Rorug04G0084600

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0012605
Physical Location & Seq
Reverse (-)
12938750 .. 12943714
4965 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0084600.1

Sequence Viewer

Length: 543 bp
ATGCATTGCAGGCGGAGCAGTACCAGGTGGGCTCCTACTACAGATCAGATAAGAATCCTCAAGGAGTTTTATGACAATGGAGTTAAGAACCCAACTCCAGAGCAGGTTCAGGGGATCTGTCTCCAGCTGAAACAGTACGGAAAGGTCGAGAACAAGAACGTCTATTATTGGTTCCAGAACCAAAAGTCTCGGGAGAGGCAGAAGAAGAAGTTAACTTCCGATGTTCATGTGCCCATGCAAAGATCAGGGCTTGTTGGTGGATCCATTAATCTCAATTTTGGGTCAACTAGTTCTACTGGTGTTGATGGATCCATTAATCTCAATTTTGGATCAACTTGTTCTGCTGGTGTTGGTGGATCCATCATGGAACAACGAGGAGAAGATCACCAGGAGATTGAAACCCTTCCACTTTTCCCCATGCATGGTGAGGACATCTTTGGCAATATGAAGACTACTTCCGAGGGAGGTAGCGGTTATGGCGGTGGCTCTCGCATTTCCCTTGAGCTCAGCCTCAACTCCTCCGGAGCTACTGACTTGGCTTAG
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

180

Amino Acids

19.7

Weight (kDa)

7.73

Isoelectric Point (pI)

