Rw1G001980

Pentatricopeptide repeat-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr1
OG0000621
Physical Location & Seq
Forward (+)
3473848 .. 3475328
1481 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw1G001980.1

Sequence Viewer

Length: 711 bp
ATGAGTTTTGAGGGTTCTCAGAAAAAAGTCTATTCAGCTGGGCCGTTTGGGTCAAACGAAGGGAGCGGTCGTTGGGATGATGGTGTTTACTCAACGGTGAGGCAGGTGGTAATAAATTCTGATCATTCAGGCATTCGTTGGATTCAGTTTGAATACGATGTGAATGGGAGATCAGTTTGGTCAGAGAAGCACGGGTATTCTGTTCCCAGCGTGGCTAAAACATACAAGGTCCAACTTGATTATCCCGATGAATTTTTGACGTCGATACGTGGCTATTATTGTGATCTTTTTCTTGTTCCAACCTACATTAGCAATCTTCTTTTCAAGAGCAATAGAAGAACTTATGGACCATTTGGATCCTATGATCCAGTGACAAAACTTAAGTCTTTTTCAGTTGAACTGAGAAGTTGTAAGATTGTCGGGTTTTATGGCAGGTCAACCTTGTGGTGCTCAATGCTTCGTTCAATAGGAGCTTACCTAACGCCCATTGATGGCGTGGAACATCATGATGAGAATGAAAACCTCAGCTATCCAGCAATGGATCTACTTCCAGCTCACCATTCTTCTGTGCGTACGGCGCCCTACAAAGATGAAACGCCTGAGAAAGAGTCTTACATAATTTCCGGCAATCAAGTTAGTGAAAACGAAGGGAACCACAATGGAACTTTTGTTGTTGGGAGAAAGGCTTTACATATTGCTATTAACTTGTAA
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

236

Amino Acids

26.64

Weight (kDa)

6.44

Isoelectric Point (pI)

