Rh4AG108800

Pentatricopeptide repeat-containing protein At5g66520-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr4A
OG0005202
Physical Location & Seq
Reverse (-)
23614425 .. 23615813
1389 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG108800.1

Sequence Viewer

Length: 1389 bp
ATGGTCTGGATTGATGTCATCGGTCTATACGACGTGTATTTGATGATTGGTTCCCTGTTTTTACCACACTCTGAAAAGGGTCTTTCTGTTTTTACCAAAGTGAGAAGGATTGGCGCTGACCCAAATGCTCGAACTTTCACAAGTTTGGTTAAAGCTTGTGTTGGGGTTTCTTTGCTTGATCAGATATATGGTCAGATAATGAAGTCTGGACATGGGTGTGATGTTTATGTTACTAGCTCAGTTATTAGTGTGTACTGTAAATTGAGAGCTGTGGAATTTGCTCGGAGAGTGTTTGATGAAAGTTTGGATAGGAATGTGGTGTGTTGGACTAGTCTTGTTAGTGGGTACTGTGGCAATGGGTTGGTTGATGATGCCCGTGACCTGTTCGATAAAATGCCTGAGAGAAATGATGTGTCTTACAGTGCAATGGTTTCGGGTTATGTTCAGAATGCTTGTTTCAACAAAGCTATTGATTTGTTTCGTGATTTCAAGCGTCGTCGTGCGAATGTGAGGTTGAAAGAGTCTCTTTTGGTTAGTGTTCTTAATGCCTGTGCTTCTGTGGGTGCATTCGAGGAAGGGAAGTGGATTCAGATGTATTTGGATGACCATGGTTTTGAGTATGGACTTGAGCTCGGTACGGCAGGAATAGATTTTTATGCAAAATGTGGATTCATTAAAGATGCTAAAGAGATATTGGATAAGATGCCGCGTAAAGATGTAACTACTTGGAGTGCTATGATCATGGGATATGCTATTAATGGTGAGAATGATACAGGGCTTGAACTTTTTGCTGAAATGGAAACGAAGGGCCCTAAACCAGATGCTGTGACATTTGTTGGAGTTCTCACTGCATGTAATCACAAAACTCTGGTAAATGAAGCATGGCGAGTATTGGGACGTATGAGTAAAATTTATAGCATTGCTCCTGAGATTGAGCACTATGGGTGCATGGTTGATCTCTTGGCCCGTGCTGGGCGAGTGAATGAGGCAGAGATATTGATAAGAAGTATGGTAATGGAACCAGACGGAGCTATATGGGGGTCTTTACTTAATGGGTGTCTGATACATGGCCATTTTGAGTTAGCCGGTAAGGTTGGGAAGCTTCTCATTCAATTAGAGCCTCAACATAGTGGAAGGTATGTTCTTTTAGCGAACATGTATGCCAAAATGAAAAACTGGGAAGATGTGTTGAGGCTAAGGAAAATGATGAAGGATAGAGAGGTAGTTTCAATTTCTGCTTGGAGTTTCATTGAGATTGATGGTGTTGTGCATAAATTCTTAGCCAATGATAAGTCTCATTCTCATTCAAGAAGTATATACCAAACATTAAGTCAACTAAGCATGGAACTCGAAAGTTTTTCCAATGCCAATGATTCTTTGCTATTGTAA
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
PPR PPR_2

Protein Analysis

462

Amino Acids

51.8

Weight (kDa)

6.29

Isoelectric Point (pI)

36.7

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_1 PF12854 103 - 132 2.4e-09 PPR repeat
PPR_2 PF13041 104 - 136 3.2e-07 PPR repeat family
PPR PF01535 107 - 136 6.8e-08 PPR repeat
PPR_2 PF13041 238 - 285 6.2e-09 PPR repeat family
E_motif PF20431 357 - 408 6e-11 E motif
Eplus_motif PF20430 423 - 449 3.8e-07 E+ motif
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

