AT3G08940

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
3
OG0027557
Physical Location & Seq
Forward (+)
2717557 .. 2718923
1367 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G08940.2

Sequence Viewer

Length: 684 bp
ATGGCCGCCACTTCAACCGCCGCTGCTGCTTCTTCAATCATGGGTACCCGGGTGGTTTCCGACATTAGCTCCAATTCAAGCCGGTTCACAGCCCGGTTCGGATTCGGAACCAAGAAAGCATCTCCCAAAAAGGCTAAGACGGTTATCTCAGACCGGCCTCTATGGTTCCCAGGCGCAAAATCACCCGAATATCTCGACGGTTCACTTGTCGGGGACTACGGGTTCGATCCTTTTGGTTTAGGCAAACCGGCGGAGTATCTCCAATTCGATTTGGATTCCTTGGACCAGAACTTAGCCAAGAACTTATACGGAGAAGTGATCGGGACTCGTACCGAGGCGGTGGACCCCAAATCGACGCCGTTTCAGCCATATAGTGAAGTCTTCGGGCTACAAAGATTCAGAGAATGTGAGCTGATTCACGGTCGGTGGGCAATGCTCGCCACTCTTGGCGCTATCACCGTCGAATGGCTCACCGGTGTTACTTGGCAAGACGCCGGCAAGGTATCGCCTCTTTTCTTTTCGTCACTTTTGCGTTTGTGTTTAGCGTTTCGACATCTGTCTGATTGTTTTATTTTTAATTTACCAGGTAGAGCTAGTGGATGGATCATCTTACTTAGGACAGCCATTGCCGTTCTCTATCTCGACATTGATATGGATCGAAGTGTTAGTGATCGGCTACATTGA

Protein Analysis

227

Amino Acids

25.0

Weight (kDa)

7.71

Isoelectric Point (pI)

37.96

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 62 - 257 1.2e-42 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: OG0027557)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G08940
rosa_multiflora Rmu_co8064956.1_g000001

