AT2G40100

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
arabidopsis_thaliana
2
OG0015003
Physical Location & Seq
Forward (+)
16745628 .. 16747424
1797 bp
Loading structure...
UTR
Exon/CDS
Intron
AT2G40100.2

Sequence Viewer

Length: 831 bp
ATGGCTACCACCACTGCAGCAGCAGCCTCAGGTATTTTTGGGATCCGGATTCAAGATCCTAGACCTGGAACCGGTAGGGTCCAAGCCCGGTTCGGGTTCAGTTTCGGAAAAAAGAAACCGGCTCCACCGCCAAAGAAATCAAGGCAGGTCCAAGACGATGGAGACAGACTAGTTTGGTTCCCCGGCGCAAACCCGCCGGAATGGTTGGACGGATCGATGATCGGAGACCGTGGATTTGATCCGTTTGGTTTAGGTAAACCGGCTGAGTATCTTCAGTACGATTTCGATGGACTTGACCAAAACCTTGCCAAGAACGTGGCGGGTGACATCATCGGGATCATCCAAGAATCTTCGGAGATCAAACCGACGCCGTTTCAGCCGTACACTGAAGTCTTTGGGATCCAACGGTTCAGAGAATGTGAGCTGATCCATGGAAGGTGGGCCATGCTTGGCACTCTAGGCGCCATCGCCGTAGAGGCTCTTACAGGAATTGCATGGCAAGACGCCGGAAAGGTGGAATTGGTGGAAGGATCATCGTATTTGGGACAACCATTGCCGTTCTCGTTGACGACGTTGATATGGATAGAAGTGTTAGTGGTCGGATACATTGAGTTCCAACGTAACTCTGAACTGGATCCAGAGAAACGGATTTACCCGGGTGGGTATTTTGACCCGTTGGGACTCGCGGCTGATCCAGAGAAGTTGGATACTTTGAAGCTGGCTGAGATAAAGCACTCTCGTCTCGCTATGGTCGCATTTCTCATCTTTGCTCTTCAGGCGGCCTTTACCGGCAAAGGCCCTGTCAGCTTCCTTGCCACCTTTAACAATTAG

Protein Analysis

276

Amino Acids

30.21

Weight (kDa)

5.23

Isoelectric Point (pI)

