Rroxscaffold_4G00330360

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000004
OG0000621
Physical Location & Seq
Reverse (-)
64022517 .. 64024293
1777 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_4G00330360.1

Sequence Viewer

Length: 717 bp
ATGCTTCAGAGTTTTGAGGGTTCTCAGAAAAAAGTCTATTCAGCTGGGCCGTTTGGGTCAAACGAAGGGAGCGGTCGTTGGGATGATGGTGTTTACTCAACGGTGAGGCAGGTGGTAATAAATTCTGATCATTCAGGCATTCGTTGGATTCAGTTTGAATACGATGTGAATGGGAGATCAGTTTGGTCAGAGAAGCACGGGTATTCTGTTCCCAGCGTGGCTAAAACATACAAGGTCCAACTTGATTATCCCGATGAATTTTTGACGTCGATACGTGGCTATTATTGCGATCTTTTTCTTGTTCCAACCTATATTAGCAATCTTCTTTTCAAGAGCAATAGAAGAACTTATGGACCATTTGGATCCTATGATCCAGTGACAAAACTCAAGTCTTTTTCAGTTGAACTGAGAAGTTGTAAGATTGTCGGGTTTTATGGCAGGTCAACCATGTGGTGCTCAATGCTTCGTTCAATAGGAGCTTACCTAACGCCCATTGATGGCGTGGAACATCATGATGAGAATGAAAACCTCAGCTATCCAGCAATGGATCTACTTCCAGCTCACCATTCTTCTGTGCGTACAGCGCCCTACAAAGATGAAAAGCCTGAGAAAGAGTCTTACATAATTTCCGGCAATCAAGTTAGTGAAAACGAAGGGAACCACAATGGAACTTTTGTTGTTGGGAGAAAGGCTTTACATATTGCTATTAACTTGTAA
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
Jacalin

Protein Analysis

238

Amino Acids

26.92

Weight (kDa)

6.71

Isoelectric Point (pI)

41.21

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 16 - 161 8.9e-33 Jacalin-like lectin domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0000621)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g32560 FvH4_3g35880 FvH4_4g19501 FvH4_4g19530 FvH4_4g19531 FvH4_4g19540 FvH4_4g19540
prunus_persica Prupe.1G121600_v2.0.a1 Prupe.1G121700_v2.0.a1
rosa_chinensis RchiOBHm_Chr4g0416301 RchiOBHm_Chr4g0424661
rosa_laevigata RLG00000007388 RLG00000007432 RLG00000007434 RLG00000007435 RLG00000007439 RLG00000007441 RLG00000007442 RLG00000007458 RLG00000007465 RLG00000007997 RLG00000008015 RLG00000008016 RLG00000008017 RLG00000035315
rosa_multiflora Rmu_co8150926.1_g000001 Rmu_co8225682.1_g000001 Rmu_co8296077.1_g000001 Rmu_sc0004841.1_g000022 Rmu_sc0006553.1_g000008 Rmu_sc0008889.1_g000002
rosa_roxburghii Rroxscaffold_1G00030220 Rroxscaffold_2G00114820 Rroxscaffold_3G00219510 Rroxscaffold_3G00255600 Rroxscaffold_4G00304060 Rroxscaffold_4G00330360 Rroxscaffold_4G00330400 Rroxscaffold_5G00359920 Rroxscaffold_5G00359930 Rroxscaffold_5G00359960 Rroxscaffold_5G00366600 Rroxscaffold_5G00366630 Rroxscaffold_5G00366640 Rroxscaffold_5G00366710 Rroxscaffold_5G00366970
rosa_rugosa Rorug04G0138400 Rorug04G0138500 Rorug04G0138700 Rorug04G0140600 Rorug04G0199000 Rorug07G0061600
rosa_samantha Rh4AG255800 Rh4AG255900 Rh4AG256000 Rh4AG256200 Rh4BG261200 Rh4BG261300 Rh4BG261600 Rh4CG212100 Rh4CG212800 Rh4CG212900 Rh4CG272300 Rh4CG272500 Rh4CG272600 Rh4CG272800 Rh4CG275800 Rh4DG255800 Rh4DG255900 Rh4DG256200 Rh4DG257200 Rh4DG257300 Rh7BG190600 Rh7CG198100
rosa_wichuraiana Rw1G001980 Rw4G022090 Rw4G024000 Rw4G024010 Rw7G016430