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 44
AccB1I GGYRCC 1 cut(s) 44
AciI CCGC 5 cut(s) 6, 18, 21, 251, 338
AclWI GGATC 3 cut(s) 221, 611, 663
AcoI YGGCCR 1 cut(s) 3
AcyI GRCGYC 2 cut(s) 356, 492
AfaI GTAC 2 cut(s) 46, 331
AfiI CCNNNNNNNGG 1 cut(s) 465
AgeI ACCGGT 1 cut(s) 473
AgsI TTSAA 3 cut(s) 15, 36, 78
AjnI CCWGG 2 cut(s) 169, 583
AloI GAACNNNNNNTCC 2 cut(s) 206, 238
AluBI AGCT 3 cut(s) 69, 412, 593
AluI AGCT 3 cut(s) 69, 412, 593
AlwI GGATC 3 cut(s) 221, 611, 663
Ama87I CYCGRG 1 cut(s) 48
AoxI GGCC 2 cut(s) 3, 155
ApeKI GCWGC 2 cut(s) 23, 26
ArsI GACNNNNNNTTYG 2 cut(s) 206, 238
AsiGI ACCGGT 1 cut(s) 473
Asp718I GGTACC 1 cut(s) 44
AspLEI GCGC 2 cut(s) 176, 452
AspS9I GGNCC 2 cut(s) 283, 343
AsuC2I CCSGG 3 cut(s) 49, 50, 94
AsuHPI GGTGA 3 cut(s) 174, 448, 463
AvaI CYCGRG 1 cut(s) 48
AvaII GGWCC 2 cut(s) 283, 343
BaeI ACNNNNGTAYC 2 cut(s) 36, 69
BanI GGYRCC 1 cut(s) 44
BbsI GAAGAC 1 cut(s) 373
BbvI GCAGC 2 cut(s) 10, 13
BccI CCATC 1 cut(s) 594
BceAI ACGGC 2 cut(s) 343, 614
BciT130I CCWGG 2 cut(s) 171, 585
BcnI CCSGG 3 cut(s) 49, 50, 94
BfaI CTAG 1 cut(s) 594
BfoI RGCGCY 1 cut(s) 453
BisI GCNGC 4 cut(s) 6, 21, 24, 27
BlsI GCNGC 4 cut(s) 7, 22, 25, 28
Bme1390I CCNGG 5 cut(s) 49, 50, 94, 171, 585
Bme18I GGWCC 2 cut(s) 283, 343
BmeT110I CYCGRG 1 cut(s) 48
BmgT120I GGNCC 2 cut(s) 283, 343
BmiI GGNNCC 4 cut(s) 46, 109, 167, 345
BmrFI CCNGG 5 cut(s) 49, 50, 94, 171, 585
BmsI GCATC 1 cut(s) 128
BoxI GACNNNNGTC 1 cut(s) 556
BpiI GAAGAC 1 cut(s) 373
BpuMI CCSGG 3 cut(s) 49, 50, 94
BsaBI GATNNNNATC 1 cut(s) 654
BsaHI GRCGYC 2 cut(s) 356, 492
BsaJI CCNNGG 4 cut(s) 48, 169, 279, 333
BsaWI WCCGGW 1 cut(s) 473
BsaXI ACNNNNNCTCC 2 cut(s) 53, 83
Bsc4I CCNNNNNNNGG 1 cut(s) 465
Bse118I RCCGGY 5 cut(s) 81, 153, 247, 473, 494
Bse3DI GCAATG 2 cut(s) 438, 624
Bse8I GATNNNNATC 1 cut(s) 654
BseBI CCWGG 2 cut(s) 171, 585
BseDI CCNNGG 4 cut(s) 48, 169, 279, 333
BseGI GGATG 1 cut(s) 605
BseJI GATNNNNATC 1 cut(s) 654
BseLI CCNNNNNNNGG 1 cut(s) 465
BseMI GCAATG 2 cut(s) 438, 624
BseMII CTCAG 1 cut(s) 162
BseXI GCAGC 2 cut(s) 10, 13
Bsh1285I CGRYCG 1 cut(s) 424
BshFI GGCC 2 cut(s) 5, 157
BshNI GGYRCC 1 cut(s) 44
BshTI ACCGGT 1 cut(s) 473
BsiEI CGRYCG 1 cut(s) 424
BsiHKCI CYCGRG 1 cut(s) 48
BsiSI CCGG 7 cut(s) 49, 82, 94, 154, 248, 474, 495
BslFI GGGAC 2 cut(s) 227, 337
BslI CCNNNNNNNGG 1 cut(s) 465
BsmFI GGGAC 2 cut(s) 227, 337
BsnI GGCC 2 cut(s) 5, 157
BsoBI CYCGRG 1 cut(s) 48
Bsp143I GATC 5 cut(s) 226, 318, 603, 655, 670
BspACI CCGC 5 cut(s) 6, 18, 21, 251, 338
BspANI GGCC 2 cut(s) 5, 157
BspCNI CTCAG 1 cut(s) 161
BspLI GGNNCC 4 cut(s) 46, 109, 167, 345
