 1271
SfcI CTRYAG 1 cut(s) 863
SmiMI CAYNNNNRTG 4 cut(s) 129, 381, 759, 1041
SnaBI TACGTA 1 cut(s) 64
SphI GCATGC 1 cut(s) 1040
Sse9I AATT 4 cut(s) 58, 633, 945, 1275
SsiI CCGC 1 cut(s) 453
SspMI CTAG 2 cut(s) 431, 909
SstI GAGCTC 2 cut(s) 531, 658
StyD4I CCNGG 1 cut(s) 892
StyI CCWWGG 1 cut(s) 494
TaaI ACNGT 2 cut(s) 778, 1107
TaiI ACGT 4 cut(s) 66, 969, 1151, 1165
TaqI TCGA 3 cut(s) 111, 165, 1092
TasI AATT 4 cut(s) 58, 633, 945, 1275
TauI GCSGC 1 cut(s) 455
TfiI GAWTC 2 cut(s) 213, 488
Tru1I TTAA 3 cut(s) 185, 963, 1128
Tru9I TTAA 3 cut(s) 185, 963, 1128
TscAI CASTG 3 cut(s) 466, 1069, 1110
TseFI GTSAC 2 cut(s) 922, 988
TseI GCWGC 7 cut(s) 481, 550, 1114, 1117, 1193, 1259, 1298
Tsp45I GTSAC 2 cut(s) 922, 988
TspDTI ATGAA 6 cut(s) 30, 54, 777, 801, 869, 1185
TspRI CASTG 3 cut(s) 466, 1069, 1110
XapI RAATTY 1 cut(s) 633
XceI RCATGY 2 cut(s) 557, 1040
XmiI GTMKAC 1 cut(s) 165
XmnI GAANNNNTTC 2 cut(s) 51, 633
XspI CTAG 2 cut(s) 431, 909
Zsp2I ATGCAT 1 cut(s) 1038
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.