Rh6AG287700

Protein LOW PSII ACCUMULATION 1

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr6A
OG0011140
Physical Location & Seq
Reverse (-)
48395936 .. 48398155
2220 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG287700.1

Sequence Viewer

Length: 792 bp
ATGATAATTGGTGTTTGTTTGTTCTTCAGTTCCACGGCCAGGATTAGGAGTGAAGTTCTCACTCCCTTTCGCTCCGTTCGGATGTTTTTCTATCTTGCTTTCATTGCAAGTGGTGGTTTAGGAACACTGATAGCAACCACACAATTGATTGCAGCACTAACAAACCCATCAAGAGCACTTGATGCCCCTGAAATTGCAAAGGGTCTCGGCATAGACATTTGCGCGGTGTCTCTCTTTGCATTCTTGTATTATAGGGAGAACACTGCTAAGAATGCGCAGATTGCTAGGCTGTCAAGAGAGGAGAACCTTTCGAATCTTAAGCTCCGTGTGGATGAAAAGAGGGTCATTCCTGTCAGCTCTTTGAGAGGGTTTGCTAGGCTTGTGATATGTGCTGGCCCTGCATCGTTCATCACTGAGTCATTTAAGTTCAGCGAGCCTTTCACTGAAGGGCTTGTGGAAAGAGGAGTGTTGGTGGTGCCCTTTGCTACGGATGGTAATTCACCAAGTTTTGAGTTTGATGAAAGTGAAGAGTATAAGGATTTTACTTCAAAGAGAAAGAGACTCTGGCAGCTGAATCCAGTTATTGTTAGTGAATGGACCAATTGGTTAGATGAACAAAAGAAACTGGCTGGTGTCTCCTCTGACTCTCCTGTGTATATATCTCTACGCCTGGACGGTCGTGTTCGTGGCAGTGGCATAGGTTACCCGCCTTGGAATGCTTTTGTTGCACAGTTACCACCTGTTAAGGGAATGTGGTCAGGTCTTCTGGATGGTTTTGATGGAAGAGTTTAA
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
DUF3493

Protein Analysis

263

Amino Acids

29.15

Weight (kDa)

8.76

Isoelectric Point (pI)

44.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
DUF3493 PF11998 10 - 87 8.8e-25 Low psii accumulation1 / Rep27
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: OG0011140)

Species Orthologous Gene IDs
arabidopsis_thaliana AT4G28740
fragaria_vesca FvH4_2g19970 FvH4_2g19970 FvH4_2g19970
malus_domestica MD05G1184000.v1.1 MD10G1171900.v1.1
prunus_persica Prupe.8G210100_v2.0.a1
pyrus_communis pycom05g16900 pycom10g14840
rosa_chinensis RchiOBHm_Chr6g0285631
rosa_laevigata RLG00000012620
rosa_multiflora Rmu_sc0001356.1_g000023
rosa_roxburghii Rroxscaffold_7G00182870
rosa_rugosa Rorug06G0176200 Rorug06G0176200
rosa_samantha Rh6AG287700 Rh6BG289100 Rh6CG290300 Rh6DG283000
rosa_wichuraiana Rw6G024740