BspPI GGATC 3 cut(s) 221, 611, 663
BspT107I GGYRCC 1 cut(s) 44
BsrDI GCAATG 2 cut(s) 438, 624
BsrFI RCCGGY 5 cut(s) 81, 153, 247, 473, 494
BssAI RCCGGY 5 cut(s) 81, 153, 247, 473, 494
BssECI CCNNGG 4 cut(s) 48, 169, 279, 333
BssMI GATC 5 cut(s) 226, 318, 603, 655, 670
BssNI GRCGYC 2 cut(s) 356, 492
BssT1I CCWWGG 1 cut(s) 279
Bst2UI CCWGG 2 cut(s) 171, 585
Bst4CI ACNGT 4 cut(s) 142, 200, 422, 460
BstACI GRCGYC 2 cut(s) 356, 492
BstC8I GCNNGC 2 cut(s) 438, 496
BstDEI CTNAG 4 cut(s) 135, 148, 292, 614
BstF5I GGATG 1 cut(s) 605
BstH2I RGCGCY 1 cut(s) 453
BstHHI GCGC 2 cut(s) 176, 452
BstKTI GATC 5 cut(s) 229, 321, 606, 658, 673
BstMBI GATC 5 cut(s) 226, 318, 603, 655, 670
BstMCI CGRYCG 1 cut(s) 424
BstMWI GCNNNNNNNGC 3 cut(s) 26, 364, 437
BstNI CCWGG 2 cut(s) 171, 585
BstPAI GACNNNNGTC 1 cut(s) 556
BstSCI CCNGG 5 cut(s) 47, 48, 92, 169, 583
BstV1I GCAGC 2 cut(s) 10, 13
BstV2I GAAGAC 1 cut(s) 373
BsuRI GGCC 2 cut(s) 5, 157
BtsCI GGATG 1 cut(s) 605
Cac8I GCNNGC 2 cut(s) 438, 496
CfoI GCGC 2 cut(s) 176, 452
Cfr10I RCCGGY 5 cut(s) 81, 153, 247, 473, 494
Cfr13I GGNCC 2 cut(s) 283, 343
Cfr9I CCCGGG 1 cut(s) 48
CseI GACGC 2 cut(s) 364, 500
CsiI ACCWGGT 1 cut(s) 583
Csp6I GTAC 2 cut(s) 45, 330
CspAI ACCGGT 1 cut(s) 473
CviAII CATG 1 cut(s) 40
CviQI GTAC 2 cut(s) 45, 330
DdeI CTNAG 4 cut(s) 135, 148, 292, 614
DpnI GATC 5 cut(s) 228, 320, 605, 657, 672
DpnII GATC 5 cut(s) 226, 318, 603, 655, 670
EaeI YGGCCR 1 cut(s) 3
EciI GGCGGA 1 cut(s) 266
Eco130I CCWWGG 1 cut(s) 279
Eco47I GGWCC 2 cut(s) 283, 343
Eco88I CYCGRG 1 cut(s) 48
EcoRII CCWGG 2 cut(s) 169, 583
EcoT14I CCWWGG 1 cut(s) 279
ErhI CCWWGG 1 cut(s) 279
FaeI CATG 1 cut(s) 43
FaiI YATR 6 cut(s) 41, 163, 307, 370, 372, 653
FaqI GGGAC 2 cut(s) 227, 337
FatI CATG 1 cut(s) 39
Fnu4HI GCNGC 4 cut(s) 6, 21, 24, 27
FokI GGATG 1 cut(s) 612
Fsp4HI GCNGC 4 cut(s) 6, 21, 24, 27
FspBI CTAG 1 cut(s) 594
GlaI GCGC 2 cut(s) 175, 451
GluI GCNGC 4 cut(s) 6, 21, 24, 27
HaeII RGCGCY 1 cut(s) 453
HaeIII GGCC 2 cut(s) 5, 157
HapII CCGG 7 cut(s) 49, 82, 94, 154, 248, 474, 495
HgaI GACGC 2 cut(s) 364, 500
HhaI GCGC 2 cut(s) 176, 452
Hin1I GRCGYC 2 cut(s) 356, 492
Hin1II CATG 1 cut(s) 43
Hin6I GCGC 2 cut(s) 174, 450
HinP1I GCGC 2 cut(s) 174, 450
HinfI GANTC 5 cut(s) 102, 275, 325, 396, 415
HpaII CCGG 7 cut(s) 49, 82, 94, 154, 248, 474, 495
HphI GGTGA 3 cut(s) 174, 448, 463
Hpy166II GTNNAC 3 cut(s) 87, 203, 343
Hpy188I TCNGA 6 cut(s) 61, 101, 107, 151, 401, 562
Hpy188III TCNNGA 3 cut(s) 194, 322, 641
Hpy8I GTNNAC 3 cut(s) 87, 203, 343
Hpy99I CGWCG 3 cut(s) 200, 358, 464
HpyCH4III ACNGT 4 cut(s) 142, 200, 422, 460
HpyF10VI GCNNNNNNNGC 3 cut(s) 26, 364, 437
