Rroxscaffold_5G00386740

Pentatricopeptide repeat-containing protein At1g03560

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0003325
Physical Location & Seq
Reverse (-)
65540940 .. 65546237
5298 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00386740.1

Sequence Viewer

Length: 990 bp
ATGAGAGAGAAGGGGATTGAAATTCCATCTCACGCGTATAGTTTAGTCATCAATGGGCTATGTAAAGGTGGGAAATGTATGGTTGGGTATGCTGTTTTTGAAGATATGATTGAGAAGGGTTGTAAAGCAAATGTGGCAAACTATACAGCTTTGATCGATTCATATGCAAAATGTGGGTGCATTGAAGAGGCAATGAAGCTTTTCGAGAGGATGAAGAGCGATGGGCTTGAACCAGATGGGGTTACTTATGCGGTTATTGTCAATGGATTATGTAAGAGTGGGAGATTGGAGAAGGCCATGGAGTATTTTCAGTTTTGTCAAAACAGCAAAATGGTAGACAATGCTATGTTGTATTCTAGTTTAATTGATGGTCTTGGAAAGGCTGGAAGGGTTGATGAAGCTGAAAGGGTATTCGAAAAGATGATTGAAAAGGGTTGTCCACCGGATTCATACTGCTATAATGCCCTTATCGATGCCCTAGCAAAATGTGGAAAAACTGATGAAGCTTTAGCACTCTTTAAGAAAATGGAAAAAGAAGGTTGTGATCAGACCGTTTATACATACACAATACTCATTGATGGACTATTTAAGGAGCATAGGAATGAAGAGGCATTGAAGCTGTGGGACATGATGATCGATAAAGGCATCACACCAACTGCTGCTTCATTCAGAGCTCTCTCAGTTGGGCTTTGTCTCTCAGGCAAAGTAGCCAGGGCCTGCAAGATTTTGGATGACCTAGCACCAATGGGCGTAATTCCTGAGACAGCTTTTGAAGATATGATCAATGTGTTGTGCAAAGCTGGTCGTGTCAAGGAAGCTTGCAAATTGGCTGATGGCATTGTGGATAGAGGTAGGGAAATACCAGGAAGAATTCGAACTGTTCTAATCAATGGCTTGAGGAAAACAGGGAATGCAGATTTAGCTATGAAGTTGATGCATAGTAAGATTGGTATTGGGTATGACCGATGGGGTAGTGTCAAAAGCGAGTGA

Protein Analysis

329

Amino Acids

36.19

Weight (kDa)

6.82

Isoelectric Point (pI)