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 276
AccB1I GGYRCC 1 cut(s) 475
AccII CGCG 1 cut(s) 224
AciI CCGC 2 cut(s) 224, 707
AcoI YGGCCR 1 cut(s) 36
AcuI CTGAAG 2 cut(s) 10, 465
AfiI CCNNNNNNNGG 3 cut(s) 39, 45, 746
AflII CTTAAG 1 cut(s) 317
AgsI TTSAA 1 cut(s) 549
AjnI CCWGG 2 cut(s) 38, 669
AluBI AGCT 3 cut(s) 322, 357, 571
AluI AGCT 3 cut(s) 322, 357, 571
Alw21I GWGCWC 1 cut(s) 178
Alw26I GTCTC 4 cut(s) 209, 234, 553, 640
AoxI GGCC 2 cut(s) 36, 394
ApeKI GCWGC 2 cut(s) 152, 568
AspLEI GCGC 2 cut(s) 224, 277
AspS9I GGNCC 2 cut(s) 395, 597
AsuHPI GGTGA 1 cut(s) 492
AsuII TTCGAA 1 cut(s) 311
AvaII GGWCC 1 cut(s) 597
BaeGI GKGCMC 1 cut(s) 480
BanI GGYRCC 1 cut(s) 475
BbsI GAAGAC 1 cut(s) 755
Bbv12I GWGCWC 1 cut(s) 178
BbvI GCAGC 2 cut(s) 164, 580
BccI CCATC 4 cut(s) 175, 485, 764, 773
BceAI ACGGC 1 cut(s) 51
BciT130I CCWGG 2 cut(s) 40, 671
BcoDI GTCTC 4 cut(s) 209, 234, 553, 640
BfaI CTAG 2 cut(s) 285, 375
BfrI CTTAAG 1 cut(s) 317
BisI GCNGC 2 cut(s) 153, 569
BlsI GCNGC 2 cut(s) 154, 570
Bme1390I CCNGG 2 cut(s) 40, 671
Bme18I GGWCC 1 cut(s) 597
BmgT120I GGNCC 2 cut(s) 395, 597
BmiI GGNNCC 1 cut(s) 477
BmrFI CCNGG 2 cut(s) 40, 671
BmsI GCATC 2 cut(s) 172, 410
BpiI GAAGAC 1 cut(s) 755
Bpu14I TTCGAA 1 cut(s) 311
BsaI GGTCTC 1 cut(s) 209
BsaJI CCNNGG 2 cut(s) 33, 710
BsaXI ACNNNNNCTCC 2 cut(s) 456, 486
Bsc4I CCNNNNNNNGG 3 cut(s) 39, 45, 746
Bse1I ACTGG 2 cut(s) 578, 630
Bse3DI GCAATG 1 cut(s) 102
BseBI CCWGG 2 cut(s) 40, 671
BseDI CCNNGG 2 cut(s) 33, 710
BseGI GGATG 4 cut(s) 87, 337, 496, 775
BseLI CCNNNNNNNGG 3 cut(s) 39, 45, 746
BseMI GCAATG 1 cut(s) 102
BseMII CTCAG 1 cut(s) 405
BseNI ACTGG 2 cut(s) 578, 630
BseRI GAGGAG 3 cut(s) 314, 477, 628
BseSI GKGCMC 1 cut(s) 480
BseXI GCAGC 2 cut(s) 164, 580
Bsh1236I CGCG 1 cut(s) 224
Bsh1285I CGRYCG 1 cut(s) 679
BshFI GGCC 2 cut(s) 38, 396
BshNI GGYRCC 1 cut(s) 475
BsiEI CGRYCG 1 cut(s) 679
BsiHKAI GWGCWC 1 cut(s) 178
BslI CCNNNNNNNGG 3 cut(s) 39, 45, 746
BsmAI GTCTC 4 cut(s) 209, 234, 553, 640
BsmI GAATGC 3 cut(s) 239, 277, 721
BsnI GGCC 2 cut(s) 38, 396
Bso31I GGTCTC 1 cut(s) 209
Bsp119I TTCGAA 1 cut(s) 311
Bsp1286I GDGCHC 2 cut(s) 178, 480
BspACI CCGC 2 cut(s) 224, 707
BspANI GGCC 2 cut(s) 38, 396
BspCNI CTCAG 1 cut(s) 406
BspFNI CGCG 1 cut(s) 224