35.02

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 65 - 168 7.5e-18 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: OG0015003)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G40100
fragaria_vesca FvH4_7g24350
malus_domestica MD01G1132800.v1.1
prunus_persica Prupe.2G248900_v2.0.a1
pyrus_communis pycom01g16940
rosa_chinensis RchiOBHm_Chr1g0370011
rosa_laevigata RLG00000027078
rosa_multiflora Rmu_sc0005056.1_g000015
rosa_roxburghii Rroxscaffold_4G00286870 Rroxscaffold_4G00287160
rosa_rugosa Rorug01G0353400
rosa_samantha Rh1AG362100 Rh1BG325300 Rh1CG338600 Rh1DG355800
rosa_wichuraiana Rw1G031860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 136
AccB1I GGYRCC 1 cut(s) 461
AccII CGCG 1 cut(s) 686
AccIII TCCGGA 1 cut(s) 45
AciI CCGC 5 cut(s) 128, 194, 320, 686, 779
AcuI CTGAAG 3 cut(s) 257, 408, 758
AcyI GRCGYC 3 cut(s) 368, 462, 504
AfaI GTAC 2 cut(s) 278, 383
AfiI CCNNNNNNNGG 3 cut(s) 65, 71, 93
AgeI ACCGGT 1 cut(s) 71
AgsI TTSAA 2 cut(s) 53, 715
AhlI ACTAGT 1 cut(s) 169
AjnI CCWGG 1 cut(s) 64
AluBI AGCT 3 cut(s) 424, 718, 807
AluI AGCT 3 cut(s) 424, 718, 807
Alw26I GTCTC 3 cut(s) 156, 219, 746
Ama87I CYCGRG 1 cut(s) 655
Aor13HI TCCGGA 1 cut(s) 45
AoxI GGCC 3 cut(s) 441, 780, 796
ApeKI GCWGC 3 cut(s) 17, 20, 23
ArsI GACNNNNNNTTYG 4 cut(s) 218, 250, 786, 818
AsiGI ACCGGT 1 cut(s) 71
AspLEI GCGC 2 cut(s) 188, 464
AspS9I GGNCC 4 cut(s) 79, 148, 441, 797
AsuC2I CCSGG 4 cut(s) 88, 183, 656, 657
AsuHPI GGTGA 1 cut(s) 335
AvaI CYCGRG 1 cut(s) 655
AvaII GGWCC 2 cut(s) 79, 148
AxyI CCTNAGG 1 cut(s) 28
BamHI GGATCC 3 cut(s) 42, 399, 634
BanI GGYRCC 1 cut(s) 461
BbvI GCAGC 3 cut(s) 29, 32, 35
BccI CCATC 3 cut(s) 152, 281, 473
BceAI ACGGC 4 cut(s) 355, 364, 455, 541
BciT130I CCWGG 1 cut(s) 66
BciVI GTATCC 2 cut(s) 596, 700
BcnI CCSGG 4 cut(s) 88, 183, 656, 657
BcoDI GTCTC 3 cut(s) 156, 219, 746
BcuI ACTAGT 1 cut(s) 169
BfaI CTAG 3 cut(s) 60, 170, 458
BfmI CTRYAG 1 cut(s) 15
BfoI RGCGCY 1 cut(s) 465
BfuAI ACCTGC 1 cut(s) 136
BfuI GTATCC 2 cut(s) 596, 700
BglI GCCNNNNNGGC 1 cut(s) 476
BisI GCNGC 5 cut(s) 18, 21, 24, 687, 780
BlsI GCNGC 5 cut(s) 19, 22, 25, 688, 781
Bme1390I CCNGG 5 cut(s) 66, 88, 183, 656, 657
Bme18I GGWCC 2 cut(s) 79, 148
BmeT110I CYCGRG 1 cut(s) 655
BmgT120I GGNCC 4 cut(s) 79, 148, 441, 797
BmiI GGNNCC 8 cut(s) 44, 70, 80, 123, 179, 401, 463, 636
BmrFI CCNGG 5 cut(s) 66, 88, 183, 656, 657
BpuMI CCSGG 4 cut(s) 88, 183, 656, 657
Bsa29I ATCGAT 1 cut(s) 215
