Rh3DG126600

The light-harvesting complex (LHC) functions as a light receptor, it captures and delivers excitation energy to photosystems with which it is closely associated

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0012889
Physical Location & Seq
Forward (+)
10702831 .. 10704266
1436 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG126600.1

Sequence Viewer

Length: 846 bp
ATGGCCGCCGCTACATCCTCATTCATCGGAACCCGCATCCCCGACGTGTACTCCAACTCGGGCCGGGTCCAGGCCAGATTCGGATTCGGGGCCAAGAAGCGGGCCGCGCCCAAGAAGTCCAAGTCCACTTTCACCGACCGCCCGCTCTGGTACCCTGGAGCCAAGGCCCCGGAGTGGCTCGACGGCAGCTTGGTCGGCGACTACGGCTTCGACCCCTTCGGTTTGGGCAAACCCGCCGAGTACTTGCAGTACGACTACGATGGTTTGGACCAGAACCTCGCCAAGAATTTGGCGGGAGATGTCATTGGTACCCGTACCGAAACCTCTGACGTGTCCTCCACACCATTCCAGCCCTACTCTGAAGTCTTCGGGCTTCAGAGGTTCCGTGAGTGCGAGCTCATCCACGGCCGCTGGGCCATGCTCGCCACCCTCGGCGCCCTCACCGTCGAATCACTCACCGGAATTACATGGCAAGATGCCGGAAAGGTGGAGCTGATTGAAGGGTCGTCTTACTTGGGACAGCCCCTTCCATTCTCACTGACCACATTGATCTGGATCGAGGTTCTCTTGATCGGGTACATTGAGTTCCAGAGGAACGCTGAGCTCGACCCCGAGAAGAGGTTGTACCCGGGAGGCAAGTTCTTCGACCCATTGGGCTTGGCTGCTGACCCGGAGAAGAAGGCTACACTTCAACTGGCGGAAATCAAGCATGCACGTCTCGCAATGGTTGGGTTCCTTGGATTTGCTGTGCAGGCTGCTGTCACCGGTAAAGGCCCGCTTAACAACTGGGCTACCCATTTGAGTGACCCGCTCCACACCACCATTATCGATGCCTTCTCCTCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00196 ko01100 map00196 map01100
Pfam Domains
Protein Families
Chloroa_b-bind

Protein Analysis

281

Amino Acids

30.72

Weight (kDa)

5.64

Isoelectric Point (pI)

34.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 56 - 252 3.2e-43 Chlorophyll A-B binding protein
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: OG0012889)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G08940 AT5G01530
fragaria_vesca FvH4_6g11540
malus_domestica MD04G1151300.v1.1 MD12G1165400.v1.1
prunus_persica Prupe.6G276200_v2.0.a1
pyrus_communis pycom04g13720 pycom12g15800
rosa_chinensis RchiOBHm_Chr3g0463241
rosa_laevigata RLG00000024798
rosa_multiflora Rmu_sc0008079.1_g000020
rosa_roxburghii Rroxscaffold_6G00416760
rosa_rugosa Rorug03G0062900
rosa_samantha Rh3AG120900 Rh3BG125400 Rh3CG127400 Rh3DG126600
rosa_wichuraiana Rw3G010270