BspLI GGNNCC 1 cut(s) 477
BspT104I TTCGAA 1 cut(s) 311
BspT107I GGYRCC 1 cut(s) 475
BspTI CTTAAG 1 cut(s) 317
BspTNI GGTCTC 1 cut(s) 209
BsrDI GCAATG 1 cut(s) 102
BsrI ACTGG 2 cut(s) 578, 630
BssECI CCNNGG 2 cut(s) 33, 710
BssT1I CCWWGG 1 cut(s) 710
Bst2UI CCWGG 2 cut(s) 40, 671
Bst4CI ACNGT 2 cut(s) 677, 732
Bst6I CTCTTC 2 cut(s) 522, 778
BstAFI CTTAAG 1 cut(s) 317
BstAPI GCANNNNNTGC 1 cut(s) 182
BstBI TTCGAA 1 cut(s) 311
BstC8I GCNNGC 2 cut(s) 394, 434
BstDEI CTNAG 2 cut(s) 267, 414
BstDSI CCRYGG 1 cut(s) 33
BstEII GGTNACC 1 cut(s) 701
BstF5I GGATG 4 cut(s) 87, 337, 496, 775
BstFNI CGCG 1 cut(s) 224
BstHHI GCGC 2 cut(s) 224, 277
BstMAI GTCTC 4 cut(s) 209, 234, 553, 640
BstMCI CGRYCG 1 cut(s) 679
BstMWI GCNNNNNNNGC 6 cut(s) 104, 182, 272, 281, 398, 725
BstNI CCWGG 2 cut(s) 40, 671
BstPI GGTNACC 1 cut(s) 701
BstSCI CCNGG 2 cut(s) 38, 669
BstSLI GKGCMC 1 cut(s) 480
BstUI CGCG 1 cut(s) 224
BstV1I GCAGC 2 cut(s) 164, 580
BstV2I GAAGAC 1 cut(s) 755
BsuRI GGCC 2 cut(s) 38, 396
BtgI CCRYGG 1 cut(s) 33
BtsCI GGATG 4 cut(s) 87, 337, 496, 775
BtsI GCAGTG 2 cut(s) 261, 697
BtsIMutI CAGTG 5 cut(s) 125, 261, 411, 441, 697
Cac8I GCNNGC 2 cut(s) 394, 434
CfoI GCGC 2 cut(s) 224, 277
Cfr13I GGNCC 2 cut(s) 395, 597
DdeI CTNAG 2 cut(s) 267, 414
EaeI YGGCCR 1 cut(s) 36
Eam1104I CTCTTC 2 cut(s) 522, 778
EarI CTCTTC 2 cut(s) 522, 778
Eco130I CCWWGG 1 cut(s) 710
Eco31I GGTCTC 1 cut(s) 209
Eco47I GGWCC 1 cut(s) 597
Eco57I CTGAAG 2 cut(s) 10, 465
Eco91I GGTNACC 1 cut(s) 701
EcoO65I GGTNACC 1 cut(s) 701
EcoRII CCWGG 2 cut(s) 38, 669
EcoT14I CCWWGG 1 cut(s) 710
ErhI CCWWGG 1 cut(s) 710
FaiI YATR 7 cut(s) 212, 252, 388, 534, 657, 659, 698
FauI CCCGC 1 cut(s) 714
Fnu4HI GCNGC 2 cut(s) 153, 569
FokI GGATG 4 cut(s) 94, 344, 503, 782
Fsp4HI GCNGC 2 cut(s) 153, 569
FspBI CTAG 2 cut(s) 285, 375
FspI TGCGCA 1 cut(s) 276
GlaI GCGC 2 cut(s) 223, 276
GluI GCNGC 2 cut(s) 153, 569
HaeIII GGCC 2 cut(s) 38, 396
HhaI GCGC 2 cut(s) 224, 277
Hin6I GCGC 2 cut(s) 222, 275
HinP1I GCGC 2 cut(s) 222, 275
HinfI GANTC 5 cut(s) 313, 416, 561, 574, 644
HphI GGTGA 1 cut(s) 492
Hpy188I TCNGA 2 cut(s) 81, 643
Hpy188III TCNNGA 3 cut(s) 171, 294, 767
HpyAV CCTTC 1 cut(s) 440
HpyCH4III ACNGT 2 cut(s) 677, 732
HpyCH4V TGCA 6 cut(s) 107, 152, 197, 239, 401, 728