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccII CGCG 1 cut(s) 709
AciI CCGC 1 cut(s) 707
AcoI YGGCCR 1 cut(s) 1069
AcsI RAATTY 3 cut(s) 275, 909, 1274
AfaI GTAC 3 cut(s) 254, 347, 637
AfiI CCNNNNNNNGG 1 cut(s) 972
AflIII ACRYGT 2 cut(s) 33, 1155
AgsI TTSAA 7 cut(s) 460, 490, 517, 782, 1112, 1230, 1308
AhlI ACTAGT 1 cut(s) 329
AjiI CACGTC 1 cut(s) 34
AloI GAACNNNNNNTCC 2 cut(s) 1125, 1157
AluBI AGCT 7 cut(s) 155, 237, 269, 467, 631, 1031, 1102
AluI AGCT 7 cut(s) 155, 237, 269, 467, 631, 1031, 1102
Alw21I GWGCWC 2 cut(s) 633, 939
Alw26I GTCTC 2 cut(s) 528, 1299
AlwNI CAGNNNCTG 1 cut(s) 824
AoxI GGCC 3 cut(s) 808, 963, 1069
ApaI GGGCCC 1 cut(s) 812
ApoI RAATTY 3 cut(s) 275, 909, 1274
ArsI GACNNNNNNTTYG 4 cut(s) 596, 628, 1315, 1347
AseI ATTAAT 1 cut(s) 756
AspLEI GCGC 1 cut(s) 116
AspS9I GGNCC 3 cut(s) 808, 809, 964
AsuHPI GGTGA 1 cut(s) 773
BaeGI GKGCMC 1 cut(s) 812
BalI TGGCCA 1 cut(s) 1071
BanII GRGCYC 2 cut(s) 633, 812
Bbv12I GWGCWC 2 cut(s) 633, 939
BccI CCATC 1 cut(s) 1253
BceAI ACGGC 1 cut(s) 654
BcgI CGANNNNNNTGC 4 cut(s) 414, 448, 1330, 1364
BclI TGATCA 2 cut(s) 178, 738
BcoDI GTCTC 2 cut(s) 528, 1299
BcuI ACTAGT 1 cut(s) 329
BfaI CTAG 2 cut(s) 234, 330
BfoI RGCGCY 1 cut(s) 117
BisI GCNGC 1 cut(s) 707
BlsI GCNGC 1 cut(s) 708
BmgBI CACGTC 1 cut(s) 34
BmgT120I GGNCC 3 cut(s) 808, 809, 964
BmiI GGNNCC 3 cut(s) 52, 810, 1020
BmrI ACTGGG 1 cut(s) 1186
BmsI GCATC 4 cut(s) 361, 670, 693, 811
BmuI ACTGGG 1 cut(s) 1186
Bpu10I CCTNAGC 1 cut(s) 1196
BpuEI CTTGAG 1 cut(s) 647
BsaJI CCNNGG 1 cut(s) 607
Bsc4I CCNNNNNNNGG 1 cut(s) 972
Bse118I RCCGGY 1 cut(s) 1085
Bse1I ACTGG 1 cut(s) 1181
Bse3DI GCAATG 3 cut(s) 361, 432, 918
BseDI CCNNGG 1 cut(s) 607
BseGI GGATG 1 cut(s) 607
BseLI CCNNNNNNNGG 1 cut(s) 972
BseMI GCAATG 3 cut(s) 361, 432, 918
BseMII CTCAG 3 cut(s) 252, 390, 918
BseNI ACTGG 1 cut(s) 1181
BseSI GKGCMC 1 cut(s) 812
BseYI CCCAGC 1 cut(s) 971
Bsh1236I CGCG 1 cut(s) 709
BshFI GGCC 3 cut(s) 810, 965, 1071
BsiHKAI GWGCWC 2 cut(s) 633, 939
BsiSI CCGG 1 cut(s) 1086
BslFI GGGAC 1 cut(s) 909