26.49

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 3 - 102 2.4e-08 Pentacotripeptide-repeat region of PRORP
PPR_2 PF13041 11 - 53 1e-06 PPR repeat family
TPR_24 PF23276 30 - 140 2.4e-08 Fungal tetratrico peptide repeats
PPR_3 PF13812 32 - 88 8.6e-11 Pentatricopeptide repeat domain
PPR_1 PF12854 39 - 72 2.2e-08 PPR repeat
PPR_2 PF13041 44 - 92 6.9e-16 PPR repeat family
PPR PF01535 48 - 76 1.3e-09 PPR repeat
PPR_1 PF12854 74 - 103 5.8e-09 PPR repeat
PPR_2 PF13041 114 - 162 5.5e-15 PPR repeat family
PPR_3 PF13812 114 - 160 1e-05 Pentatricopeptide repeat domain
PPR_1 PF12854 114 - 141 1.9e-09 PPR repeat
PPR PF01535 118 - 146 1e-09 PPR repeat
PPR_long PF17177 130 - 241 7.9e-06 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 144 - 177 2.5e-11 PPR repeat
PPR_2 PF13041 148 - 197 1.1e-17 PPR repeat family
PPR_3 PF13812 148 - 192 5.3e-07 Pentatricopeptide repeat domain
PPR PF01535 152 - 181 4.5e-10 PPR repeat
TPR_24 PF23276 178 - 275 7.5e-06 Fungal tetratrico peptide repeats
PPR_1 PF12854 180 - 211 1.5e-07 PPR repeat
PPR PF01535 186 - 216 1.4e-06 PPR repeat
PPR_2 PF13041 191 - 231 3e-07 PPR repeat family
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 336
AccII CGCG 1 cut(s) 35
AciI CCGC 1 cut(s) 251
AcsI RAATTY 2 cut(s) 21, 870
AflIII ACRYGT 1 cut(s) 33
AgsI TTSAA 7 cut(s) 20, 101, 185, 230, 428, 616, 773
AjnI CCWGG 2 cut(s) 710, 862
AjuI GAANNNNNNNTTGG 2 cut(s) 646, 678
Alw21I GWGCWC 1 cut(s) 676
Alw26I GTCTC 2 cut(s) 698, 755
AlwNI CAGNNNCTG 1 cut(s) 717
AoxI GGCC 2 cut(s) 294, 714
ApeKI GCWGC 1 cut(s) 659
ApoI RAATTY 2 cut(s) 21, 870
Asp700I GAANNNNTTC 1 cut(s) 200
AspS9I GGNCC 1 cut(s) 714
AsuII TTCGAA 2 cut(s) 414, 874
BanII GRGCYC 1 cut(s) 676
Bbv12I GWGCWC 1 cut(s) 676
BbvI GCAGC 1 cut(s) 646
BccI CCATC 7 cut(s) 34, 215, 230, 362, 572, 827, 960
BcgI CGANNNNNNTGC 2 cut(s) 146, 180
BciT130I CCWGG 2 cut(s) 712, 864
BclI TGATCA 2 cut(s) 544, 780
BcoDI GTCTC 2 cut(s) 698, 755
BfaI CTAG 3 cut(s) 357, 479, 737
BisI GCNGC 1 cut(s) 660
BlsI GCNGC 1 cut(s) 661
Bme1390I CCNGG 2 cut(s) 712, 864
BmgT120I GGNCC 1 cut(s) 714
BmrFI CCNGG 2 cut(s) 712, 864
BmsI GCATC 3 cut(s) 463, 654, 924
Bpu14I TTCGAA 2 cut(s) 414, 874
BpuEI CTTGAG 1 cut(s) 916
Bsa29I ATCGAT 3 cut(s) 156, 471, 636
BsaJI CCNNGG 2 cut(s) 297, 711
BsaWI WCCGGW 1 cut(s) 442
Bse3DI GCAATG 1 cut(s) 198
BseBI CCWGG 2 cut(s) 712, 864
BseCI ATCGAT 3 cut(s) 156, 471, 636
BseDI CCNNGG 2 cut(s) 297, 711
BseGI GGATG 2 cut(s) 216, 736
BseMI GCAATG 1 cut(s) 198
BseMII CTCAG 3 cut(s) 693, 711, 750
BseXI GCAGC 1 cut(s) 646
Bsh1236I CGCG 1 cut(s) 35
BshFI GGCC 2 cut(s) 296, 716
BshVI ATCGAT 3 cut(s) 156, 471, 636
BsiHKAI GWGCWC 1 cut(s) 676
