Rh4AG056200

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0016054
Physical Location & Seq
Forward (+)
11897073 .. 11899475
2403 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG056200.1

Sequence Viewer

Length: 1350 bp
ATGCATTCTTCCCTAACCTCTCAGCGCCTCAGACCCTTTCTTCTTCTTCATCTCCCCCACACTCAAACCCTCCTATTCTCCTCACTTCCTCACACTGCTCCCACCAAACCCATTTCAATTCCCAATCCCACAGACCCAAATCCTCAATCAAATTCACCAATCTACGACTACACCACAGTGCGTGAAACCCTTTCTTCTTACTGCAATGACTGGAAGAAAGCCCTCGACTTTTTCAACTGGGTTGAGACCCAGTGCCACTTCCAACACACCACCGAAACCTACAATCGAATGCTTGACATTCTCGGTAAGTACTTCGAGTTTGAGCTTTCTTGGGACTTGGTTCACAAAATGAAACAGAACCCAGATTCTGTTCCTGACCATACTACATTTCGTATAATGTTTAAGAGATATGTGTCTGCACATCTTGTAAAGGAAGCTATAGATACTTATAATAAGTTGGATGAGTTTAGTTTGAAGGATGAGACTTCTTATTGCAATCTTATTGATGCTCTTTGTGAGCATAAGCATGTGATTGAGGCCCAAGAGCTTTGCTCTTGGAAGAACAAAGAGTTGGGTTTTGATAAGAGTACTAAGCTGCATAATATAATTCTTCGGGGGTGGTCGAAAATGGGGTGGTGGGGAAAGTGTAGGGATTTTTGGGAAGAGATGGATAGGAGAGGTGTTTGTAAAGATTTGCATTCGTATTCGATATATATGGATATAATGTGTAAGAGTGGGAAGGCGTGGAAGGCTGTGAAGTTGTATAAGGAGGTGAAGAGGAAAGGGATCAAGCTGGATGTGGTGGCGTATAATACGGTTATTCGTGCCGTTGGTGATTCTGAGGGTGTTGATTTTGCAACTCGGATCTTGAGGGAGATGAAGGAATTGGGATGTGAACCTAATGCTGCGACGTATAATACGATTATAAAGCTTTTGTGCGAGAATATGAGATTCAGGGAGGCATTCTCAATGCTTCGAATAATGTCTAAGAACAGTTGTGGCCCGGACGTTATTACATACCAAATCCTTTTTAAGTATCTGGAGAAGCCGAATGAGATTCTTAGGCTGTTTGATAGGATGATTGAAAGTGGGGTTCAGCCGAGGATGGACACATATGTGATGATTATGAGGAAGTTTGGGAGATGGGGCTTCCTTAGACCGATGTTTATTGTGTGGCAGAAGATGGAAAAACTTGGGTGTAGTCCTAATGAGTCTGCTTACAATGCTTTAATAGATGCTCTGGTTGAAAAGGGTATGTTAGACATGGCTAGGAAGTACAATGAAGAGATGATAGCAAAGGGCCTTCCAGCTAGGCCAAGGGTGGAGTTGGGCACGAAACTGGTGGAGTAA

Protein Analysis

449

Amino Acids

52.61

Weight (kDa)

8.73

Isoelectric Point (pI)

36.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_2 PF13041 231 - 276 4.4e-09 PPR repeat family
PPR_long PF17177 238 - 368 1.3e-09 Pentacotripeptide-repeat region of PRORP
PPR_3 PF13812 254 - 312 9.3e-15 Pentatricopeptide repeat domain
PPR_2 PF13041 266 - 313 1.4e-12 PPR repeat family
PPR_1 PF12854 297 - 328 3.2e-09 PPR repeat
PPR_2 PF13041 301 - 346 1.5e-12 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0016054)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G80550
fragaria_vesca FvH4_4g04420 FvH4_4g04420
malus_domestica MD16G1225100.v1.1
prunus_persica Prupe.1G046400_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0394981
rosa_laevigata RLG00000009653
rosa_multiflora Rmu_sc0005802.1_g000031
rosa_roxburghii Rroxscaffold_5G00339960
rosa_rugosa Rorug03G0360300.1
rosa_samantha Rh4AG056200 Rh4BG054900 Rh4CG060800 Rh4DG052400
rosa_wichuraiana Rw4G004500

