Rw1G008230

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0006842
Physical Location & Seq
Forward (+)
17654029 .. 17655033
1005 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G008230.1

Sequence Viewer

Length: 1005 bp
ATGCTAGTCGATCAGTATATTAAGGAAGGCATGGTGAACGTGGCTCTGAATGTGACATATGAAATGAAGCACCTAAACATTTTTCCTTCTGGTGGAGTCTGCAACACTCTGCTACGAGCATTATTGGGATCAAACCAGTTGGACGTTGCATGGGATTTCTTGGAAGTTCTGCGGACAAGAGGAGTGGGTTTGAATTCTTCTATCATAAGTCTCTTCATTCATAAGTACTGTAGTGAGGGTGATCTGGGAAGTGGTTTCAAGTTGCTTGTTGAAATGAAGAAGTGTGGGATTCAACCTGATGTTGTTTCATATACCATTGTTATTCATTCCCTGTGCAAGATGTCTTATTTGAAAGAAGCCACTACTTTATTGTTTAAGATGACTCACTTGGGTATCTCTCCTGATTCGGTCTTGATTAGTTCAGTTATTGATGGCCACTGCCAGTTGAGACAAACAGCGGCAGCAAGTAAGATACTGAAGATCTTCCGTCCTCCCCTCAATATTTTTTTGTACAATAGCTTTACTTCAAAGCTATGTACAGATGGCAACATGTTTGAAGCTTCTGAACTTTTTCTTGAGATGTCTGAGTTTGGCTTGCTCCCAGATTGTGTTTGTTACTCAACCATAATAAGGGGCTACTGCAAAGTGAAAGACATGAATAGAGCTTTTCTGTATTTTGGAAAAATGTTAAAAAGTGGAATTACACCATCTGCTACCACATACACATTGCTCATCGATGCTTACTGCAAGTCTGGAGATATAGAAATGGCCGAAGATATGTTTCAAGCAATGCTTTCAGACGGTCTACTATCTGATATTGTGACTTACAACACTTTAATGGATGGCTTCGGAACGAAGGGACACTTACAAAAGGTTTTTGGGGTCTTAGATATGATGAATTCTTCTAATGTTTCCCCCGATGTTGTTACATATAACACGGATTTGCCAATGAGGCAAAACAAATCATGTTTGAACTTATCAAAAGGGGTTTCTCCCTGGATGTAG

Protein Analysis

334

Amino Acids

37.11

Weight (kDa)

6.31

Isoelectric Point (pI)