HpyF3I CTNAG 4 cut(s) 135, 148, 292, 614
Hsp92I GRCGYC 2 cut(s) 356, 492
Hsp92II CATG 1 cut(s) 43
HspAI GCGC 2 cut(s) 174, 450
KpnI GGTACC 1 cut(s) 48
KroI GCCGGC 1 cut(s) 494
KroNI GCCGGC 1 cut(s) 496
Kzo9I GATC 5 cut(s) 226, 318, 603, 655, 670
LmnI GCTCC 1 cut(s) 74
Lsp1109I GCAGC 2 cut(s) 10, 13
LweI GCATC 1 cut(s) 128
MabI ACCWGGT 1 cut(s) 583
MaeI CTAG 1 cut(s) 594
MaeIII GTNAC 2 cut(s) 478, 522
MalI GATC 5 cut(s) 228, 320, 605, 657, 672
MboI GATC 5 cut(s) 226, 318, 603, 655, 670
MboII GAAGA 2 cut(s) 24, 373
MluCI AATT 3 cut(s) 73, 263, 577
MlyI GAGTC 1 cut(s) 319
MmeI TCCRAC 1 cut(s) 84
MnlI CCTC 3 cut(s) 168, 328, 519
MroNI GCCGGC 1 cut(s) 494
MseI TTAA 1 cut(s) 576
MslI CAYNNNNRTG 1 cut(s) 650
MspA1I CMGCKG 1 cut(s) 23
MspI CCGG 7 cut(s) 49, 82, 94, 154, 248, 474, 495
MspR9I CCNGG 5 cut(s) 49, 50, 94, 171, 585
MvaI CCWGG 2 cut(s) 171, 585
MwoI GCNNNNNNNGC 3 cut(s) 26, 364, 437
NaeI GCCGGC 1 cut(s) 496
NciI CCSGG 3 cut(s) 49, 50, 94
NdeII GATC 5 cut(s) 226, 318, 603, 655, 670
NgoMIV GCCGGC 1 cut(s) 494
NlaIII CATG 1 cut(s) 43
NlaIV GGNNCC 4 cut(s) 46, 109, 167, 345
NmuCI GTSAC 1 cut(s) 522
PdiI GCCGGC 1 cut(s) 496
PfeI GAWTC 4 cut(s) 102, 275, 396, 415
PinAI ACCGGT 1 cut(s) 473
PkrI GCNGC 4 cut(s) 7, 22, 25, 28
PleI GAGTC 1 cut(s) 319
PpsI GAGTC 1 cut(s) 319
PshAI GACNNNNGTC 1 cut(s) 556
Psp6I CCWGG 2 cut(s) 169, 583
PspGI CCWGG 2 cut(s) 169, 583
PspN4I GGNNCC 4 cut(s) 46, 109, 167, 345
PspPI GGNCC 2 cut(s) 283, 343
RsaI GTAC 2 cut(s) 46, 331
RsaNI GTAC 2 cut(s) 45, 330
RseI CAYNNNNRTG 1 cut(s) 650
SaqAI TTAA 1 cut(s) 576
SatI GCNGC 4 cut(s) 6, 21, 24, 27
Sau3AI GATC 5 cut(s) 226, 318, 603, 655, 670
Sau96I GGNCC 2 cut(s) 283, 343
SchI GAGTC 1 cut(s) 319
ScrFI CCNGG 5 cut(s) 49, 50, 94, 171, 585
SetI ASST 5 cut(s) 71, 414, 504, 589, 595
SexAI ACCWGGT 1 cut(s) 583
SfaNI GCATC 1 cut(s) 128
SgrAI CRCCGGYG 1 cut(s) 473
SinI GGWCC 2 cut(s) 283, 343
SmaI CCCGGG 1 cut(s) 50
SmiMI CAYNNNNRTG 1 cut(s) 650
Sse9I AATT 3 cut(s) 73, 263, 577
SsiI CCGC 5 cut(s) 6, 18, 21, 251, 338
SspMI CTAG 1 cut(s) 594
StyD4I CCNGG 5 cut(s) 47, 48, 92, 169, 583
StyI CCWWGG 1 cut(s) 279
TaaI ACNGT 4 cut(s) 142, 200, 422, 460
TaqI TCGA 8 cut(s) 195, 225, 267, 353, 462, 550, 642, 658
TasI AATT 3 cut(s) 73, 263, 577
TauI GCSGC 2 cut(s) 8, 23
TfiI GAWTC 4 cut(s) 102, 275, 396, 415
Tru1I TTAA 1 cut(s) 576
Tru9I TTAA 1 cut(s) 576
TseFI GTSAC 1 cut(s) 522
TseI GCWGC 2 cut(s) 23, 26
Tsp45I GTSAC 1 cut(s) 522
TspGWI ACGGA 1 cut(s) 324
TspMI CCCGGG 1 cut(s) 48
VpaK11BI GGWCC 2 cut(s) 283, 343
XmaI CCCGGG 1 cut(s) 48
XspI CTAG 1 cut(s) 594
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.