41.42

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Jacalin PF01419 14 - 159 8.8e-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) 94
AatII GACGTC 1 cut(s) 263
Acc36I ACCTGC 2 cut(s) 94, 423
AccB1I GGYRCC 1 cut(s) 577
AccBSI CCGCTC 1 cut(s) 66
AciI CCGC 1 cut(s) 66
AclWI GGATC 4 cut(s) 351, 359, 364, 549
AcsI RAATTY 2 cut(s) 115, 251
AcyI GRCGYC 2 cut(s) 260, 578
AfaI GTAC 1 cut(s) 574
AfiI CCNNNNNNNGG 1 cut(s) 491
AflII CTTAAG 1 cut(s) 380
AgsI TTSAA 4 cut(s) 152, 325, 398, 465
AluBI AGCT 4 cut(s) 38, 473, 528, 554
AluI AGCT 4 cut(s) 38, 473, 528, 554
Alw21I GWGCWC 1 cut(s) 452
AlwI GGATC 4 cut(s) 351, 359, 364, 549
AoxI GGCC 1 cut(s) 41
ApoI RAATTY 2 cut(s) 115, 251
ArsI GACNNNNNNTTYG 2 cut(s) 368, 400
AspLEI GCGC 1 cut(s) 580
AspS9I GGNCC 3 cut(s) 41, 229, 347
AsuHPI GGTGA 2 cut(s) 109, 548
AvaII GGWCC 2 cut(s) 229, 347
BamHI GGATCC 1 cut(s) 356
BanI GGYRCC 1 cut(s) 577
Bbv12I GWGCWC 1 cut(s) 452
BbvCI CCTCAGC 1 cut(s) 524
BccI CCATC 2 cut(s) 74, 485
BceAI ACGGC 2 cut(s) 28, 591
BclI TGATCA 1 cut(s) 121
BfoI RGCGCY 1 cut(s) 581
BfrI CTTAAG 1 cut(s) 380
BfuAI ACCTGC 2 cut(s) 94, 423
Bme18I GGWCC 2 cut(s) 229, 347
BmgT120I GGNCC 3 cut(s) 41, 229, 347
BmiI GGNNCC 3 cut(s) 358, 579, 653
Bpu10I CCTNAGC 1 cut(s) 524
BsaAI YACGTR 1 cut(s) 269
BsaHI GRCGYC 2 cut(s) 260, 578
BsaXI ACNNNNNCTCC 2 cut(s) 55, 85
Bsc4I CCNNNNNNNGG 1 cut(s) 491
Bse1I ACTGG 1 cut(s) 368
Bse3DI GCAATG 1 cut(s) 543
BseGI GGATG 1 cut(s) 82
BseLI CCNNNNNNNGG 1 cut(s) 491
BseMI GCAATG 1 cut(s) 543
BseMII CTCAG 4 cut(s) 32, 392, 538, 591
BseNI ACTGG 1 cut(s) 368
BseYI CCCAGC 2 cut(s) 38, 206
Bsh1285I CGRYCG 1 cut(s) 70
BshFI GGCC 1 cut(s) 43
BshNI GGYRCC 1 cut(s) 577
BsiEI CGRYCG 1 cut(s) 70
BsiHKAI GWGCWC 1 cut(s) 452
BsiSI CCGG 1 cut(s) 624
BsiWI CGTACG 1 cut(s) 572
BslI CCNNNNNNNGG 1 cut(s) 491
BsmI GAATGC 1 cut(s) 132
BsnI GGCC 1 cut(s) 43
Bsp1286I GDGCHC 1 cut(s) 452
Bsp143I GATC 6 cut(s) 121, 170, 283, 356, 364, 541
BspACI CCGC 1 cut(s) 66
BspANI GGCC 1 cut(s) 43
BspCNI CTCAG 4 cut(s) 31, 393, 537, 592
BspHI TCATGA 1 cut(s) 505
BspLI GGNNCC 3 cut(s) 358, 579, 653
BspMI ACCTGC 2 cut(s) 94, 423
BspPI GGATC 4 cut(s) 351, 359, 364, 549
BspT107I GGYRCC 1 cut(s) 577
BspTI CTTAAG 1 cut(s) 380
BsrBI CCGCTC 1 cut(s) 66
BsrDI GCAATG 1 cut(s) 543
BsrI ACTGG 1 cut(s) 368
BssMI GATC 6 cut(s) 121, 170, 283, 356, 364, 541
BssNI GRCGYC 2 cut(s) 260, 578
Bst4CI ACNGT 1 cut(s) 97
BstACI GRCGYC 2 cut(s) 260, 578
BstAFI CTTAAG 1 cut(s) 380
BstBAI YACGTR 1 cut(s) 269
BstDEI CTNAG 4 cut(s) 18, 401, 524, 600
BstF5I GGATG 1 cut(s) 82
BstH2I RGCGCY 1 cut(s) 581
BstHHI GCGC 1 cut(s) 580
BstKTI GATC 6 cut(s) 124, 173, 286, 359, 367, 544
BstMBI GATC 6 cut(s) 121, 170, 283, 356, 364, 541
BstMCI CGRYCG 1 cut(s) 70
BstMWI GCNNNNNNNGC 1 cut(s) 577
BstX2I RGATCY 2 cut(s) 356, 541
BstYI RGATCY 2 cut(s) 356, 541
BsuRI GGCC 1 cut(s) 43
BtsCI GGATG 1 cut(s) 82
BtsIMutI CAGTG 1 cut(s) 375
BveI ACCTGC 2 cut(s) 94, 423
CciI TCATGA 1 cut(s) 505
CfoI GCGC 1 cut(s) 580
Cfr13I GGNCC 3 cut(s) 41, 229, 347
Csp6I GTAC 1 cut(s) 573
CviAII CATG 1 cut(s) 506
CviJI RGCY 8 cut(s) 38, 43, 215, 273, 473, 528, 554, 686
CviKI_1 RGCY 8 cut(s) 38, 43, 215, 273, 473, 528, 554, 686
CviQI GTAC 1 cut(s) 573
DdeI CTNAG 4 cut(s) 18, 401, 524, 600
DinI GGCGCC 1 cut(s) 579
DpnI GATC 6 cut(s) 123, 172, 285, 358, 366, 543
DpnII GATC 6 cut(s) 121, 170, 283, 356, 364, 541