BsaHI GRCGYC 3 cut(s) 368, 462, 504
BsaI GGTCTC 1 cut(s) 219
BsaJI CCNNGG 4 cut(s) 181, 229, 430, 655
BsaWI WCCGGW 2 cut(s) 45, 71
Bsc4I CCNNNNNNNGG 3 cut(s) 65, 71, 93
Bse118I RCCGGY 4 cut(s) 71, 118, 259, 788
Bse1I ACTGG 1 cut(s) 636
Bse21I CCTNAGG 1 cut(s) 28
Bse3DI GCAATG 1 cut(s) 551
BseAI TCCGGA 1 cut(s) 45
BseBI CCWGG 1 cut(s) 66
BseCI ATCGAT 1 cut(s) 215
BseDI CCNNGG 4 cut(s) 181, 229, 430, 655
BseGI GGATG 1 cut(s) 339
BseLI CCNNNNNNNGG 3 cut(s) 65, 71, 93
BseMI GCAATG 1 cut(s) 551
BseMII CTCAG 3 cut(s) 42, 255, 714
BseNI ACTGG 1 cut(s) 636
BseXI GCAGC 3 cut(s) 29, 32, 35
Bsh1236I CGCG 1 cut(s) 686
BshFI GGCC 3 cut(s) 443, 782, 798
BshNI GGYRCC 1 cut(s) 461
BshTI ACCGGT 1 cut(s) 71
BshVI ATCGAT 1 cut(s) 215
BsiHKCI CYCGRG 1 cut(s) 655
BslFI GGGAC 2 cut(s) 558, 693
BslI CCNNNNNNNGG 3 cut(s) 65, 71, 93
BsmAI GTCTC 3 cut(s) 156, 219, 746
BsmBI CGTCTC 1 cut(s) 746
BsmFI GGGAC 2 cut(s) 558, 693
BsnI GGCC 3 cut(s) 443, 782, 798
Bso31I GGTCTC 1 cut(s) 219
BsoBI CYCGRG 1 cut(s) 655
Bsp13I TCCGGA 1 cut(s) 45
Bsp19I CCATGG 1 cut(s) 430
BspACI CCGC 5 cut(s) 128, 194, 320, 686, 779
BspANI GGCC 3 cut(s) 443, 782, 798
BspCNI CTCAG 3 cut(s) 41, 256, 715
BspDI ATCGAT 1 cut(s) 215
BspEI TCCGGA 1 cut(s) 45
BspFNI CGCG 1 cut(s) 686
BspLI GGNNCC 8 cut(s) 44, 70, 80, 123, 179, 401, 463, 636
BspMAI CTGCAG 1 cut(s) 19
BspMI ACCTGC 1 cut(s) 136
BspQI GCTCTTC 1 cut(s) 777
BspT107I GGYRCC 1 cut(s) 461
BspTNI GGTCTC 1 cut(s) 219
BsrDI GCAATG 1 cut(s) 551
BsrFI RCCGGY 4 cut(s) 71, 118, 259, 788
BsrI ACTGG 1 cut(s) 636
BssAI RCCGGY 4 cut(s) 71, 118, 259, 788
BssECI CCNNGG 4 cut(s) 181, 229, 430, 655
BssNI GRCGYC 3 cut(s) 368, 462, 504
BssT1I CCWWGG 1 cut(s) 430
Bst2UI CCWGG 1 cut(s) 66
Bst4CI ACNGT 2 cut(s) 230, 408
Bst6I CTCTTC 1 cut(s) 777
BstACI GRCGYC 3 cut(s) 368, 462, 504
BstC8I GCNNGC 1 cut(s) 720
BstDEI CTNAG 3 cut(s) 28, 264, 723
BstDSI CCRYGG 2 cut(s) 229, 430
BstF5I GGATG 1 cut(s) 339
BstFNI CGCG 1 cut(s) 686
BstH2I RGCGCY 1 cut(s) 465
BstHHI GCGC 2 cut(s) 188, 464
BstMAI GTCTC 3 cut(s) 156, 219, 746
BstMWI GCNNNNNNNGC 7 cut(s) 23, 376, 459, 476, 752, 776, 804
BstNI CCWGG 1 cut(s) 66
BstSCI CCNGG 5 cut(s) 64, 86, 181, 654, 655
BstSFI CTRYAG 1 cut(s) 15
BstUI CGCG 1 cut(s) 686
BstV1I GCAGC 3 cut(s) 29, 32, 35
BstX2I RGATCY 4 cut(s) 42, 55, 399, 634
BstXI CCANNNNNNTGG 2 cut(s) 158, 316
BstYI RGATCY 4 cut(s) 42, 55, 399, 634
Bsu15I ATCGAT 1 cut(s) 215
Bsu36I CCTNAGG 1 cut(s) 28