30.68

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_24 PF23276 33 - 159 2.4e-06 Fungal tetratrico peptide repeats
PPR_2 PF13041 72 - 113 3.2e-12 PPR repeat family
PPR_1 PF12854 96 - 127 3.4e-08 PPR repeat
PPR_2 PF13041 99 - 148 2.9e-09 PPR repeat family
PPR_2 PF13041 167 - 215 1.4e-09 PPR repeat family
PPR_3 PF13812 190 - 249 1.7e-08 Pentatricopeptide repeat domain
PPR_1 PF12854 198 - 229 4.9e-08 PPR repeat
PPR_2 PF13041 201 - 250 3.7e-15 PPR repeat family
PPR PF01535 204 - 234 2.5e-06 PPR repeat
PPR_long PF17177 219 - 307 3.5e-07 Pentacotripeptide-repeat region of PRORP
PPR_1 PF12854 233 - 264 9.9e-08 PPR repeat
PPR_2 PF13041 239 - 283 9.6e-13 PPR repeat family
PPR PF01535 240 - 269 4.5e-09 PPR repeat
PPR_3 PF13812 261 - 313 2.4e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 272 - 313 2.7e-12 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) 805
AciI CCGC 2 cut(s) 172, 458
AclWI GGATC 1 cut(s) 136
AcoI YGGCCR 2 cut(s) 433, 768
AcsI RAATTY 2 cut(s) 193, 898
AcuI CTGAAG 1 cut(s) 497
AfaI GTAC 3 cut(s) 227, 512, 538
AfiI CCNNNNNNNGG 2 cut(s) 92, 630
AflIII ACRYGT 1 cut(s) 549
AgsI TTSAA 9 cut(s) 193, 259, 272, 293, 352, 528, 557, 785, 973
AjnI CCWGG 1 cut(s) 995
AluBI AGCT 4 cut(s) 519, 532, 560, 665
AluI AGCT 4 cut(s) 519, 532, 560, 665
Alw26I GTCTC 2 cut(s) 215, 442
AlwI GGATC 1 cut(s) 136
AoxI GGCC 2 cut(s) 433, 768
ApeKI GCWGC 1 cut(s) 461
ApoI RAATTY 2 cut(s) 193, 898
Asp700I GAANNNNTTC 2 cut(s) 482, 570
AsuHPI GGTGA 2 cut(s) 46, 251
BaeI ACNNNNGTAYC 2 cut(s) 376, 409
BalI TGGCCA 1 cut(s) 435
BbvI GCAGC 1 cut(s) 473
BccI CCATC 4 cut(s) 425, 536, 715, 836
BciT130I CCWGG 1 cut(s) 997
BcoDI GTCTC 2 cut(s) 215, 442
BfaI CTAG 1 cut(s) 5
BfmI CTRYAG 1 cut(s) 229
BglI GCCNNNNNGGC 1 cut(s) 952
BglII AGATCT 1 cut(s) 480
BisI GCNGC 2 cut(s) 459, 462
BlsI GCNGC 2 cut(s) 460, 463
BmcAI AGTACT 1 cut(s) 227
Bme1390I CCNGG 1 cut(s) 997
BmrFI CCNGG 1 cut(s) 997
BmsI GCATC 1 cut(s) 727
BpmI CTGGAG 1 cut(s) 774
BpuEI CTTGAG 1 cut(s) 596
Bsa29I ATCGAT 1 cut(s) 735
BsaJI CCNNGG 1 cut(s) 995
Bsc4I CCNNNNNNNGG 2 cut(s) 92, 630
Bse1I ACTGG 2 cut(s) 136, 442
Bse3DI GCAATG 2 cut(s) 725, 795
BseBI CCWGG 1 cut(s) 997
BseCI ATCGAT 1 cut(s) 735
BseDI CCNNGG 1 cut(s) 995
BseGI GGATG 2 cut(s) 847, 1005
BseLI CCNNNNNNNGG 2 cut(s) 92, 630
BseMI GCAATG 2 cut(s) 725, 795
BseMII CTCAG 1 cut(s) 576
BseNI ACTGG 2 cut(s) 136, 442
BseRI GAGGAG 1 cut(s) 195
BseXI GCAGC 1 cut(s) 473
BshFI GGCC 2 cut(s) 435, 770
BshVI ATCGAT 1 cut(s) 735
BslFI GGGAC 1 cut(s) 873
BslI CCNNNNNNNGG 2 cut(s) 92, 630
BsmAI GTCTC 2 cut(s) 215, 442
BsmFI GGGAC 1 cut(s) 873