BsiSI CCGG 1 cut(s) 443
BslFI GGGAC 1 cut(s) 638
BsmAI GTCTC 2 cut(s) 698, 755
BsmFI GGGAC 1 cut(s) 638
BsmI GAATGC 1 cut(s) 916
BsnI GGCC 2 cut(s) 296, 716
Bsp119I TTCGAA 2 cut(s) 414, 874
Bsp1286I GDGCHC 1 cut(s) 676
Bsp143I GATC 4 cut(s) 153, 544, 633, 780
Bsp19I CCATGG 1 cut(s) 297
BspACI CCGC 1 cut(s) 251
BspANI GGCC 2 cut(s) 296, 716
BspCNI CTCAG 3 cut(s) 692, 710, 751
BspDI ATCGAT 3 cut(s) 156, 471, 636
BspFNI CGCG 1 cut(s) 35
BspQI GCTCTTC 1 cut(s) 209
BspT104I TTCGAA 2 cut(s) 414, 874
BsrDI GCAATG 1 cut(s) 198
BssECI CCNNGG 2 cut(s) 297, 711
BssMI GATC 4 cut(s) 153, 544, 633, 780
BssT1I CCWWGG 1 cut(s) 297
Bst2UI CCWGG 2 cut(s) 712, 864
Bst4CI ACNGT 2 cut(s) 553, 880
Bst6I CTCTTC 3 cut(s) 180, 209, 600
BstBI TTCGAA 2 cut(s) 414, 874
BstC8I GCNNGC 2 cut(s) 718, 820
BstDEI CTNAG 3 cut(s) 679, 697, 759
BstDSI CCRYGG 1 cut(s) 297
BstF5I GGATG 2 cut(s) 216, 736
BstFNI CGCG 1 cut(s) 35
BstKTI GATC 4 cut(s) 156, 547, 636, 783
BstMAI GTCTC 2 cut(s) 698, 755
BstMBI GATC 4 cut(s) 153, 544, 633, 780
BstMWI GCNNNNNNNGC 2 cut(s) 134, 920
BstNI CCWGG 2 cut(s) 712, 864
BstSCI CCNGG 2 cut(s) 710, 862
BstUI CGCG 1 cut(s) 35
BstV1I GCAGC 1 cut(s) 646
Bsu15I ATCGAT 3 cut(s) 156, 471, 636
BsuRI GGCC 2 cut(s) 296, 716
BsuTUI ATCGAT 3 cut(s) 156, 471, 636
BtgI CCRYGG 1 cut(s) 297
BtgZI GCGATG 1 cut(s) 234
BtsCI GGATG 2 cut(s) 216, 736
Cac8I GCNNGC 2 cut(s) 718, 820
CaiI CAGNNNCTG 1 cut(s) 717
Cfr13I GGNCC 1 cut(s) 714
ClaI ATCGAT 3 cut(s) 156, 471, 636
CviAII CATG 2 cut(s) 298, 628
DdeI CTNAG 3 cut(s) 679, 697, 759
DpnI GATC 4 cut(s) 155, 546, 635, 782
DpnII GATC 4 cut(s) 153, 544, 633, 780
Eam1104I CTCTTC 3 cut(s) 180, 209, 600
EarI CTCTTC 3 cut(s) 180, 209, 600
Ecl136II GAGCTC 1 cut(s) 674
Eco130I CCWWGG 1 cut(s) 297
Eco24I GRGCYC 1 cut(s) 676
Eco53kI GAGCTC 1 cut(s) 674
EcoICRI GAGCTC 1 cut(s) 674
EcoO109I RGGNCCY 1 cut(s) 714
EcoRI GAATTC 1 cut(s) 870
EcoRII CCWGG 2 cut(s) 710, 862
EcoT14I CCWWGG 1 cut(s) 297
EcoT22I ATGCAT 1 cut(s) 939
EcoT38I GRGCYC 1 cut(s) 676
ErhI CCWWGG 1 cut(s) 297
FaeI CATG 2 cut(s) 301, 631
FaqI GGGAC 1 cut(s) 638
FatI CATG 2 cut(s) 297, 627
FauNDI CATATG 1 cut(s) 163
FbaI TGATCA 2 cut(s) 544, 780
FblI GTMKAC 1 cut(s) 336
Fnu4HI GCNGC 1 cut(s) 660
FokI GGATG 2 cut(s) 223, 743
FriOI GRGCYC 1 cut(s) 676
Fsp4HI GCNGC 1 cut(s) 660
FspBI CTAG 3 cut(s) 357, 479, 737
GluI GCNGC 1 cut(s) 660
HaeIII GGCC 2 cut(s) 296, 716
HapII CCGG 1 cut(s) 443
Hin1II CATG 2 cut(s) 301, 631
HindIII AAGCTT 3 cut(s) 197, 504, 816
HinfI GANTC 2 cut(s) 158, 446
HpaII CCGG 1 cut(s) 443
Hpy166II GTNNAC 2 cut(s) 337, 440
Hpy188I TCNGA 2 cut(s) 549, 671
Hpy188III TCNNGA 2 cut(s) 205, 758