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 450, 926
AclWI GGATC 2 cut(s) 794, 872
AcsI RAATTY 1 cut(s) 151
AfaI GTAC 3 cut(s) 311, 589, 1277
AgsI TTSAA 5 cut(s) 117, 235, 475, 1085, 1247
AjuI GAANNNNNNNTTGG 2 cut(s) 554, 586
AleI CACNNNNGTG 2 cut(s) 176, 1115
AluBI AGCT 7 cut(s) 325, 437, 547, 595, 793, 931, 1310
AluI AGCT 7 cut(s) 325, 437, 547, 595, 793, 931, 1310
Alw26I GTCTC 2 cut(s) 239, 476
AlwI GGATC 2 cut(s) 794, 872
AlwNI CAGNNNCTG 1 cut(s) 368
AoxI GGCC 4 cut(s) 537, 1000, 1300, 1313
ApeKI GCWGC 2 cut(s) 595, 905
ApoI RAATTY 1 cut(s) 151
AspLEI GCGC 1 cut(s) 27
AspS9I GGNCC 3 cut(s) 538, 1001, 1300
AsuC2I CCSGG 1 cut(s) 1004
AsuHPI GGTGA 3 cut(s) 147, 784, 845
AsuII TTCGAA 1 cut(s) 976
BaeGI GKGCMC 1 cut(s) 1334
BbvI GCAGC 2 cut(s) 582, 892
BccI CCATC 4 cut(s) 661, 1099, 1137, 1177
BceAI ACGGC 1 cut(s) 812
BcnI CCSGG 1 cut(s) 1004
BcoDI GTCTC 2 cut(s) 239, 476
BfaI CTAG 2 cut(s) 1269, 1311
BfmI CTRYAG 1 cut(s) 438
BfoI RGCGCY 1 cut(s) 28
BisI GCNGC 2 cut(s) 596, 906
BlsI GCNGC 2 cut(s) 597, 907
BmcAI AGTACT 2 cut(s) 311, 589
Bme1390I CCNGG 1 cut(s) 1004
BmgT120I GGNCC 3 cut(s) 538, 1001, 1300
BmrFI CCNGG 1 cut(s) 1004
BmrI ACTGGG 2 cut(s) 244, 247
BmsI GCATC 2 cut(s) 496, 1225
BmuI ACTGGG 2 cut(s) 244, 247
BplI GAGNNNNNCTC 4 cut(s) 536, 568, 950, 982
BpmI CTGGAG 1 cut(s) 1061
Bpu14I TTCGAA 1 cut(s) 976
BpuEI CTTGAG 1 cut(s) 889
BpuMI CCSGG 1 cut(s) 1004
BsaI GGTCTC 1 cut(s) 239
BsaJI CCNNGG 2 cut(s) 1100, 1316
Bse1I ACTGG 4 cut(s) 215, 242, 250, 1344
Bse3DI GCAATG 1 cut(s) 211
BseDI CCNNGG 2 cut(s) 1100, 1316
BseGI GGATG 6 cut(s) 466, 484, 802, 896, 1083, 1110
BseMI GCAATG 1 cut(s) 211
BseMII CTCAG 3 cut(s) 35, 43, 831
BseNI ACTGG 4 cut(s) 215, 242, 250, 1344
BseRI GAGGAG 1 cut(s) 70
BseSI GKGCMC 1 cut(s) 1334
BseXI GCAGC 2 cut(s) 582, 892
BsgI GTGCAG 1 cut(s) 402
BshFI GGCC 4 cut(s) 539, 1002, 1302, 1315
BsiSI CCGG 1 cut(s) 1004
BslFI GGGAC 1 cut(s) 347
BsmAI GTCTC 2 cut(s) 239, 476
BsmFI GGGAC 1 cut(s) 347
BsmI GAATGC 4 cut(s) 4, 294, 697, 962
BsnI GGCC 4 cut(s) 539, 1002, 1302, 1315
Bso31I GGTCTC 1 cut(s) 239
Bsp119I TTCGAA 1 cut(s) 976
Bsp1286I GDGCHC 1 cut(s) 1334
Bsp143I GATC 2 cut(s) 786, 864
BspANI GGCC 4 cut(s) 539, 1002, 1302, 1315
BspCNI CTCAG 3 cut(s) 34, 42, 832
BspPI GGATC 2 cut(s) 794, 872
BspT104I TTCGAA 1 cut(s) 976
BspTNI GGTCTC 1 cut(s) 239
BsrDI GCAATG 1 cut(s) 211
BsrI ACTGG 4 cut(s) 215, 242, 250, 1344
BssECI CCNNGG 2 cut(s) 1100, 1316
BssMI GATC 2 cut(s) 786, 864
BssT1I CCWWGG 1 cut(s) 1316