46.48

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Homeodomain PF00046 8 - 67 3.6e-10 Homeodomain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 94
AccIII TCCGGA 1 cut(s) 521
AciI CCGC 3 cut(s) 13, 471, 480
AclWI GGATC 8 cut(s) 122, 255, 268, 303, 316, 337, 351, 364
AfaI GTAC 2 cut(s) 22, 137
AfiI CCNNNNNNNGG 1 cut(s) 422
AgsI TTSAA 1 cut(s) 398
AhlI ACTAGT 1 cut(s) 287
AjnI CCWGG 2 cut(s) 23, 387
AluBI AGCT 3 cut(s) 127, 505, 527
AluI AGCT 3 cut(s) 127, 505, 527
Alw21I GWGCWC 1 cut(s) 507
Alw26I GTCTC 2 cut(s) 125, 192
AlwI GGATC 8 cut(s) 122, 255, 268, 303, 316, 337, 351, 364
Ama87I CYCGRG 1 cut(s) 189
Aor13HI TCCGGA 1 cut(s) 521
AseI ATTAAT 2 cut(s) 267, 315
Asp700I GAANNNNTTC 1 cut(s) 402
AsuHPI GGTGA 2 cut(s) 377, 437
AvaI CYCGRG 1 cut(s) 189
BaeGI GKGCMC 1 cut(s) 234
BamHI GGATCC 3 cut(s) 260, 308, 356
BanII GRGCYC 2 cut(s) 34, 507
BbsI GAAGAC 1 cut(s) 455
Bbv12I GWGCWC 1 cut(s) 507
BccI CCATC 2 cut(s) 299, 368
BciT130I CCWGG 2 cut(s) 25, 389
BcoDI GTCTC 2 cut(s) 125, 192
BcuI ACTAGT 1 cut(s) 287
BfaI CTAG 1 cut(s) 288
BfmI CTRYAG 1 cut(s) 39
BfuAI ACCTGC 1 cut(s) 94
BlpI GCTNAGC 1 cut(s) 506
Bme1390I CCNGG 2 cut(s) 25, 389
BmeT110I CYCGRG 1 cut(s) 189
BmiI GGNNCC 5 cut(s) 33, 173, 262, 310, 358
BmrFI CCNGG 2 cut(s) 25, 389
BpiI GAAGAC 1 cut(s) 455
BpmI CTGGAG 2 cut(s) 81, 107
Bpu1102I GCTNAGC 1 cut(s) 506
BpuEI CTTGAG 2 cut(s) 44, 521
BsaBI GATNNNNATC 1 cut(s) 53
BsaJI CCNNGG 1 cut(s) 459
BsaWI WCCGGW 1 cut(s) 521
Bsc4I CCNNNNNNNGG 1 cut(s) 422
Bse1I ACTGG 1 cut(s) 301
Bse3DI GCAATG 1 cut(s) 4
Bse8I GATNNNNATC 1 cut(s) 53
BseAI TCCGGA 1 cut(s) 521
BseBI CCWGG 2 cut(s) 25, 389
BseDI CCNNGG 1 cut(s) 459
BseJI GATNNNNATC 1 cut(s) 53
BseLI CCNNNNNNNGG 1 cut(s) 422
BseMI GCAATG 1 cut(s) 4
BseMII CTCAG 1 cut(s) 520
BseNI ACTGG 1 cut(s) 301
BseRI GAGGAG 2 cut(s) 390, 508
BseSI GKGCMC 1 cut(s) 234
BsiHKAI GWGCWC 1 cut(s) 507
BsiHKCI CYCGRG 1 cut(s) 189
BsiSI CCGG 1 cut(s) 522
BslI CCNNNNNNNGG 1 cut(s) 422
BsmAI GTCTC 2 cut(s) 125, 192
BsoBI CYCGRG 1 cut(s) 189
Bsp1286I GDGCHC 3 cut(s) 34, 234, 507
Bsp13I TCCGGA 1 cut(s) 521
Bsp143I GATC 8 cut(s) 43, 114, 242, 260, 308, 329, 356, 382
Bsp1720I GCTNAGC 1 cut(s) 506
BspACI CCGC 3 cut(s) 13, 471, 480
BspCNI CTCAG 1 cut(s) 519
BspEI TCCGGA 1 cut(s) 521
BspLI GGNNCC 5 cut(s) 33, 173, 262, 310, 358
BspMI ACCTGC 1 cut(s) 94
BspPI GGATC 8 cut(s) 122, 255, 268, 303, 316, 337, 351, 364
BsrDI GCAATG 1 cut(s) 4
BsrI ACTGG 1 cut(s) 301
BssECI CCNNGG 1 cut(s) 459
BssMI GATC 8 cut(s) 43, 114, 242, 260, 308, 329, 356, 382
Bst2UI CCWGG 2 cut(s) 25, 389
Bst4CI ACNGT 1 cut(s) 135
BstC8I GCNNGC 1 cut(s) 11
BstDEI CTNAG 2 cut(s) 506, 540
BstKTI GATC 8 cut(s) 46, 117, 245, 263, 311, 332, 359, 385
BstMAI GTCTC 2 cut(s) 125, 192
BstMBI GATC 8 cut(s) 43, 114, 242, 260, 308, 329, 356, 382
BstMWI GCNNNNNNNGC 3 cut(s) 10, 15, 477
BstNI CCWGG 2 cut(s) 25, 389
BstSCI CCNGG 2 cut(s) 23, 387
BstSFI CTRYAG 1 cut(s) 39
BstSLI GKGCMC 1 cut(s) 234
BstV2I GAAGAC 1 cut(s) 455
BstX2I RGATCY 4 cut(s) 114, 260, 308, 356
BstYI RGATCY 4 cut(s) 114, 260, 308, 356
BveI ACCTGC 1 cut(s) 94
Cac8I GCNNGC 1 cut(s) 11
CsiI ACCWGGT 1 cut(s) 23
Csp6I GTAC 2 cut(s) 21, 136
CviAII CATG 5 cut(s) 227, 235, 364, 418, 422
CviJI RGCY 8 cut(s) 32, 127, 250, 486, 505, 510, 527, 539
CviKI_1 RGCY 8 cut(s) 32, 127, 250, 486, 505, 510, 527, 539
CviQI GTAC 2 cut(s) 21, 136
DdeI CTNAG 2 cut(s) 506, 540
DpnI GATC 8 cut(s) 45, 116, 244, 262, 310, 331, 358, 384