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 2 cut(s) 150, 308
AccB1I GGYRCC 3 cut(s) 150, 308, 434
AccBSI CCGCTC 2 cut(s) 145, 811
AccII CGCG 1 cut(s) 107
AclWI GGATC 1 cut(s) 563
AcoI YGGCCR 2 cut(s) 3, 406
AcsI RAATTY 1 cut(s) 286
AcuI CTGAAG 2 cut(s) 359, 381
AcyI GRCGYC 1 cut(s) 435
AfaI GTAC 8 cut(s) 50, 152, 242, 251, 310, 316, 578, 626
AfiI CCNNNNNNNGG 4 cut(s) 70, 99, 174, 618
AflIII ACRYGT 2 cut(s) 45, 330
AgeI ACCGGT 1 cut(s) 764
AgsI TTSAA 2 cut(s) 500, 692
AjiI CACGTC 3 cut(s) 46, 331, 716
AjnI CCWGG 2 cut(s) 69, 154
AjuI GAANNNNNNNTTGG 2 cut(s) 113, 145
AluBI AGCT 4 cut(s) 189, 397, 493, 604
AluI AGCT 4 cut(s) 189, 397, 493, 604
Alw21I GWGCWC 2 cut(s) 399, 606
Alw26I GTCTC 1 cut(s) 722
AlwI GGATC 1 cut(s) 563
Ama87I CYCGRG 3 cut(s) 58, 611, 628
AoxI GGCC 9 cut(s) 3, 61, 72, 90, 102, 165, 406, 414, 772
ApeKI GCWGC 3 cut(s) 186, 662, 755
ApoI RAATTY 1 cut(s) 286
ArsI GACNNNNNNTTYG 2 cut(s) 191, 223
AsiGI ACCGGT 1 cut(s) 764
Asp718I GGTACC 2 cut(s) 150, 308
AspLEI GCGC 2 cut(s) 109, 437
AspS9I GGNCC 8 cut(s) 61, 67, 90, 102, 166, 268, 414, 773
AsuC2I CCSGG 5 cut(s) 65, 170, 629, 630, 671
AsuHPI GGTGA 4 cut(s) 124, 433, 448, 754
AvaI CYCGRG 3 cut(s) 58, 611, 628
AvaII GGWCC 2 cut(s) 67, 268
BanI GGYRCC 3 cut(s) 150, 308, 434
BanII GRGCYC 2 cut(s) 399, 606
BarI GAAGNNNNNNTAC 2 cut(s) 608, 640
BbsI GAAGAC 1 cut(s) 358
Bbv12I GWGCWC 2 cut(s) 399, 606
BbvI GCAGC 3 cut(s) 198, 649, 742
BccI CCATC 1 cut(s) 254
BceAI ACGGC 3 cut(s) 199, 220, 421
BcgI CGANNNNNNTGC 4 cut(s) 175, 209, 625, 659
BciT130I CCWGG 2 cut(s) 71, 156
BcnI CCSGG 5 cut(s) 65, 170, 629, 630, 671
BcoDI GTCTC 1 cut(s) 722
BfoI RGCGCY 1 cut(s) 438
BisI GCNGC 7 cut(s) 6, 9, 105, 187, 409, 663, 756
BlpI GCTNAGC 1 cut(s) 600
BlsI GCNGC 7 cut(s) 7, 10, 106, 188, 410, 664, 757
BmcAI AGTACT 1 cut(s) 242
Bme1390I CCNGG 7 cut(s) 65, 71, 156, 170, 629, 630, 671
Bme18I GGWCC 2 cut(s) 67, 268
BmeT110I CYCGRG 3 cut(s) 58, 611, 628
BmgBI CACGTC 3 cut(s) 46, 331, 716
BmgT120I GGNCC 8 cut(s) 61, 67, 90, 102, 166, 268, 414, 773
BmrFI CCNGG 7 cut(s) 65, 71, 156, 170, 629, 630, 671
BmrI ACTGGG 1 cut(s) 796
BmsI GCATC 3 cut(s) 45, 466, 820
BmuI ACTGGG 1 cut(s) 796