Eco47I GGWCC 2 cut(s) 229, 347
EgeI GGCGCC 1 cut(s) 579
EheI GGCGCC 1 cut(s) 579
FaeI CATG 1 cut(s) 509
FaiI YATR 7 cut(s) 223, 345, 363, 429, 507, 617, 693
FatI CATG 1 cut(s) 505
FbaI TGATCA 1 cut(s) 121
FokI GGATG 1 cut(s) 89
GlaI GCGC 1 cut(s) 579
GsaI CCCAGC 2 cut(s) 42, 210
HaeII RGCGCY 1 cut(s) 581
HaeIII GGCC 1 cut(s) 43
HapII CCGG 1 cut(s) 624
HhaI GCGC 1 cut(s) 580
Hin1I GRCGYC 2 cut(s) 260, 578
Hin1II CATG 1 cut(s) 509
Hin6I GCGC 1 cut(s) 578
HinP1I GCGC 1 cut(s) 578
HincII GTYRAC 1 cut(s) 438
HindII GTYRAC 1 cut(s) 438
HinfI GANTC 2 cut(s) 142, 608
HpaII CCGG 1 cut(s) 624
HphI GGTGA 2 cut(s) 109, 548
Hpy166II GTNNAC 2 cut(s) 88, 438
Hpy188I TCNGA 3 cut(s) 21, 121, 184
Hpy188III TCNNGA 3 cut(s) 245, 325, 506
Hpy8I GTNNAC 2 cut(s) 88, 438
Hpy99I CGWCG 1 cut(s) 265
HpyAV CCTTC 2 cut(s) 53, 641
HpyCH4III ACNGT 1 cut(s) 97
HpyCH4IV ACGT 2 cut(s) 260, 268
HpyF10VI GCNNNNNNNGC 1 cut(s) 577
HpyF3I CTNAG 4 cut(s) 18, 401, 524, 600
HpySE526I ACGT 2 cut(s) 260, 268
Hsp92I GRCGYC 2 cut(s) 260, 578
Hsp92II CATG 1 cut(s) 509
HspAI GCGC 1 cut(s) 578
KasI GGCGCC 1 cut(s) 577
Ksp22I TGATCA 1 cut(s) 121
Kzo9I GATC 6 cut(s) 121, 170, 283, 356, 364, 541
LmnI GCTCC 2 cut(s) 63, 470
MaeII ACGT 2 cut(s) 260, 268
MaeIII GTNAC 1 cut(s) 370
MalI GATC 6 cut(s) 123, 172, 285, 358, 366, 543
MbiI CCGCTC 1 cut(s) 66
MboI GATC 6 cut(s) 121, 170, 283, 356, 364, 541
MboII GAAGA 3 cut(s) 308, 348, 555
MflI RGATCY 2 cut(s) 356, 541
MhlI GDGCHC 1 cut(s) 452
MluCI AATT 3 cut(s) 115, 251, 618
Mly113I GGCGCC 1 cut(s) 578
MlyI GAGTC 1 cut(s) 617
MmeI TCCRAC 3 cut(s) 119, 256, 323
MnlI CCTC 3 cut(s) 4, 93, 533
MseI TTAA 2 cut(s) 381, 702
MslI CAYNNNNRTG 1 cut(s) 507
MspA1I CMGCKG 1 cut(s) 38
MspCI CTTAAG 1 cut(s) 380
MspI CCGG 1 cut(s) 624
Mva1269I GAATGC 1 cut(s) 132
MwoI GCNNNNNNNGC 1 cut(s) 577
NarI GGCGCC 1 cut(s) 578
NdeII GATC 6 cut(s) 121, 170, 283, 356, 364, 541
NlaIII CATG 1 cut(s) 509
NlaIV GGNNCC 3 cut(s) 358, 579, 653
NmuCI GTSAC 1 cut(s) 370
PagI TCATGA 1 cut(s) 505
PaqCI CACCTGC 1 cut(s) 94
PctI GAATGC 1 cut(s) 132
PfeI GAWTC 1 cut(s) 142
Pfl23II CGTACG 1 cut(s) 572
PleI GAGTC 1 cut(s) 616
PluTI GGCGCC 1 cut(s) 581
PpsI GAGTC 1 cut(s) 616
Ppu21I YACGTR 1 cut(s) 269
PspFI CCCAGC 2 cut(s) 38, 206
PspLI CGTACG 1 cut(s) 572
PspN4I GGNNCC 3 cut(s) 358, 579, 653
PspPI GGNCC 3 cut(s) 41, 229, 347
PsuI RGATCY 2 cut(s) 356, 541
PvuII CAGCTG 1 cut(s) 38
RsaI GTAC 1 cut(s) 574
RsaNI GTAC 1 cut(s) 573
RseI CAYNNNNRTG 1 cut(s) 507
SaqAI TTAA 2 cut(s) 381, 702
Sau3AI GATC 6 cut(s) 121, 170, 283, 356, 364, 541
Sau96I GGNCC 3 cut(s) 41, 229, 347
SchI GAGTC 1 cut(s) 617
SduI GDGCHC 1 cut(s) 452
SfoI GGCGCC 1 cut(s) 579
SinI GGWCC 2 cut(s) 229, 347
SmiMI CAYNNNNRTG 1 cut(s) 507
SmlI CTYRAG 1 cut(s) 380
SmoI CTYRAG 1 cut(s) 380
Sse9I AATT 3 cut(s) 115, 251, 618
SsiI CCGC 1 cut(s) 66
SspDI GGCGCC 1 cut(s) 577
TaaI ACNGT 1 cut(s) 97
TaiI ACGT 2 cut(s) 263, 271
TaqI TCGA 1 cut(s) 263
TasI AATT 3 cut(s) 115, 251, 618
TfiI GAWTC 1 cut(s) 142
Tru1I TTAA 2 cut(s) 381, 702
Tru9I TTAA 2 cut(s) 381, 702
TscAI CASTG 1 cut(s) 375
TseFI GTSAC 1 cut(s) 370
Tsp45I GTSAC 1 cut(s) 370
TspDTI ATGAA 3 cut(s) 264, 531, 606
TspRI CASTG 1 cut(s) 375
Vha464I CTTAAG 1 cut(s) 380
VpaK11BI GGWCC 2 cut(s) 229, 347
XapI RAATTY 2 cut(s) 115, 251
XcmI CCANNNNNNNNNTGG 1 cut(s) 493
ZraI GACGTC 1 cut(s) 261
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.