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 100
AatII GACGTC 1 cut(s) 269
Acc36I ACCTGC 2 cut(s) 100, 429
AccBSI CCGCTC 1 cut(s) 72
AciI CCGC 1 cut(s) 72
AclWI GGATC 4 cut(s) 357, 365, 370, 555
AcsI RAATTY 2 cut(s) 121, 257
AcyI GRCGYC 1 cut(s) 266
AfaI GTAC 1 cut(s) 580
AfiI CCNNNNNNNGG 1 cut(s) 497
AgsI TTSAA 4 cut(s) 158, 331, 404, 471
AluBI AGCT 4 cut(s) 44, 479, 534, 560
AluI AGCT 4 cut(s) 44, 479, 534, 560
Alw21I GWGCWC 1 cut(s) 458
AlwI GGATC 4 cut(s) 357, 365, 370, 555
AoxI GGCC 1 cut(s) 47
ApoI RAATTY 2 cut(s) 121, 257
ArsI GACNNNNNNTTYG 2 cut(s) 374, 406
AspLEI GCGC 1 cut(s) 586
AspS9I GGNCC 3 cut(s) 47, 235, 353
AsuHPI GGTGA 2 cut(s) 115, 554
AvaII GGWCC 2 cut(s) 235, 353
BamHI GGATCC 1 cut(s) 362
Bbv12I GWGCWC 1 cut(s) 458
BbvCI CCTCAGC 1 cut(s) 530
BccI CCATC 2 cut(s) 80, 491
BceAI ACGGC 1 cut(s) 34
BclI TGATCA 1 cut(s) 127
BfoI RGCGCY 1 cut(s) 587
BfuAI ACCTGC 2 cut(s) 100, 429
Bme18I GGWCC 2 cut(s) 235, 353
BmgT120I GGNCC 3 cut(s) 47, 235, 353
BmiI GGNNCC 2 cut(s) 364, 659
Bpu10I CCTNAGC 1 cut(s) 530
BpuEI CTTGAG 1 cut(s) 371
BsaAI YACGTR 1 cut(s) 275
BsaHI GRCGYC 1 cut(s) 266
BsaXI ACNNNNNCTCC 2 cut(s) 61, 91
Bsc4I CCNNNNNNNGG 1 cut(s) 497
Bse1I ACTGG 1 cut(s) 374
Bse3DI GCAATG 1 cut(s) 549
BseGI GGATG 1 cut(s) 88
BseLI CCNNNNNNNGG 1 cut(s) 497
BseMI GCAATG 1 cut(s) 549
BseMII CTCAG 4 cut(s) 38, 398, 544, 597
BseNI ACTGG 1 cut(s) 374
BseYI CCCAGC 2 cut(s) 44, 212
Bsh1285I CGRYCG 1 cut(s) 76
BshFI GGCC 1 cut(s) 49
BsiEI CGRYCG 1 cut(s) 76
BsiHKAI GWGCWC 1 cut(s) 458
BsiSI CCGG 1 cut(s) 630
BslI CCNNNNNNNGG 1 cut(s) 497
BsmI GAATGC 1 cut(s) 138
BsnI GGCC 1 cut(s) 49
Bsp1286I GDGCHC 1 cut(s) 458
Bsp143I GATC 6 cut(s) 127, 176, 289, 362, 370, 547
BspACI CCGC 1 cut(s) 72
BspANI GGCC 1 cut(s) 49
BspCNI CTCAG 4 cut(s) 37, 399, 543, 598
BspHI TCATGA 1 cut(s) 511
BspLI GGNNCC 2 cut(s) 364, 659
BspMI ACCTGC 2 cut(s) 100, 429
BspPI GGATC 4 cut(s) 357, 365, 370, 555
BsrBI CCGCTC 1 cut(s) 72
BsrDI GCAATG 1 cut(s) 549
BsrI ACTGG 1 cut(s) 374
BssMI GATC 6 cut(s) 127, 176, 289, 362, 370, 547