Hpy8I GTNNAC 2 cut(s) 337, 440
HpyAV CCTTC 5 cut(s) 4, 109, 286, 381, 530
HpyCH4III ACNGT 2 cut(s) 553, 880
HpyCH4V TGCA 7 cut(s) 167, 180, 720, 795, 822, 914, 937
HpyF10VI GCNNNNNNNGC 2 cut(s) 134, 920
HpyF3I CTNAG 3 cut(s) 679, 697, 759
Hsp92II CATG 2 cut(s) 301, 631
Ksp22I TGATCA 2 cut(s) 544, 780
Kzo9I GATC 4 cut(s) 153, 544, 633, 780
LguI GCTCTTC 1 cut(s) 209
LmnI GCTCC 1 cut(s) 592
Lsp1109I GCAGC 1 cut(s) 646
LweI GCATC 3 cut(s) 463, 654, 924
MaeI CTAG 3 cut(s) 357, 479, 737
MaeIII GTNAC 1 cut(s) 241
MalI GATC 4 cut(s) 155, 546, 635, 782
MboI GATC 4 cut(s) 153, 544, 633, 780
MboII GAAGA 6 cut(s) 113, 197, 226, 617, 785, 879
MhlI GDGCHC 1 cut(s) 676
MluCI AATT 5 cut(s) 21, 363, 753, 824, 870
MluI ACGCGT 1 cut(s) 33
MnlI CCTC 5 cut(s) 181, 201, 601, 842, 891
Mph1103I ATGCAT 1 cut(s) 939
MroXI GAANNNNTTC 1 cut(s) 200
MseI TTAA 3 cut(s) 362, 519, 588
MslI CAYNNNNRTG 1 cut(s) 600
MspI CCGG 1 cut(s) 443
MspR9I CCNGG 2 cut(s) 712, 864
Mva1269I GAATGC 1 cut(s) 916
MvaI CCWGG 2 cut(s) 712, 864
MvnI CGCG 1 cut(s) 35
MwoI GCNNNNNNNGC 2 cut(s) 134, 920
NcoI CCATGG 1 cut(s) 297
NdeI CATATG 1 cut(s) 163
NdeII GATC 4 cut(s) 153, 544, 633, 780
NlaIII CATG 2 cut(s) 301, 631
NsiI ATGCAT 1 cut(s) 939
NspV TTCGAA 2 cut(s) 414, 874
PciSI GCTCTTC 1 cut(s) 209
PctI GAATGC 1 cut(s) 916
PdmI GAANNNNTTC 1 cut(s) 200
PfeI GAWTC 2 cut(s) 158, 446
PkrI GCNGC 1 cut(s) 661
Psp124BI GAGCTC 1 cut(s) 676
Psp6I CCWGG 2 cut(s) 710, 862
PspGI CCWGG 2 cut(s) 710, 862
PspPI GGNCC 1 cut(s) 714
PstNI CAGNNNCTG 1 cut(s) 717
RseI CAYNNNNRTG 1 cut(s) 600
SacI GAGCTC 1 cut(s) 676
SapI GCTCTTC 1 cut(s) 209
SaqAI TTAA 3 cut(s) 362, 519, 588
SatI GCNGC 1 cut(s) 660
Sau3AI GATC 4 cut(s) 153, 544, 633, 780
Sau96I GGNCC 1 cut(s) 714
ScrFI CCNGG 2 cut(s) 712, 864
SduI GDGCHC 1 cut(s) 676
SfaNI GCATC 3 cut(s) 463, 654, 924
SfuI TTCGAA 2 cut(s) 414, 874
SmiMI CAYNNNNRTG 1 cut(s) 600
SmlI CTYRAG 1 cut(s) 895
SmoI CTYRAG 1 cut(s) 895
Sse9I AATT 5 cut(s) 21, 363, 753, 824, 870
SsiI CCGC 1 cut(s) 251
SspMI CTAG 3 cut(s) 357, 479, 737
SstI GAGCTC 1 cut(s) 676
StyD4I CCNGG 2 cut(s) 710, 862
StyI CCWWGG 1 cut(s) 297
TaaI ACNGT 2 cut(s) 553, 880
TaqI TCGA 6 cut(s) 156, 204, 414, 471, 636, 874
TaqII GACCGA 1 cut(s) 978
TasI AATT 5 cut(s) 21, 363, 753, 824, 870
TfiI GAWTC 2 cut(s) 158, 446
Tru1I TTAA 3 cut(s) 362, 519, 588
Tru9I TTAA 3 cut(s) 362, 519, 588
TseI GCWGC 1 cut(s) 659
TspDTI ATGAA 9 cut(s) 150, 209, 227, 411, 438, 516, 618, 654, 941
XapI RAATTY 2 cut(s) 21, 870
XmiI GTMKAC 1 cut(s) 336
XmnI GAANNNNTTC 1 cut(s) 200
XspI CTAG 3 cut(s) 357, 479, 737
Zsp2I ATGCAT 1 cut(s) 939
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.