Bst4CI ACNGT 3 cut(s) 178, 817, 995
Bst6I CTCTTC 3 cut(s) 657, 770, 1278
BstBI TTCGAA 1 cut(s) 976
BstDEI CTNAG 7 cut(s) 21, 29, 591, 840, 987, 1061, 1154
BstF5I GGATG 6 cut(s) 466, 484, 802, 896, 1083, 1110
BstH2I RGCGCY 1 cut(s) 28
BstHHI GCGC 1 cut(s) 27
BstKTI GATC 2 cut(s) 789, 867
BstMAI GTCTC 2 cut(s) 239, 476
BstMBI GATC 2 cut(s) 786, 864
BstMWI GCNNNNNNNGC 2 cut(s) 749, 1223
BstNSI RCATGY 1 cut(s) 530
BstSCI CCNGG 1 cut(s) 1002
BstSFI CTRYAG 1 cut(s) 438
BstSLI GKGCMC 1 cut(s) 1334
BstV1I GCAGC 2 cut(s) 582, 892
BstX2I RGATCY 1 cut(s) 864
BstYI RGATCY 1 cut(s) 864
BsuRI GGCC 4 cut(s) 539, 1002, 1302, 1315
BtsCI GGATG 6 cut(s) 466, 484, 802, 896, 1083, 1110
BtsI GCAGTG 1 cut(s) 93
BtsIMutI CAGTG 3 cut(s) 93, 183, 257
CaiI CAGNNNCTG 1 cut(s) 368
CfoI GCGC 1 cut(s) 27
Cfr13I GGNCC 3 cut(s) 538, 1001, 1300
Csp6I GTAC 3 cut(s) 310, 588, 1276
CviAII CATG 2 cut(s) 527, 1264
CviQI GTAC 3 cut(s) 310, 588, 1276
DdeI CTNAG 7 cut(s) 21, 29, 591, 840, 987, 1061, 1154
DpnI GATC 2 cut(s) 788, 866
DpnII GATC 2 cut(s) 786, 864
Eam1104I CTCTTC 3 cut(s) 657, 770, 1278
EarI CTCTTC 3 cut(s) 657, 770, 1278
Eco130I CCWWGG 1 cut(s) 1316
Eco31I GGTCTC 1 cut(s) 239
EcoO109I RGGNCCY 1 cut(s) 1300
EcoT14I CCWWGG 1 cut(s) 1316
EcoT22I ATGCAT 1 cut(s) 6
ErhI CCWWGG 1 cut(s) 1316
FaeI CATG 2 cut(s) 530, 1267
FaqI GGGAC 1 cut(s) 347
FatI CATG 2 cut(s) 526, 1263
FauNDI CATATG 1 cut(s) 1114
Fnu4HI GCNGC 2 cut(s) 596, 906
FokI GGATG 6 cut(s) 473, 491, 809, 903, 1090, 1117
Fsp4HI GCNGC 2 cut(s) 596, 906
FspBI CTAG 2 cut(s) 1269, 1311
GlaI GCGC 1 cut(s) 26
GluI GCNGC 2 cut(s) 596, 906
GsuI CTGGAG 1 cut(s) 1061
HaeII RGCGCY 1 cut(s) 28
HaeIII GGCC 4 cut(s) 539, 1002, 1302, 1315
HapII CCGG 1 cut(s) 1004
HhaI GCGC 1 cut(s) 27
Hin1II CATG 2 cut(s) 530, 1267
Hin6I GCGC 1 cut(s) 25
HinP1I GCGC 1 cut(s) 25
HindIII AAGCTT 1 cut(s) 929
HinfI GANTC 5 cut(s) 365, 836, 951, 1057, 1211
HpaII CCGG 1 cut(s) 1004
HphI GGTGA 3 cut(s) 147, 784, 845
Hpy166II GTNNAC 2 cut(s) 343, 896
Hpy188I TCNGA 3 cut(s) 32, 841, 864
Hpy188III TCNNGA 3 cut(s) 374, 868, 1040
Hpy8I GTNNAC 2 cut(s) 343, 896
Hpy99I CGWCG 1 cut(s) 913
HpyAV CCTTC 5 cut(s) 469, 733, 742, 874, 1313
HpyCH4III ACNGT 3 cut(s) 178, 817, 995
HpyCH4IV ACGT 2 cut(s) 911, 1008
HpyCH4V TGCA 7 cut(s) 4, 204, 419, 495, 598, 697, 857
HpyF10VI GCNNNNNNNGC 2 cut(s) 749, 1223
HpyF3I CTNAG 7 cut(s) 21, 29, 591, 840, 987, 1061, 1154
HpySE526I ACGT 2 cut(s) 911, 1008
Hsp92II CATG 2 cut(s) 530, 1267
HspAI GCGC 1 cut(s) 25