DpnII GATC 8 cut(s) 43, 114, 242, 260, 308, 329, 356, 382
EciI GGCGGA 1 cut(s) 28
Ecl136II GAGCTC 1 cut(s) 505
Eco24I GRGCYC 2 cut(s) 34, 507
Eco53kI GAGCTC 1 cut(s) 505
Eco88I CYCGRG 1 cut(s) 189
EcoICRI GAGCTC 1 cut(s) 505
EcoRII CCWGG 2 cut(s) 23, 387
EcoT22I ATGCAT 2 cut(s) 6, 423
EcoT38I GRGCYC 2 cut(s) 34, 507
FaeI CATG 5 cut(s) 230, 238, 367, 421, 425
FaiI YATR 8 cut(s) 72, 228, 236, 365, 419, 423, 446, 477
FatI CATG 5 cut(s) 226, 234, 363, 417, 421
FriOI GRGCYC 2 cut(s) 34, 507
FspBI CTAG 1 cut(s) 288
GsuI CTGGAG 2 cut(s) 81, 107
HapII CCGG 1 cut(s) 522
Hin1II CATG 5 cut(s) 230, 238, 367, 421, 425
HincII GTYRAC 2 cut(s) 213, 285
HindII GTYRAC 2 cut(s) 213, 285
HinfI GANTC 1 cut(s) 54
HpaI GTTAAC 1 cut(s) 213
HpaII CCGG 1 cut(s) 522
HphI GGTGA 2 cut(s) 377, 437
Hpy166II GTNNAC 2 cut(s) 213, 285
Hpy188I TCNGA 3 cut(s) 48, 220, 460
Hpy188III TCNNGA 5 cut(s) 98, 148, 175, 191, 522
Hpy8I GTNNAC 2 cut(s) 213, 285
HpyAV CCTTC 1 cut(s) 413
HpyCH4III ACNGT 1 cut(s) 135
HpyCH4IV ACGT 1 cut(s) 159
HpyCH4V TGCA 4 cut(s) 4, 9, 238, 421
HpyF10VI GCNNNNNNNGC 3 cut(s) 10, 15, 477
HpyF3I CTNAG 2 cut(s) 506, 540
HpySE526I ACGT 1 cut(s) 159
Hsp92II CATG 5 cut(s) 230, 238, 367, 421, 425
Kpn2I TCCGGA 1 cut(s) 521
KspAI GTTAAC 1 cut(s) 213
Kzo9I GATC 8 cut(s) 43, 114, 242, 260, 308, 329, 356, 382
LmnI GCTCC 3 cut(s) 15, 37, 524
MabI ACCWGGT 1 cut(s) 23
MaeI CTAG 1 cut(s) 288
MaeII ACGT 1 cut(s) 159
MalI GATC 8 cut(s) 45, 116, 244, 262, 310, 331, 358, 384
MboI GATC 8 cut(s) 43, 114, 242, 260, 308, 329, 356, 382
MboII GAAGA 4 cut(s) 214, 217, 392, 460
MflI RGATCY 4 cut(s) 114, 260, 308, 356
MhlI GDGCHC 3 cut(s) 34, 234, 507
MluCI AATT 2 cut(s) 274, 322
MnlI CCTC 8 cut(s) 68, 189, 368, 421, 454, 458, 521, 529
Mph1103I ATGCAT 2 cut(s) 6, 423
MroI TCCGGA 1 cut(s) 521
MroXI GAANNNNTTC 1 cut(s) 402
MseI TTAA 4 cut(s) 84, 212, 267, 315
MspA1I CMGCKG 1 cut(s) 127
MspI CCGG 1 cut(s) 522
MspR9I CCNGG 2 cut(s) 25, 389
MvaI CCWGG 2 cut(s) 25, 389
MwoI GCNNNNNNNGC 3 cut(s) 10, 15, 477
NdeII GATC 8 cut(s) 43, 114, 242, 260, 308, 329, 356, 382
NlaIII CATG 5 cut(s) 230, 238, 367, 421, 425
NlaIV GGNNCC 5 cut(s) 33, 173, 262, 310, 358
NsiI ATGCAT 2 cut(s) 6, 423
PcsI WCGNNNNNNNCGW 1 cut(s) 144
PdmI GAANNNNTTC 1 cut(s) 402
PfeI GAWTC 1 cut(s) 54
PshBI ATTAAT 2 cut(s) 267, 315
Psp124BI GAGCTC 1 cut(s) 507
Psp6I CCWGG 2 cut(s) 23, 387
PspGI CCWGG 2 cut(s) 23, 387
PspN4I GGNNCC 5 cut(s) 33, 173, 262, 310, 358
PsuI RGATCY 4 cut(s) 114, 260, 308, 356
PvuII CAGCTG 1 cut(s) 127
RsaI GTAC 2 cut(s) 22, 137
RsaNI GTAC 2 cut(s) 21, 136
SacI GAGCTC 1 cut(s) 507
SaqAI TTAA 4 cut(s) 84, 212, 267, 315
Sau3AI GATC 8 cut(s) 43, 114, 242, 260, 308, 329, 356, 382
ScrFI CCNGG 2 cut(s) 25, 389
SduI GDGCHC 3 cut(s) 34, 234, 507
SetI ASST 8 cut(s) 29, 108, 129, 147, 162, 469, 507, 529
SexAI ACCWGGT 1 cut(s) 23
SfcI CTRYAG 1 cut(s) 39
SmlI CTYRAG 2 cut(s) 59, 500
SmoI CTYRAG 2 cut(s) 59, 500
SpeI ACTAGT 1 cut(s) 287
Sse9I AATT 2 cut(s) 274, 322
SsiI CCGC 3 cut(s) 13, 471, 480
SspMI CTAG 1 cut(s) 288
SstI GAGCTC 1 cut(s) 507
StyD4I CCNGG 2 cut(s) 23, 387
TaaI ACNGT 1 cut(s) 135
TaiI ACGT 1 cut(s) 162
TaqI TCGA 1 cut(s) 147
TasI AATT 2 cut(s) 274, 322
TfiI GAWTC 1 cut(s) 54
Tru1I TTAA 4 cut(s) 84, 212, 267, 315
Tru9I TTAA 4 cut(s) 84, 212, 267, 315
TspDTI ATGAA 2 cut(s) 215, 461
TspGWI ACGGA 1 cut(s) 153
VspI ATTAAT 2 cut(s) 267, 315
XmnI GAANNNNTTC 1 cut(s) 402
XspI CTAG 1 cut(s) 288
Zsp2I ATGCAT 2 cut(s) 6, 423
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.