HpyF10VI GCNNNNNNNGC 6 cut(s) 104, 182, 272, 281, 398, 725
HpyF3I CTNAG 2 cut(s) 267, 414
HspAI GCGC 2 cut(s) 222, 275
LmnI GCTCC 2 cut(s) 77, 327
Lsp1109I GCAGC 2 cut(s) 164, 580
LweI GCATC 2 cut(s) 172, 410
MaeI CTAG 2 cut(s) 285, 375
MaeIII GTNAC 2 cut(s) 701, 732
MboII GAAGA 3 cut(s) 16, 539, 755
MfeI CAATTG 2 cut(s) 143, 601
MhlI GDGCHC 2 cut(s) 178, 480
MluCI AATT 5 cut(s) 6, 143, 192, 496, 601
MlyI GAGTC 3 cut(s) 425, 555, 638
MnlI CCTC 5 cut(s) 292, 333, 359, 455, 649
MseI TTAA 4 cut(s) 318, 423, 744, 790
MspA1I CMGCKG 1 cut(s) 571
MspCI CTTAAG 1 cut(s) 317
MspR9I CCNGG 2 cut(s) 40, 671
MunI CAATTG 2 cut(s) 143, 601
Mva1269I GAATGC 3 cut(s) 239, 277, 721
MvaI CCWGG 2 cut(s) 40, 671
MvnI CGCG 1 cut(s) 224
MwoI GCNNNNNNNGC 6 cut(s) 104, 182, 272, 281, 398, 725
NlaIV GGNNCC 1 cut(s) 477
NmeAIII GCCGAG 1 cut(s) 186
NsbI TGCGCA 1 cut(s) 276
NspV TTCGAA 1 cut(s) 311
PctI GAATGC 3 cut(s) 239, 277, 721
PfeI GAWTC 2 cut(s) 313, 574
PkrI GCNGC 2 cut(s) 154, 570
PleI GAGTC 3 cut(s) 424, 555, 638
PpsI GAGTC 3 cut(s) 424, 555, 638
Psp6I CCWGG 2 cut(s) 38, 669
PspEI GGTNACC 1 cut(s) 701
PspGI CCWGG 2 cut(s) 38, 669
PspN4I GGNNCC 1 cut(s) 477
PspPI GGNCC 2 cut(s) 395, 597
PvuII CAGCTG 1 cut(s) 571
SaqAI TTAA 4 cut(s) 318, 423, 744, 790
SatI GCNGC 2 cut(s) 153, 569
Sau96I GGNCC 2 cut(s) 395, 597
SchI GAGTC 3 cut(s) 425, 555, 638
ScrFI CCNGG 2 cut(s) 40, 671
SduI GDGCHC 2 cut(s) 178, 480
SetI ASST 7 cut(s) 309, 324, 359, 573, 703, 742, 763
SfaNI GCATC 2 cut(s) 172, 410
SfuI TTCGAA 1 cut(s) 311
SinI GGWCC 1 cut(s) 597
SmlI CTYRAG 1 cut(s) 317
SmoI CTYRAG 1 cut(s) 317
Sse9I AATT 5 cut(s) 6, 143, 192, 496, 601
SsiI CCGC 2 cut(s) 224, 707
SspMI CTAG 2 cut(s) 285, 375
StyD4I CCNGG 2 cut(s) 38, 669
StyI CCWWGG 1 cut(s) 710
TaaI ACNGT 2 cut(s) 677, 732
TaqI TCGA 1 cut(s) 311
TasI AATT 5 cut(s) 6, 143, 192, 496, 601
TfiI GAWTC 2 cut(s) 313, 574
Tru1I TTAA 4 cut(s) 318, 423, 744, 790
Tru9I TTAA 4 cut(s) 318, 423, 744, 790
TscAI CASTG 5 cut(s) 132, 268, 418, 448, 697
TseI GCWGC 2 cut(s) 152, 568
TspDTI ATGAA 5 cut(s) 91, 348, 397, 534, 627
TspGWI ACGGA 3 cut(s) 64, 314, 503
TspRI CASTG 5 cut(s) 132, 268, 418, 448, 697
Vha464I CTTAAG 1 cut(s) 317
VpaK11BI GGWCC 1 cut(s) 597
XspI CTAG 2 cut(s) 285, 375
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.