BslI CCNNNNNNNGG 1 cut(s) 972
BsmAI GTCTC 2 cut(s) 528, 1299
BsmFI GGGAC 1 cut(s) 909
BsmI GAATGC 2 cut(s) 454, 566
BsnI GGCC 3 cut(s) 810, 965, 1071
Bsp120I GGGCCC 1 cut(s) 808
Bsp1286I GDGCHC 3 cut(s) 633, 812, 939
Bsp143I GATC 3 cut(s) 178, 738, 955
Bsp19I CCATGG 1 cut(s) 607
BspACI CCGC 1 cut(s) 707
BspANI GGCC 3 cut(s) 810, 965, 1071
BspCNI CTCAG 3 cut(s) 251, 391, 919
BspFNI CGCG 1 cut(s) 709
BspLI GGNNCC 3 cut(s) 52, 810, 1020
BsrDI GCAATG 3 cut(s) 361, 432, 918
BsrFI RCCGGY 1 cut(s) 1085
BsrI ACTGG 1 cut(s) 1181
BssAI RCCGGY 1 cut(s) 1085
BssECI CCNNGG 1 cut(s) 607
BssMI GATC 3 cut(s) 178, 738, 955
BssT1I CCWWGG 1 cut(s) 607
Bst4CI ACNGT 3 cut(s) 257, 350, 422
BstDEI CTNAG 6 cut(s) 238, 399, 927, 1196, 1279, 1337
BstDSI CCRYGG 1 cut(s) 607
BstF5I GGATG 1 cut(s) 607
BstFNI CGCG 1 cut(s) 709
BstH2I RGCGCY 1 cut(s) 117
BstHHI GCGC 1 cut(s) 116
BstKTI GATC 3 cut(s) 181, 741, 958
BstMAI GTCTC 2 cut(s) 528, 1299
BstMBI GATC 3 cut(s) 178, 738, 955
BstNSI RCATGY 2 cut(s) 855, 1159
BstSLI GKGCMC 1 cut(s) 812
BstUI CGCG 1 cut(s) 709
BsuRI GGCC 3 cut(s) 810, 965, 1071
BtgI CCRYGG 1 cut(s) 607
BtrI CACGTC 1 cut(s) 34
BtsCI GGATG 1 cut(s) 607
BtsI GCAGTG 1 cut(s) 846
BtsIMutI CAGTG 2 cut(s) 427, 846
CaiI CAGNNNCTG 1 cut(s) 824
CfoI GCGC 1 cut(s) 116
Cfr10I RCCGGY 1 cut(s) 1085
Cfr13I GGNCC 3 cut(s) 808, 809, 964
CseI GACGC 1 cut(s) 482
Csp6I GTAC 3 cut(s) 253, 346, 636
CviAII CATG 9 cut(s) 212, 608, 742, 852, 882, 949, 1067, 1156, 1342
CviQI GTAC 3 cut(s) 253, 346, 636
DdeI CTNAG 6 cut(s) 238, 399, 927, 1196, 1279, 1337
DpnI GATC 3 cut(s) 180, 740, 957
DpnII GATC 3 cut(s) 178, 738, 955
EaeI YGGCCR 1 cut(s) 1069
Ecl136II GAGCTC 1 cut(s) 631
Eco130I CCWWGG 1 cut(s) 607
Eco24I GRGCYC 2 cut(s) 633, 812
Eco53kI GAGCTC 1 cut(s) 631
EcoICRI GAGCTC 1 cut(s) 631
EcoO109I RGGNCCY 2 cut(s) 808, 809
EcoT14I CCWWGG 1 cut(s) 607
EcoT38I GRGCYC 2 cut(s) 633, 812
ErhI CCWWGG 1 cut(s) 607
FaeI CATG 9 cut(s) 215, 611, 745, 855, 885, 952, 1070, 1159, 1345
FalI AAGNNNNNCTT 2 cut(s) 510, 542
FaqI GGGAC 1 cut(s) 909