BsnI GGCC 2 cut(s) 435, 770
Bsp1407I TGTACA 2 cut(s) 510, 536
Bsp143I GATC 4 cut(s) 10, 128, 241, 480
BspACI CCGC 2 cut(s) 172, 458
BspANI GGCC 2 cut(s) 435, 770
BspCNI CTCAG 1 cut(s) 577
BspDI ATCGAT 1 cut(s) 735
BspPI GGATC 1 cut(s) 136
BsrDI GCAATG 2 cut(s) 725, 795
BsrGI TGTACA 2 cut(s) 510, 536
BsrI ACTGG 2 cut(s) 136, 442
BssECI CCNNGG 1 cut(s) 995
BssMI GATC 4 cut(s) 10, 128, 241, 480
Bst2UI CCWGG 1 cut(s) 997
Bst4CI ACNGT 2 cut(s) 230, 803
Bst6I CTCTTC 1 cut(s) 218
BstAUI TGTACA 2 cut(s) 510, 536
BstC8I GCNNGC 1 cut(s) 596
BstDEI CTNAG 2 cut(s) 585, 886
BstF5I GGATG 2 cut(s) 847, 1005
BstKTI GATC 4 cut(s) 13, 131, 244, 483
BstMAI GTCTC 2 cut(s) 215, 442
BstMBI GATC 4 cut(s) 10, 128, 241, 480
BstMWI GCNNNNNNNGC 1 cut(s) 952
BstNI CCWGG 1 cut(s) 997
BstNSI RCATGY 1 cut(s) 553
BstSCI CCNGG 1 cut(s) 995
BstSFI CTRYAG 1 cut(s) 229
BstV1I GCAGC 1 cut(s) 473
BstX2I RGATCY 1 cut(s) 480
BstYI RGATCY 1 cut(s) 480
Bsu15I ATCGAT 1 cut(s) 735
BsuRI GGCC 2 cut(s) 435, 770
BsuTUI ATCGAT 1 cut(s) 735
BtsCI GGATG 2 cut(s) 847, 1005
BtsI GCAGTG 1 cut(s) 436
BtsIMutI CAGTG 1 cut(s) 436
Cac8I GCNNGC 1 cut(s) 596
ClaI ATCGAT 1 cut(s) 735
Csp6I GTAC 3 cut(s) 226, 511, 537
CspCI CAANNNNNGTGG 2 cut(s) 165, 200
CviAII CATG 5 cut(s) 31, 150, 550, 655, 966
CviQI GTAC 3 cut(s) 226, 511, 537
DdeI CTNAG 2 cut(s) 585, 886
DpnI GATC 4 cut(s) 12, 130, 243, 482
DpnII GATC 4 cut(s) 10, 128, 241, 480
EaeI YGGCCR 2 cut(s) 433, 768
Eam1104I CTCTTC 1 cut(s) 218
EarI CTCTTC 1 cut(s) 218
Eco57I CTGAAG 1 cut(s) 497
EcoRI GAATTC 2 cut(s) 193, 898
EcoRII CCWGG 1 cut(s) 995
FaeI CATG 5 cut(s) 34, 153, 553, 658, 969
FalI AAGNNNNNCTT 4 cut(s) 777, 809, 848, 880
FaqI GGGAC 1 cut(s) 873
FatI CATG 5 cut(s) 30, 149, 549, 654, 965
FauNDI CATATG 1 cut(s) 58
FblI GTMKAC 1 cut(s) 805
Fnu4HI GCNGC 2 cut(s) 459, 462
FokI GGATG 1 cut(s) 854
Fsp4HI GCNGC 2 cut(s) 459, 462
FspBI CTAG 1 cut(s) 5
GluI GCNGC 2 cut(s) 459, 462
GsuI CTGGAG 1 cut(s) 774
HaeIII GGCC 2 cut(s) 435, 770
Hin1II CATG 5 cut(s) 34, 153, 553, 658, 969
HindIII AAGCTT 1 cut(s) 558
HinfI GANTC 4 cut(s) 96, 289, 382, 404
HphI GGTGA 2 cut(s) 46, 251
Hpy166II GTNNAC 2 cut(s) 37, 806
Hpy188I TCNGA 6 cut(s) 48, 565, 586, 799, 814, 851
Hpy188III TCNNGA 4 cut(s) 401, 412, 575, 753
Hpy8I GTNNAC 2 cut(s) 37, 806
HpyAV CCTTC 3 cut(s) 20, 96, 850
HpyCH4III ACNGT 2 cut(s) 230, 803
HpyCH4IV ACGT 2 cut(s) 39, 144
HpyCH4V TGCA 5 cut(s) 102, 149, 336, 642, 747
HpyF10VI GCNNNNNNNGC 1 cut(s) 952
HpyF3I CTNAG 2 cut(s) 585, 886
HpySE526I ACGT 2 cut(s) 39, 144
Hsp92II CATG 5 cut(s) 34, 153, 553, 658, 969
Kzo9I GATC 4 cut(s) 10, 128, 241, 480