BpiI GAAGAC 1 cut(s) 358
BpmI CTGGAG 1 cut(s) 177
Bpu1102I GCTNAGC 1 cut(s) 600
BpuMI CCSGG 5 cut(s) 65, 170, 629, 630, 671
Bsa29I ATCGAT 1 cut(s) 828
BsaBI GATNNNNATC 1 cut(s) 554
BsaHI GRCGYC 1 cut(s) 435
BsaJI CCNNGG 7 cut(s) 154, 162, 168, 403, 430, 628, 736
BsaWI WCCGGW 2 cut(s) 458, 764
BsaXI ACNNNNNCTCC 4 cut(s) 35, 65, 320, 350
Bsc4I CCNNNNNNNGG 4 cut(s) 70, 99, 174, 618
Bse118I RCCGGY 1 cut(s) 764
Bse1I ACTGG 2 cut(s) 699, 791
Bse3DI GCAATG 1 cut(s) 729
Bse8I GATNNNNATC 1 cut(s) 554
BseBI CCWGG 2 cut(s) 71, 156
BseCI ATCGAT 1 cut(s) 828
BseDI CCNNGG 7 cut(s) 154, 162, 168, 403, 430, 628, 736
BseGI GGATG 3 cut(s) 14, 36, 399
BseJI GATNNNNATC 1 cut(s) 554
BseLI CCNNNNNNNGG 4 cut(s) 70, 99, 174, 618
BseMI GCAATG 1 cut(s) 729
BseMII CTCAG 1 cut(s) 591
BseNI ACTGG 2 cut(s) 699, 791
BseRI GAGGAG 1 cut(s) 829
BseX3I CGGCCG 1 cut(s) 406
BseXI GCAGC 3 cut(s) 198, 649, 742
BseYI CCCAGC 1 cut(s) 411
BsgI GTGCAG 1 cut(s) 770
Bsh1236I CGCG 1 cut(s) 107
Bsh1285I CGRYCG 2 cut(s) 139, 409
BshFI GGCC 9 cut(s) 5, 63, 74, 92, 104, 167, 408, 416, 774
BshNI GGYRCC 3 cut(s) 150, 308, 434
BshTI ACCGGT 1 cut(s) 764
BshVI ATCGAT 1 cut(s) 828
BsiEI CGRYCG 2 cut(s) 139, 409
BsiHKAI GWGCWC 2 cut(s) 399, 606
BsiHKCI CYCGRG 3 cut(s) 58, 611, 628
BsiSI CCGG 7 cut(s) 64, 170, 459, 480, 629, 671, 765
BslFI GGGAC 1 cut(s) 531
BslI CCNNNNNNNGG 4 cut(s) 70, 99, 174, 618
BsmAI GTCTC 1 cut(s) 722
BsmBI CGTCTC 1 cut(s) 722
BsmFI GGGAC 1 cut(s) 531
BsnI GGCC 9 cut(s) 5, 63, 74, 92, 104, 167, 408, 416, 774
BsoBI CYCGRG 3 cut(s) 58, 611, 628
Bsp1286I GDGCHC 2 cut(s) 399, 606
Bsp143I GATC 3 cut(s) 549, 555, 570
Bsp1720I GCTNAGC 1 cut(s) 600
BspANI GGCC 9 cut(s) 5, 63, 74, 92, 104, 167, 408, 416, 774
BspCNI CTCAG 1 cut(s) 592
BspDI ATCGAT 1 cut(s) 828
BspFNI CGCG 1 cut(s) 107
BspPI GGATC 1 cut(s) 563
BspT107I GGYRCC 3 cut(s) 150, 308, 434
BsrBI CCGCTC 2 cut(s) 145, 811
BsrDI GCAATG 1 cut(s) 729
BsrFI RCCGGY 1 cut(s) 764
BsrI ACTGG 2 cut(s) 699, 791
BssAI RCCGGY 1 cut(s) 764
BssECI CCNNGG 7 cut(s) 154, 162, 168, 403, 430, 628, 736
BssMI GATC 3 cut(s) 549, 555, 570
BssNI GRCGYC 1 cut(s) 435
BssT1I CCWWGG 2 cut(s) 162, 736
Bst2UI CCWGG 2 cut(s) 71, 156
Bst4CI ACNGT 1 cut(s) 445