FatI CATG 9 cut(s) 211, 607, 741, 851, 881, 948, 1066, 1155, 1341
FbaI TGATCA 2 cut(s) 178, 738
Fnu4HI GCNGC 1 cut(s) 707
FokI GGATG 1 cut(s) 614
FriOI GRGCYC 2 cut(s) 633, 812
Fsp4HI GCNGC 1 cut(s) 707
FspBI CTAG 2 cut(s) 234, 330
GlaI GCGC 1 cut(s) 115
GluI GCNGC 1 cut(s) 707
GsaI CCCAGC 1 cut(s) 975
HaeII RGCGCY 1 cut(s) 117
HaeIII GGCC 3 cut(s) 810, 965, 1071
HapII CCGG 1 cut(s) 1086
HgaI GACGC 1 cut(s) 482
HhaI GCGC 1 cut(s) 116
Hin1II CATG 9 cut(s) 215, 611, 745, 855, 885, 952, 1070, 1159, 1345
Hin6I GCGC 1 cut(s) 114
HinP1I GCGC 1 cut(s) 114
HincII GTYRAC 1 cut(s) 1334
HindII GTYRAC 1 cut(s) 1334
HindIII AAGCTT 2 cut(s) 153, 1100
HinfI GANTC 4 cut(s) 521, 586, 669, 1373
HpaII CCGG 1 cut(s) 1086
HphI GGTGA 1 cut(s) 773
Hpy166II GTNNAC 2 cut(s) 253, 1334
Hpy188I TCNGA 7 cut(s) 73, 183, 195, 285, 447, 591, 1062
Hpy188III TCNNGA 5 cut(s) 7, 207, 482, 926, 1308
Hpy8I GTNNAC 2 cut(s) 253, 1334
Hpy99I CGWCG 3 cut(s) 35, 498, 501
HpyAV CCTTC 5 cut(s) 99, 569, 799, 1128, 1204
HpyCH4III ACNGT 3 cut(s) 257, 350, 422
HpyCH4IV ACGT 2 cut(s) 33, 898
HpyCH4V TGCA 6 cut(s) 425, 566, 659, 851, 948, 1270
HpyF3I CTNAG 6 cut(s) 238, 399, 927, 1196, 1279, 1337
HpySE526I ACGT 2 cut(s) 33, 898
Hsp92II CATG 9 cut(s) 215, 611, 745, 855, 885, 952, 1070, 1159, 1345
HspAI GCGC 1 cut(s) 114
Ksp22I TGATCA 2 cut(s) 178, 738
Kzo9I GATC 3 cut(s) 178, 738, 955
LmnI GCTCC 2 cut(s) 928, 1028
LweI GCATC 4 cut(s) 361, 670, 693, 811
MaeI CTAG 2 cut(s) 234, 330
MaeII ACGT 2 cut(s) 33, 898
MaeIII GTNAC 4 cut(s) 229, 377, 718, 826
MalI GATC 3 cut(s) 180, 740, 957
MboI GATC 3 cut(s) 178, 738, 955
MboII GAAGA 1 cut(s) 1193
MhlI GDGCHC 3 cut(s) 633, 812, 939
MlsI TGGCCA 1 cut(s) 1071
MluCI AATT 6 cut(s) 260, 275, 909, 1112, 1230, 1274
MluNI TGGCCA 1 cut(s) 1071
MlyI GAGTC 1 cut(s) 530
MmeI TCCRAC 2 cut(s) 305, 817
MnlI CCTC 6 cut(s) 504, 565, 979, 1131, 1185, 1213
Mox20I TGGCCA 1 cut(s) 1071
MscI TGGCCA 1 cut(s) 1071
MseI TTAA 6 cut(s) 150, 543, 675, 756, 1050, 1328
MslI CAYNNNNRTG 1 cut(s) 216
Msp20I TGGCCA 1 cut(s) 1071
MspI CCGG 1 cut(s) 1086
Mva1269I GAATGC 2 cut(s) 454, 566