LmnI GCTCC 1 cut(s) 603
Lsp1109I GCAGC 1 cut(s) 473
LweI GCATC 1 cut(s) 727
MaeI CTAG 1 cut(s) 5
MaeII ACGT 2 cut(s) 39, 144
MaeIII GTNAC 4 cut(s) 52, 614, 820, 925
MalI GATC 4 cut(s) 12, 130, 243, 482
MboI GATC 4 cut(s) 10, 128, 241, 480
MboII GAAGA 7 cut(s) 189, 205, 289, 475, 490, 785, 894
MflI RGATCY 1 cut(s) 480
MlsI TGGCCA 1 cut(s) 435
MluCI AATT 3 cut(s) 193, 699, 898
MluNI TGGCCA 1 cut(s) 435
MlyI GAGTC 2 cut(s) 105, 376
MmeI TCCRAC 1 cut(s) 120
MnlI CCTC 5 cut(s) 173, 229, 501, 506, 945
Mox20I TGGCCA 1 cut(s) 435
MroXI GAANNNNTTC 2 cut(s) 482, 570
MscI TGGCCA 1 cut(s) 435
MseI TTAA 4 cut(s) 21, 375, 689, 836
MslI CAYNNNNRTG 1 cut(s) 836
Msp20I TGGCCA 1 cut(s) 435
MspA1I CMGCKG 1 cut(s) 458
MspR9I CCNGG 1 cut(s) 997
MvaI CCWGG 1 cut(s) 997
MwoI GCNNNNNNNGC 1 cut(s) 952
NdeI CATATG 1 cut(s) 58
NdeII GATC 4 cut(s) 10, 128, 241, 480
NlaIII CATG 5 cut(s) 34, 153, 553, 658, 969
NmuCI GTSAC 2 cut(s) 52, 820
NspI RCATGY 1 cut(s) 553
PciI ACATGT 1 cut(s) 549
PdmI GAANNNNTTC 2 cut(s) 482, 570
PfeI GAWTC 2 cut(s) 289, 404
PkrI GCNGC 2 cut(s) 460, 463
PleI GAGTC 2 cut(s) 104, 376
PpsI GAGTC 2 cut(s) 104, 376
PscI ACATGT 1 cut(s) 549
Psp6I CCWGG 1 cut(s) 995
PspGI CCWGG 1 cut(s) 995
PsuI RGATCY 1 cut(s) 480
RsaI GTAC 3 cut(s) 227, 512, 538
RsaNI GTAC 3 cut(s) 226, 511, 537
RseI CAYNNNNRTG 1 cut(s) 836
SaqAI TTAA 4 cut(s) 21, 375, 689, 836
SatI GCNGC 2 cut(s) 459, 462
Sau3AI GATC 4 cut(s) 10, 128, 241, 480
ScaI AGTACT 1 cut(s) 227
SchI GAGTC 2 cut(s) 105, 376
ScrFI CCNGG 1 cut(s) 997
SetI ASST 9 cut(s) 42, 75, 147, 298, 521, 534, 562, 667, 876
SfaNI GCATC 1 cut(s) 727
SfcI CTRYAG 1 cut(s) 229
SmiMI CAYNNNNRTG 1 cut(s) 836
SmlI CTYRAG 1 cut(s) 575
SmoI CTYRAG 1 cut(s) 575
Sse9I AATT 3 cut(s) 193, 699, 898
SsiI CCGC 2 cut(s) 172, 458
SspI AATATT 1 cut(s) 502
SspMI CTAG 1 cut(s) 5
StyD4I CCNGG 1 cut(s) 995
TaaI ACNGT 2 cut(s) 230, 803
TaiI ACGT 2 cut(s) 42, 147
TaqI TCGA 2 cut(s) 9, 735
TaqII GACCGA 1 cut(s) 397
TasI AATT 3 cut(s) 193, 699, 898
TatI WGTACW 3 cut(s) 225, 510, 536
TauI GCSGC 1 cut(s) 461
TfiI GAWTC 2 cut(s) 289, 404
Tru1I TTAA 4 cut(s) 21, 375, 689, 836
Tru9I TTAA 4 cut(s) 21, 375, 689, 836
TscAI CASTG 1 cut(s) 443
TseFI GTSAC 2 cut(s) 52, 820
TseI GCWGC 1 cut(s) 461
Tsp45I GTSAC 2 cut(s) 52, 820
TspDTI ATGAA 9 cut(s) 75, 80, 205, 209, 290, 297, 314, 671, 911
TspGWI ACGGA 2 cut(s) 476, 953
TspRI CASTG 1 cut(s) 443
XapI RAATTY 2 cut(s) 193, 898
XceI RCATGY 1 cut(s) 553
XmiI GTMKAC 1 cut(s) 805
XmnI GAANNNNTTC 2 cut(s) 482, 570
XspI CTAG 1 cut(s) 5
ZrmI AGTACT 1 cut(s) 227
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.