Bst6I CTCTTC 1 cut(s) 611
BstACI GRCGYC 1 cut(s) 435
BstC8I GCNNGC 7 cut(s) 102, 143, 395, 423, 711, 753, 776
BstDEI CTNAG 1 cut(s) 600
BstDSI CCRYGG 1 cut(s) 403
BstF5I GGATG 3 cut(s) 14, 36, 399
BstFNI CGCG 1 cut(s) 107
BstH2I RGCGCY 1 cut(s) 438
BstHHI GCGC 2 cut(s) 109, 437
BstKTI GATC 3 cut(s) 552, 558, 573
BstMAI GTCTC 1 cut(s) 722
BstMBI GATC 3 cut(s) 549, 555, 570
BstMCI CGRYCG 2 cut(s) 139, 409
BstMWI GCNNNNNNNGC 6 cut(s) 106, 195, 204, 422, 719, 752
BstNI CCWGG 2 cut(s) 71, 156
BstNSI RCATGY 1 cut(s) 713
BstSCI CCNGG 7 cut(s) 63, 69, 154, 168, 627, 628, 669
BstUI CGCG 1 cut(s) 107
BstV1I GCAGC 3 cut(s) 198, 649, 742
BstV2I GAAGAC 1 cut(s) 358
BstXI CCANNNNNNTGG 1 cut(s) 289
BstZI CGGCCG 1 cut(s) 406
Bsu15I ATCGAT 1 cut(s) 828
BsuRI GGCC 9 cut(s) 5, 63, 74, 92, 104, 167, 408, 416, 774
BsuTUI ATCGAT 1 cut(s) 828
BtgI CCRYGG 1 cut(s) 403
BtrI CACGTC 3 cut(s) 46, 331, 716
BtsCI GGATG 3 cut(s) 14, 36, 399
BtsIMutI CAGTG 1 cut(s) 536
Cac8I GCNNGC 7 cut(s) 102, 143, 395, 423, 711, 753, 776
CfoI GCGC 2 cut(s) 109, 437
Cfr10I RCCGGY 1 cut(s) 764
Cfr13I GGNCC 8 cut(s) 61, 67, 90, 102, 166, 268, 414, 773
Cfr9I CCCGGG 1 cut(s) 628
ClaI ATCGAT 1 cut(s) 828
Csp6I GTAC 8 cut(s) 49, 151, 241, 250, 309, 315, 577, 625
CspAI ACCGGT 1 cut(s) 764
CviAII CATG 3 cut(s) 418, 468, 710
CviQI GTAC 8 cut(s) 49, 151, 241, 250, 309, 315, 577, 625
DdeI CTNAG 1 cut(s) 600
DinI GGCGCC 1 cut(s) 436
DpnI GATC 3 cut(s) 551, 557, 572
DpnII GATC 3 cut(s) 549, 555, 570
EaeI YGGCCR 2 cut(s) 3, 406
EagI CGGCCG 1 cut(s) 406
Eam1104I CTCTTC 1 cut(s) 611
EarI CTCTTC 1 cut(s) 611
EciI GGCGGA 1 cut(s) 713
Ecl136II GAGCTC 2 cut(s) 397, 604
EclXI CGGCCG 1 cut(s) 406
Eco130I CCWWGG 2 cut(s) 162, 736
Eco24I GRGCYC 2 cut(s) 399, 606
Eco47I GGWCC 2 cut(s) 67, 268
Eco52I CGGCCG 1 cut(s) 406
Eco53kI GAGCTC 2 cut(s) 397, 604
Eco57I CTGAAG 2 cut(s) 359, 381
Eco88I CYCGRG 3 cut(s) 58, 611, 628
EcoICRI GAGCTC 2 cut(s) 397, 604
EcoO109I RGGNCCY 1 cut(s) 166
EcoRII CCWGG 2 cut(s) 69, 154
EcoT14I CCWWGG 2 cut(s) 162, 736
EcoT38I GRGCYC 2 cut(s) 399, 606
EgeI GGCGCC 1 cut(s) 436
EheI GGCGCC 1 cut(s) 436
ErhI CCWWGG 2 cut(s) 162, 736
Esp3I CGTCTC 1 cut(s) 722
FaeI CATG 3 cut(s) 421, 471, 713