BssNI GRCGYC 1 cut(s) 266
Bst4CI ACNGT 1 cut(s) 103
BstACI GRCGYC 1 cut(s) 266
BstBAI YACGTR 1 cut(s) 275
BstDEI CTNAG 4 cut(s) 24, 407, 530, 606
BstF5I GGATG 1 cut(s) 88
BstH2I RGCGCY 1 cut(s) 587
BstHHI GCGC 1 cut(s) 586
BstKTI GATC 6 cut(s) 130, 179, 292, 365, 373, 550
BstMBI GATC 6 cut(s) 127, 176, 289, 362, 370, 547
BstMCI CGRYCG 1 cut(s) 76
BstMWI GCNNNNNNNGC 2 cut(s) 285, 583
BstX2I RGATCY 2 cut(s) 362, 547
BstYI RGATCY 2 cut(s) 362, 547
BsuRI GGCC 1 cut(s) 49
BtsCI GGATG 1 cut(s) 88
BtsIMutI CAGTG 1 cut(s) 381
BveI ACCTGC 2 cut(s) 100, 429
CciI TCATGA 1 cut(s) 511
CfoI GCGC 1 cut(s) 586
Cfr13I GGNCC 3 cut(s) 47, 235, 353
Csp6I GTAC 1 cut(s) 579
CviAII CATG 2 cut(s) 448, 512
CviJI RGCY 9 cut(s) 44, 49, 221, 279, 479, 534, 560, 604, 692
CviKI_1 RGCY 9 cut(s) 44, 49, 221, 279, 479, 534, 560, 604, 692
CviQI GTAC 1 cut(s) 579
DdeI CTNAG 4 cut(s) 24, 407, 530, 606
DpnI GATC 6 cut(s) 129, 178, 291, 364, 372, 549
DpnII GATC 6 cut(s) 127, 176, 289, 362, 370, 547
Eco47I GGWCC 2 cut(s) 235, 353
FaeI CATG 2 cut(s) 451, 515
FaiI YATR 9 cut(s) 229, 312, 351, 369, 435, 449, 513, 623, 699
FatI CATG 2 cut(s) 447, 511
FbaI TGATCA 1 cut(s) 127
FokI GGATG 1 cut(s) 95
GlaI GCGC 1 cut(s) 585
GsaI CCCAGC 2 cut(s) 48, 216
HaeII RGCGCY 1 cut(s) 587
HaeIII GGCC 1 cut(s) 49
HapII CCGG 1 cut(s) 630
HhaI GCGC 1 cut(s) 586
Hin1I GRCGYC 1 cut(s) 266
Hin1II CATG 2 cut(s) 451, 515
Hin6I GCGC 1 cut(s) 584
HinP1I GCGC 1 cut(s) 584
HincII GTYRAC 1 cut(s) 444
HindII GTYRAC 1 cut(s) 444
HinfI GANTC 2 cut(s) 148, 614
HpaII CCGG 1 cut(s) 630
HphI GGTGA 2 cut(s) 115, 554
Hpy166II GTNNAC 2 cut(s) 94, 444
Hpy188I TCNGA 4 cut(s) 9, 27, 127, 190
Hpy188III TCNNGA 3 cut(s) 251, 331, 512
Hpy8I GTNNAC 2 cut(s) 94, 444
Hpy99I CGWCG 1 cut(s) 271
HpyAV CCTTC 2 cut(s) 59, 647
HpyCH4III ACNGT 1 cut(s) 103
HpyCH4IV ACGT 2 cut(s) 266, 274
HpyF10VI GCNNNNNNNGC 2 cut(s) 285, 583
HpyF3I CTNAG 4 cut(s) 24, 407, 530, 606
HpySE526I ACGT 2 cut(s) 266, 274
Hsp92I GRCGYC 1 cut(s) 266
Hsp92II CATG 2 cut(s) 451, 515
HspAI GCGC 1 cut(s) 584