MvnI CGCG 1 cut(s) 709
NcoI CCATGG 1 cut(s) 607
NdeII GATC 3 cut(s) 178, 738, 955
NlaIII CATG 9 cut(s) 215, 611, 745, 855, 885, 952, 1070, 1159, 1345
NlaIV GGNNCC 3 cut(s) 52, 810, 1020
NmuCI GTSAC 2 cut(s) 377, 826
NspI RCATGY 2 cut(s) 855, 1159
PciI ACATGT 1 cut(s) 1155
PcsI WCGNNNNNNNCGW 1 cut(s) 27
PctI GAATGC 2 cut(s) 454, 566
PfeI GAWTC 3 cut(s) 586, 669, 1373
PkrI GCNGC 1 cut(s) 708
PleI GAGTC 1 cut(s) 529
PpsI GAGTC 1 cut(s) 529
PscI ACATGT 1 cut(s) 1155
PshBI ATTAAT 1 cut(s) 756
Psp124BI GAGCTC 1 cut(s) 633
PspFI CCCAGC 1 cut(s) 971
PspN4I GGNNCC 3 cut(s) 52, 810, 1020
PspOMI GGGCCC 1 cut(s) 808
PspPI GGNCC 3 cut(s) 808, 809, 964
PstNI CAGNNNCTG 1 cut(s) 824
RsaI GTAC 3 cut(s) 254, 347, 637
RsaNI GTAC 3 cut(s) 253, 346, 636
RseI CAYNNNNRTG 1 cut(s) 216
SacI GAGCTC 1 cut(s) 633
SaqAI TTAA 6 cut(s) 150, 543, 675, 756, 1050, 1328
SatI GCNGC 1 cut(s) 707
Sau3AI GATC 3 cut(s) 178, 738, 955
Sau96I GGNCC 3 cut(s) 808, 809, 964
SchI GAGTC 1 cut(s) 530
SduI GDGCHC 3 cut(s) 633, 812, 939
SfaNI GCATC 4 cut(s) 361, 670, 693, 811
SmiMI CAYNNNNRTG 1 cut(s) 216
SmlI CTYRAG 1 cut(s) 626
SmoI CTYRAG 1 cut(s) 626
SpeI ACTAGT 1 cut(s) 329
Sse9I AATT 6 cut(s) 260, 275, 909, 1112, 1230, 1274
SsiI CCGC 1 cut(s) 707
SspMI CTAG 2 cut(s) 234, 330
SstI GAGCTC 1 cut(s) 633
StyI CCWWGG 1 cut(s) 607
TaaI ACNGT 3 cut(s) 257, 350, 422
TaiI ACGT 2 cut(s) 36, 901
TaqI TCGA 4 cut(s) 130, 387, 570, 1350
TaqII GACCGA 1 cut(s) 11
TasI AATT 6 cut(s) 260, 275, 909, 1112, 1230, 1274
TatI WGTACW 1 cut(s) 252
TauI GCSGC 1 cut(s) 709
TfiI GAWTC 3 cut(s) 586, 669, 1373
Tru1I TTAA 6 cut(s) 150, 543, 675, 756, 1050, 1328
Tru9I TTAA 6 cut(s) 150, 543, 675, 756, 1050, 1328
TscAI CASTG 2 cut(s) 427, 853
TseFI GTSAC 2 cut(s) 377, 826
Tsp45I GTSAC 2 cut(s) 377, 826
TspDTI ATGAA 7 cut(s) 215, 312, 661, 891, 1184, 1223, 1237
TspGWI ACGGA 1 cut(s) 1041
TspRI CASTG 2 cut(s) 427, 853
VspI ATTAAT 1 cut(s) 756
XapI RAATTY 3 cut(s) 275, 909, 1274
XceI RCATGY 2 cut(s) 855, 1159
XspI CTAG 2 cut(s) 234, 330
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.