FaiI YATR 3 cut(s) 419, 469, 711
FalI AAGNNNNNCTT 2 cut(s) 762, 794
FaqI GGGAC 1 cut(s) 531
FatI CATG 3 cut(s) 417, 467, 709
FauI CCCGC 7 cut(s) 41, 93, 150, 241, 286, 783, 816
Fnu4HI GCNGC 7 cut(s) 6, 9, 105, 187, 409, 663, 756
FokI GGATG 2 cut(s) 23, 386
FriOI GRGCYC 2 cut(s) 399, 606
Fsp4HI GCNGC 7 cut(s) 6, 9, 105, 187, 409, 663, 756
GlaI GCGC 2 cut(s) 108, 436
GluI GCNGC 7 cut(s) 6, 9, 105, 187, 409, 663, 756
GsaI CCCAGC 1 cut(s) 415
GsuI CTGGAG 1 cut(s) 177
HaeII RGCGCY 1 cut(s) 438
HaeIII GGCC 9 cut(s) 5, 63, 74, 92, 104, 167, 408, 416, 774
HapII CCGG 7 cut(s) 64, 170, 459, 480, 629, 671, 765
HhaI GCGC 2 cut(s) 109, 437
Hin1I GRCGYC 1 cut(s) 435
Hin1II CATG 3 cut(s) 421, 471, 713
Hin6I GCGC 2 cut(s) 107, 435
HinP1I GCGC 2 cut(s) 107, 435
HinfI GANTC 3 cut(s) 78, 84, 449
HpaII CCGG 7 cut(s) 64, 170, 459, 480, 629, 671, 765
HphI GGTGA 4 cut(s) 124, 433, 448, 754
Hpy166II GTNNAC 2 cut(s) 49, 126
Hpy188I TCNGA 5 cut(s) 29, 83, 328, 361, 378
Hpy188III TCNNGA 4 cut(s) 553, 568, 589, 843
Hpy8I GTNNAC 2 cut(s) 49, 126
Hpy99I CGWCG 3 cut(s) 47, 185, 449
HpyAV CCTTC 5 cut(s) 226, 494, 536, 673, 844
HpyCH4III ACNGT 1 cut(s) 445
HpyCH4IV ACGT 3 cut(s) 45, 330, 715
HpyCH4V TGCA 3 cut(s) 247, 713, 751
HpyF10VI GCNNNNNNNGC 6 cut(s) 106, 195, 204, 422, 719, 752
HpyF3I CTNAG 1 cut(s) 600
HpySE526I ACGT 3 cut(s) 45, 330, 715
Hsp92I GRCGYC 1 cut(s) 435
Hsp92II CATG 3 cut(s) 421, 471, 713
HspAI GCGC 2 cut(s) 107, 435
KasI GGCGCC 1 cut(s) 434
KpnI GGTACC 2 cut(s) 154, 312
Kzo9I GATC 3 cut(s) 549, 555, 570
LmnI GCTCC 3 cut(s) 158, 490, 816
Lsp1109I GCAGC 3 cut(s) 198, 649, 742
LweI GCATC 3 cut(s) 45, 466, 820
MaeII ACGT 3 cut(s) 45, 330, 715
MaeIII GTNAC 2 cut(s) 760, 803
MalI GATC 3 cut(s) 551, 557, 572
MbiI CCGCTC 2 cut(s) 145, 811
MboI GATC 3 cut(s) 549, 555, 570
MboII GAAGA 4 cut(s) 358, 628, 634, 688
MhlI GDGCHC 2 cut(s) 399, 606
MluCI AATT 2 cut(s) 286, 462
Mly113I GGCGCC 1 cut(s) 435
MmeI TCCRAC 1 cut(s) 78
MseI TTAA 1 cut(s) 780
MslI CAYNNNNRTG 1 cut(s) 801
MspA1I CMGCKG 1 cut(s) 411
MspI CCGG 7 cut(s) 64, 170, 459, 480, 629, 671, 765
MspR9I CCNGG 7 cut(s) 65, 71, 156, 170, 629, 630, 671
MvaI CCWGG 2 cut(s) 71, 156
MvnI CGCG 1 cut(s) 107