BsuI GTATCC 2 cut(s) 596, 700
BsuRI GGCC 3 cut(s) 443, 782, 798
BsuTUI ATCGAT 1 cut(s) 215
BtgI CCRYGG 2 cut(s) 229, 430
BtgZI GCGATG 1 cut(s) 451
BtsCI GGATG 1 cut(s) 339
BtsI GCAGTG 1 cut(s) 12
BtsIMutI CAGTG 2 cut(s) 12, 384
BveI ACCTGC 1 cut(s) 136
Cac8I GCNNGC 1 cut(s) 720
CfoI GCGC 2 cut(s) 188, 464
Cfr10I RCCGGY 4 cut(s) 71, 118, 259, 788
Cfr13I GGNCC 4 cut(s) 79, 148, 441, 797
Cfr9I CCCGGG 1 cut(s) 655
ClaI ATCGAT 1 cut(s) 215
CseI GACGC 2 cut(s) 376, 512
Csp6I GTAC 2 cut(s) 277, 382
CspAI ACCGGT 1 cut(s) 71
CviAII CATG 3 cut(s) 431, 445, 495
CviQI GTAC 2 cut(s) 277, 382
DdeI CTNAG 3 cut(s) 28, 264, 723
DinI GGCGCC 1 cut(s) 463
Eam1104I CTCTTC 1 cut(s) 777
EarI CTCTTC 1 cut(s) 777
Eco130I CCWWGG 1 cut(s) 430
Eco31I GGTCTC 1 cut(s) 219
Eco47I GGWCC 2 cut(s) 79, 148
Eco57I CTGAAG 3 cut(s) 257, 408, 758
Eco81I CCTNAGG 1 cut(s) 28
Eco88I CYCGRG 1 cut(s) 655
EcoO109I RGGNCCY 1 cut(s) 797
EcoRII CCWGG 1 cut(s) 64
EcoT14I CCWWGG 1 cut(s) 430
EgeI GGCGCC 1 cut(s) 463
EheI GGCGCC 1 cut(s) 463
ErhI CCWWGG 1 cut(s) 430
Esp3I CGTCTC 1 cut(s) 746
FaeI CATG 3 cut(s) 434, 448, 498
FaiI YATR 5 cut(s) 432, 446, 496, 580, 749
FaqI GGGAC 2 cut(s) 558, 693
FatI CATG 3 cut(s) 430, 444, 494
FauI CCCGC 2 cut(s) 201, 313
Fnu4HI GCNGC 5 cut(s) 18, 21, 24, 687, 780
FokI GGATG 1 cut(s) 326
Fsp4HI GCNGC 5 cut(s) 18, 21, 24, 687, 780
FspBI CTAG 3 cut(s) 60, 170, 458
GlaI GCGC 2 cut(s) 187, 463
GluI GCNGC 5 cut(s) 18, 21, 24, 687, 780
HaeII RGCGCY 1 cut(s) 465
HaeIII GGCC 3 cut(s) 443, 782, 798
HgaI GACGC 2 cut(s) 376, 512
HhaI GCGC 2 cut(s) 188, 464
Hin1I GRCGYC 3 cut(s) 368, 462, 504
Hin1II CATG 3 cut(s) 434, 448, 498
Hin6I GCGC 2 cut(s) 186, 462
HinP1I GCGC 2 cut(s) 186, 462
HincII GTYRAC 1 cut(s) 567
HindII GTYRAC 1 cut(s) 567
HinfI GANTC 3 cut(s) 49, 347, 681
HphI GGTGA 1 cut(s) 335
Hpy166II GTNNAC 3 cut(s) 257, 384, 567
Hpy188I TCNGA 6 cut(s) 107, 224, 355, 413, 602, 628
Hpy188III TCNNGA 5 cut(s) 46, 53, 334, 638, 695
Hpy8I GTNNAC 3 cut(s) 257, 384, 567
Hpy99I CGWCG 2 cut(s) 370, 574
HpyAV CCTTC 2 cut(s) 429, 521
HpyCH4III ACNGT 2 cut(s) 230, 408
HpyCH4IV ACGT 3 cut(s) 315, 572, 619
HpyCH4V TGCA 2 cut(s) 17, 494
HpyF10VI GCNNNNNNNGC 7 cut(s) 23, 376, 459, 476, 752, 776, 804
HpyF3I CTNAG 3 cut(s) 28, 264, 723
HpySE526I ACGT 3 cut(s) 315, 572, 619
Hsp92I GRCGYC 3 cut(s) 368, 462, 504
Hsp92II CATG 3 cut(s) 434, 448, 498
HspAI GCGC 2 cut(s) 186, 462
KasI GGCGCC 1 cut(s) 461
Kpn2I TCCGGA 1 cut(s) 45