Ksp22I TGATCA 1 cut(s) 127
Kzo9I GATC 6 cut(s) 127, 176, 289, 362, 370, 547
LmnI GCTCC 2 cut(s) 69, 476
MaeII ACGT 2 cut(s) 266, 274
MaeIII GTNAC 1 cut(s) 376
MalI GATC 6 cut(s) 129, 178, 291, 364, 372, 549
MbiI CCGCTC 1 cut(s) 72
MboI GATC 6 cut(s) 127, 176, 289, 362, 370, 547
MboII GAAGA 3 cut(s) 314, 354, 561
MflI RGATCY 2 cut(s) 362, 547
MhlI GDGCHC 1 cut(s) 458
MluCI AATT 3 cut(s) 121, 257, 624
MlyI GAGTC 1 cut(s) 623
MmeI TCCRAC 3 cut(s) 125, 262, 329
MnlI CCTC 3 cut(s) 10, 99, 539
MseI TTAA 1 cut(s) 708
MslI CAYNNNNRTG 1 cut(s) 513
MspA1I CMGCKG 1 cut(s) 44
MspI CCGG 1 cut(s) 630
Mva1269I GAATGC 1 cut(s) 138
MwoI GCNNNNNNNGC 2 cut(s) 285, 583
NdeII GATC 6 cut(s) 127, 176, 289, 362, 370, 547
NlaIII CATG 2 cut(s) 451, 515
NlaIV GGNNCC 2 cut(s) 364, 659
NmuCI GTSAC 1 cut(s) 376
PagI TCATGA 1 cut(s) 511
PaqCI CACCTGC 1 cut(s) 100
PctI GAATGC 1 cut(s) 138
PfeI GAWTC 1 cut(s) 148
PleI GAGTC 1 cut(s) 622
PpsI GAGTC 1 cut(s) 622
Ppu21I YACGTR 1 cut(s) 275
PspFI CCCAGC 2 cut(s) 44, 212
PspN4I GGNNCC 2 cut(s) 364, 659
PspPI GGNCC 3 cut(s) 47, 235, 353
PsuI RGATCY 2 cut(s) 362, 547
PvuII CAGCTG 1 cut(s) 44
RsaI GTAC 1 cut(s) 580
RsaNI GTAC 1 cut(s) 579
RseI CAYNNNNRTG 1 cut(s) 513
SaqAI TTAA 1 cut(s) 708
Sau3AI GATC 6 cut(s) 127, 176, 289, 362, 370, 547
Sau96I GGNCC 3 cut(s) 47, 235, 353
SchI GAGTC 1 cut(s) 623
SduI GDGCHC 1 cut(s) 458
SinI GGWCC 2 cut(s) 235, 353
SmiMI CAYNNNNRTG 1 cut(s) 513
SmlI CTYRAG 1 cut(s) 386
SmoI CTYRAG 1 cut(s) 386
Sse9I AATT 3 cut(s) 121, 257, 624
SsiI CCGC 1 cut(s) 72
TaaI ACNGT 1 cut(s) 103
TaiI ACGT 2 cut(s) 269, 277
TaqI TCGA 1 cut(s) 269
TasI AATT 3 cut(s) 121, 257, 624
TfiI GAWTC 1 cut(s) 148
Tru1I TTAA 1 cut(s) 708
Tru9I TTAA 1 cut(s) 708
TscAI CASTG 1 cut(s) 381
TseFI GTSAC 1 cut(s) 376
Tsp45I GTSAC 1 cut(s) 376
TspDTI ATGAA 3 cut(s) 270, 537, 612
TspRI CASTG 1 cut(s) 381
VpaK11BI GGWCC 2 cut(s) 235, 353
XapI RAATTY 2 cut(s) 121, 257
XcmI CCANNNNNNNNNTGG 1 cut(s) 499
ZraI GACGTC 1 cut(s) 267
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.