MwoI GCNNNNNNNGC 6 cut(s) 106, 195, 204, 422, 719, 752
NarI GGCGCC 1 cut(s) 435
NciI CCSGG 5 cut(s) 65, 170, 629, 630, 671
NdeII GATC 3 cut(s) 549, 555, 570
NlaIII CATG 3 cut(s) 421, 471, 713
NmeAIII GCCGAG 2 cut(s) 262, 411
NmuCI GTSAC 2 cut(s) 760, 803
NspI RCATGY 1 cut(s) 713
PaeI GCATGC 1 cut(s) 713
PcsI WCGNNNNNNNCGW 1 cut(s) 603
PfeI GAWTC 3 cut(s) 78, 84, 449
PinAI ACCGGT 1 cut(s) 764
PkrI GCNGC 7 cut(s) 7, 10, 106, 188, 410, 664, 757
PluTI GGCGCC 1 cut(s) 438
Psp124BI GAGCTC 2 cut(s) 399, 606
Psp6I CCWGG 2 cut(s) 69, 154
PspFI CCCAGC 1 cut(s) 411
PspGI CCWGG 2 cut(s) 69, 154
PspPI GGNCC 8 cut(s) 61, 67, 90, 102, 166, 268, 414, 773
PsrI GAACNNNNNNTAC 2 cut(s) 569, 601
RsaI GTAC 8 cut(s) 50, 152, 242, 251, 310, 316, 578, 626
RsaNI GTAC 8 cut(s) 49, 151, 241, 250, 309, 315, 577, 625
RseI CAYNNNNRTG 1 cut(s) 801
SacI GAGCTC 2 cut(s) 399, 606
SaqAI TTAA 1 cut(s) 780
SatI GCNGC 7 cut(s) 6, 9, 105, 187, 409, 663, 756
Sau3AI GATC 3 cut(s) 549, 555, 570
Sau96I GGNCC 8 cut(s) 61, 67, 90, 102, 166, 268, 414, 773
ScaI AGTACT 1 cut(s) 242
ScrFI CCNGG 7 cut(s) 65, 71, 156, 170, 629, 630, 671
SduI GDGCHC 2 cut(s) 399, 606
SfaNI GCATC 3 cut(s) 45, 466, 820
SfoI GGCGCC 1 cut(s) 436
SinI GGWCC 2 cut(s) 67, 268
SmaI CCCGGG 1 cut(s) 630
SmiMI CAYNNNNRTG 1 cut(s) 801
SphI GCATGC 1 cut(s) 713
Sse9I AATT 2 cut(s) 286, 462
SspDI GGCGCC 1 cut(s) 434
SstI GAGCTC 2 cut(s) 399, 606
StyD4I CCNGG 7 cut(s) 63, 69, 154, 168, 627, 628, 669
StyI CCWWGG 2 cut(s) 162, 736
TaaI ACNGT 1 cut(s) 445
TaiI ACGT 3 cut(s) 48, 333, 718
TaqI TCGA 7 cut(s) 180, 210, 447, 558, 606, 645, 828
TasI AATT 2 cut(s) 286, 462
TatI WGTACW 2 cut(s) 48, 240
TauI GCSGC 4 cut(s) 8, 11, 107, 411
TfiI GAWTC 3 cut(s) 78, 84, 449
Tru1I TTAA 1 cut(s) 780
Tru9I TTAA 1 cut(s) 780
TscAI CASTG 1 cut(s) 543
TseFI GTSAC 2 cut(s) 760, 803
TseI GCWGC 3 cut(s) 186, 662, 755
Tsp45I GTSAC 2 cut(s) 760, 803
TspDTI ATGAA 1 cut(s) 13
TspGWI ACGGA 1 cut(s) 374
TspMI CCCGGG 1 cut(s) 628
TspRI CASTG 1 cut(s) 543
VpaK11BI GGWCC 2 cut(s) 67, 268
XapI RAATTY 1 cut(s) 286
XceI RCATGY 1 cut(s) 713
XmaI CCCGGG 1 cut(s) 628
ZrmI AGTACT 1 cut(s) 242
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.