LguI GCTCTTC 1 cut(s) 777
LmnI GCTCC 1 cut(s) 127
Lsp1109I GCAGC 3 cut(s) 29, 32, 35
MaeI CTAG 3 cut(s) 60, 170, 458
MaeII ACGT 3 cut(s) 315, 572, 619
MaeIII GTNAC 2 cut(s) 323, 620
MboII GAAGA 3 cut(s) 263, 342, 764
MflI RGATCY 4 cut(s) 42, 55, 399, 634
MluCI AATT 3 cut(s) 489, 518, 826
Mly113I GGCGCC 1 cut(s) 462
MlyI GAGTC 1 cut(s) 675
MmeI TCCRAC 5 cut(s) 186, 427, 580, 640, 684
MnlI CCTC 2 cut(s) 37, 469
MroI TCCGGA 1 cut(s) 45
MseI TTAA 1 cut(s) 822
MspR9I CCNGG 5 cut(s) 66, 88, 183, 656, 657
MvaI CCWGG 1 cut(s) 66
MvnI CGCG 1 cut(s) 686
MwoI GCNNNNNNNGC 7 cut(s) 23, 376, 459, 476, 752, 776, 804
NarI GGCGCC 1 cut(s) 462
NciI CCSGG 4 cut(s) 88, 183, 656, 657
NcoI CCATGG 1 cut(s) 430
NlaIII CATG 3 cut(s) 434, 448, 498
NlaIV GGNNCC 8 cut(s) 44, 70, 80, 123, 179, 401, 463, 636
NmuCI GTSAC 1 cut(s) 323
PciSI GCTCTTC 1 cut(s) 777
PcsI WCGNNNNNNNCGW 1 cut(s) 569
PfeI GAWTC 2 cut(s) 49, 347
PinAI ACCGGT 1 cut(s) 71
PkrI GCNGC 5 cut(s) 19, 22, 25, 688, 781
PleI GAGTC 1 cut(s) 675
PluTI GGCGCC 1 cut(s) 465
PpsI GAGTC 1 cut(s) 675
Psp6I CCWGG 1 cut(s) 64
PspGI CCWGG 1 cut(s) 64
PspN4I GGNNCC 8 cut(s) 44, 70, 80, 123, 179, 401, 463, 636
PspPI GGNCC 4 cut(s) 79, 148, 441, 797
PstI CTGCAG 1 cut(s) 19
PsuI RGATCY 4 cut(s) 42, 55, 399, 634
RsaI GTAC 2 cut(s) 278, 383
RsaNI GTAC 2 cut(s) 277, 382
SapI GCTCTTC 1 cut(s) 777
SaqAI TTAA 1 cut(s) 822
SatI GCNGC 5 cut(s) 18, 21, 24, 687, 780
Sau96I GGNCC 4 cut(s) 79, 148, 441, 797
SchI GAGTC 1 cut(s) 675
ScrFI CCNGG 5 cut(s) 66, 88, 183, 656, 657
SfcI CTRYAG 1 cut(s) 15
SfoI GGCGCC 1 cut(s) 463
SinI GGWCC 2 cut(s) 79, 148
SmaI CCCGGG 1 cut(s) 657
SpeI ACTAGT 1 cut(s) 169
Sse9I AATT 3 cut(s) 489, 518, 826
SsiI CCGC 5 cut(s) 128, 194, 320, 686, 779
SspDI GGCGCC 1 cut(s) 461
SspMI CTAG 3 cut(s) 60, 170, 458
StyD4I CCNGG 5 cut(s) 64, 86, 181, 654, 655
StyI CCWWGG 1 cut(s) 430
TaaI ACNGT 2 cut(s) 230, 408
TaiI ACGT 3 cut(s) 318, 575, 622
TaqI TCGA 2 cut(s) 215, 285
TasI AATT 3 cut(s) 489, 518, 826
TauI GCSGC 2 cut(s) 689, 782
TfiI GAWTC 2 cut(s) 49, 347
Tru1I TTAA 1 cut(s) 822
Tru9I TTAA 1 cut(s) 822
TscAI CASTG 2 cut(s) 19, 391
TseFI GTSAC 1 cut(s) 323
TseI GCWGC 3 cut(s) 17, 20, 23
Tsp45I GTSAC 1 cut(s) 323
TspGWI ACGGA 3 cut(s) 225, 231, 661
TspMI CCCGGG 1 cut(s) 655
TspRI CASTG 2 cut(s) 19, 391
VpaK11BI GGWCC 2 cut(s) 79, 148
XmaI CCCGGG 1 cut(s) 655
XspI CTAG 3 cut(s) 60, 170, 458
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.