Kzo9I GATC 2 cut(s) 786, 864
LmnI GCTCC 1 cut(s) 103
Lsp1109I GCAGC 2 cut(s) 582, 892
LweI GCATC 2 cut(s) 496, 1225
MaeI CTAG 2 cut(s) 1269, 1311
MaeII ACGT 2 cut(s) 911, 1008
MalI GATC 2 cut(s) 788, 866
MboI GATC 2 cut(s) 786, 864
MflI RGATCY 1 cut(s) 864
MhlI GDGCHC 1 cut(s) 1334
MluCI AATT 4 cut(s) 117, 151, 606, 884
MlyI GAGTC 1 cut(s) 1220
MmeI TCCRAC 2 cut(s) 286, 438
Mph1103I ATGCAT 1 cut(s) 6
MseI TTAA 3 cut(s) 402, 1032, 1229
MslI CAYNNNNRTG 3 cut(s) 176, 525, 1115
MspI CCGG 1 cut(s) 1004
MspR9I CCNGG 1 cut(s) 1004
Mva1269I GAATGC 4 cut(s) 4, 294, 697, 962
MwoI GCNNNNNNNGC 2 cut(s) 749, 1223
NciI CCSGG 1 cut(s) 1004
NdeI CATATG 1 cut(s) 1114
NdeII GATC 2 cut(s) 786, 864
NlaIII CATG 2 cut(s) 530, 1267
NmeAIII GCCGAG 1 cut(s) 1125
NsiI ATGCAT 1 cut(s) 6
NspI RCATGY 1 cut(s) 530
NspV TTCGAA 1 cut(s) 976
OliI CACNNNNGTG 2 cut(s) 176, 1115
PcsI WCGNNNNNNNCGW 1 cut(s) 917
PctI GAATGC 4 cut(s) 4, 294, 697, 962
PfeI GAWTC 4 cut(s) 365, 836, 951, 1057
PkrI GCNGC 2 cut(s) 597, 907
PleI GAGTC 1 cut(s) 1219
PpsI GAGTC 1 cut(s) 1219
PsiI TTATAA 2 cut(s) 450, 926
PspPI GGNCC 3 cut(s) 538, 1001, 1300
PstNI CAGNNNCTG 1 cut(s) 368
PsuI RGATCY 1 cut(s) 864
RsaI GTAC 3 cut(s) 311, 589, 1277
RsaNI GTAC 3 cut(s) 310, 588, 1276
RseI CAYNNNNRTG 3 cut(s) 176, 525, 1115
SaqAI TTAA 3 cut(s) 402, 1032, 1229
SatI GCNGC 2 cut(s) 596, 906
Sau3AI GATC 2 cut(s) 786, 864
Sau96I GGNCC 3 cut(s) 538, 1001, 1300
ScaI AGTACT 2 cut(s) 311, 589
SchI GAGTC 1 cut(s) 1220
ScrFI CCNGG 1 cut(s) 1004
SduI GDGCHC 1 cut(s) 1334
SfaNI GCATC 2 cut(s) 496, 1225
SfcI CTRYAG 1 cut(s) 438
SfuI TTCGAA 1 cut(s) 976
SmiMI CAYNNNNRTG 3 cut(s) 176, 525, 1115
SmlI CTYRAG 1 cut(s) 868
SmoI CTYRAG 1 cut(s) 868
Sse9I AATT 4 cut(s) 117, 151, 606, 884
SspMI CTAG 2 cut(s) 1269, 1311
StyD4I CCNGG 1 cut(s) 1002
StyI CCWWGG 1 cut(s) 1316
TaaI ACNGT 3 cut(s) 178, 817, 995
TaiI ACGT 2 cut(s) 914, 1011
TaqI TCGA 6 cut(s) 225, 286, 315, 623, 707, 976
TaqII GACCGA 1 cut(s) 1174
TasI AATT 4 cut(s) 117, 151, 606, 884
TatI WGTACW 3 cut(s) 309, 587, 1275
TfiI GAWTC 4 cut(s) 365, 836, 951, 1057
Tru1I TTAA 3 cut(s) 402, 1032, 1229
Tru9I TTAA 3 cut(s) 402, 1032, 1229
TscAI CASTG 3 cut(s) 100, 183, 257
TseI GCWGC 2 cut(s) 595, 905
TspDTI ATGAA 4 cut(s) 38, 365, 893, 1296
TspRI CASTG 3 cut(s) 100, 183, 257
XapI RAATTY 1 cut(s) 151
XceI RCATGY 1 cut(s) 530
XspI CTAG 2 cut(s) 1269, 1311
ZrmI AGTACT 2 cut(s) 311, 589
Zsp2I ATGCAT 1 cut(s) 6
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.