AT5G54270

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
5
OG0015195
Physical Location & Seq
Forward (+)
22038165 .. 22039568
1404 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G54270.1

Sequence Viewer

Length: 798 bp
ATGGCATCAACATTCACGAGCTCAAGCAGTGTTCTTACCCCAACAACATTCCTTGGCCAGACTAAAGCCTCAAGCTTTAACCCCCTTCGTGATGTTGTCTCTCTCGGATCTCCCAAGTACACTATGGGAAATGATCTTTGGTATGGACCTGACAGAGTGAAGTACTTAGGACCCTTTTCCGTTCAAACTCCGTCTTACCTCACCGGAGAATTCCCTGGCGATTATGGTTGGGACACCGCCGGTTTATCCGCAGACCCTGAAGCCTTTGCCAAAAACAGAGCTCTTGAGGTGATCCATGGGAGATGGGCAATGTTGGGAGCTTTTGGTTGCATAACCCCTGAAGTTCTTCAAAAGTGGGTCCGTGTGGACTTCAAAGAACCAGTCTGGTTCAAAGCCGGTTCACAAATCTTCTCCGAAGGCGGTTTGGACTACTTAGGCAACCCAAACCTAGTCCATGCTCAGAGCATTTTAGCCGTCCTTGGCTTCCAAGTCATCCTCATGGGTTTGGTTGAAGGTTTCCGCATCAACGGTCTTGATGGTGTTGGCGAAGGCAACGACTTGTACCCCGGTGGGCAATACTTTGACCCGTTGGGTCTCGCTGATGATCCAGTTACTTTTGCTGAGCTTAAGGTGAAAGAGATCAAGAACGGAAGATTGGCTATGTTCTCTATGTTTGGCTTCTTTGTTCAAGCCATTGTTACTGGAAAAGGTCCTTTGGAGAATCTCCTTGACCATCTTGACAACCCTGTTGCTAACAATGCGTGGGCTTTCGCAACTAAGTTTGCACCTGGAGCTTAA

Protein Analysis

265

Amino Acids

28.71

Weight (kDa)

4.96

Isoelectric Point (pI)

22.1

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 64 - 232 1.4e-50 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: OG0015195)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G54270
fragaria_vesca FvH4_3g21020
malus_domestica MD03G1218900.v1.1 MD11G1236900.v1.1
prunus_persica Prupe.4G190500_v2.0.a1
pyrus_communis pycom03g16800 pycom11g20830
rosa_chinensis RchiOBHm_Chr5g0036051
rosa_laevigata RLG00000033661
rosa_multiflora Rmu_sc0001493.1_g000005
rosa_roxburghii Rroxscaffold_1G00044710
rosa_rugosa Rorug05G0152000
rosa_samantha Rh5AG246400 Rh5BG246700 Rh5DG255100
rosa_wichuraiana Rw5G022620

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 4 cut(s) 237, 249, 420, 520
AclWI GGATC 3 cut(s) 115, 286, 599
AcoI YGGCCR 1 cut(s) 55
AcsI RAATTY 1 cut(s) 209
AcuI CTGAAG 2 cut(s) 279, 360
AfaI GTAC 3 cut(s) 119, 164, 563
AflII CTTAAG 1 cut(s) 626
AgsI TTSAA 6 cut(s) 185, 350, 373, 391, 512, 689
AjnI CCWGG 2 cut(s) 214, 787
AjuI GAANNNNNNNTTGG 4 cut(s) 121, 153, 638, 670
AluBI AGCT 6 cut(s) 21, 75, 281, 320, 625, 794
AluI AGCT 6 cut(s) 21, 75, 281, 320, 625, 794
Alw21I GWGCWC 2 cut(s) 23, 283
Alw26I GTCTC 2 cut(s) 103, 599
AlwI GGATC 3 cut(s) 115, 286, 599
AlwNI CAGNNNCTG 1 cut(s) 257
AoxI GGCC 1 cut(s) 55
ApoI RAATTY 1 cut(s) 209
ArsI GACNNNNNNTTYG 2 cut(s) 366, 398
Asp700I GAANNNNTTC 1 cut(s) 345
AspS9I GGNCC 4 cut(s) 146, 170, 358, 710
AsuC2I CCSGG 1 cut(s) 567
AsuHPI GGTGA 3 cut(s) 193, 301, 643
AvaII GGWCC 4 cut(s) 146, 170, 358, 710
BalI TGGCCA 1 cut(s) 57
BanII GRGCYC 2 cut(s) 23, 283
BauI CACGAG 1 cut(s) 16
Bbv12I GWGCWC 2 cut(s) 23, 283
BccI CCATC 3 cut(s) 297, 530, 741
BceAI ACGGC 1 cut(s) 458
BciT130I CCWGG 2 cut(s) 216, 789
BcnI CCSGG 1 cut(s) 567
BcoDI GTCTC 2 cut(s) 103, 599
BfaI CTAG 1 cut(s) 449
BfrI CTTAAG 1 cut(s) 626
BlpI GCTNAGC 1 cut(s) 621
BmcAI AGTACT 1 cut(s) 164
Bme1390I CCNGG 3 cut(s) 216, 567, 789
Bme18I GGWCC 4 cut(s) 146, 170, 358, 710
BmgT120I GGNCC 4 cut(s) 146, 170, 358, 710
BmiI GGNNCC 2 cut(s) 172, 359
BmrFI CCNGG 3 cut(s) 216, 567, 789
BmsI GCATC 2 cut(s) 14, 531
Bpu1102I GCTNAGC 1 cut(s) 621
BpuEI CTTGAG 3 cut(s) 7, 55, 305
BpuMI CCSGG 1 cut(s) 567
BsaI GGTCTC 1 cut(s) 599
BsaJI CCNNGG 5 cut(s) 52, 214, 295, 478, 565
BsaWI WCCGGW 1 cut(s) 203
Bse118I RCCGGY 2 cut(s) 239, 395
Bse1I ACTGG 3 cut(s) 380, 608, 706
Bse3DI GCAATG 1 cut(s) 315
BseBI CCWGG 2 cut(s) 216, 789
BseDI CCNNGG 5 cut(s) 52, 214, 295, 478, 565
BseGI GGATG 1 cut(s) 492
BseMI GCAATG 1 cut(s) 315
BseMII CTCAG 2 cut(s) 473, 612
BseNI ACTGG 3 cut(s) 380, 608, 706
BshFI GGCC 1 cut(s) 57
BsiHKAI GWGCWC 2 cut(s) 23, 283
BsiSI CCGG 4 cut(s) 204, 240, 396, 567
BslFI GGGAC 1 cut(s) 245
BsmAI GTCTC 2 cut(s) 103, 599
BsmFI GGGAC 1 cut(s) 245
BsnI GGCC 1 cut(s) 57
Bso31I GGTCTC 1 cut(s) 599
Bsp1286I GDGCHC 2 cut(s) 23, 283
Bsp143I GATC 5 cut(s) 107, 133, 291, 604, 639
Bsp1720I GCTNAGC 1 cut(s) 621
Bsp19I CCATGG 1 cut(s) 295
BspACI CCGC 4 cut(s) 237, 249, 420, 520
BspANI GGCC 1 cut(s) 57
BspCNI CTCAG 2 cut(s) 472, 613
BspLI GGNNCC 2 cut(s) 172, 359
BspPI GGATC 3 cut(s) 115, 286, 599
BspTI CTTAAG 1 cut(s) 626
BspTNI GGTCTC 1 cut(s) 599
BsrDI GCAATG 1 cut(s) 315
BsrFI RCCGGY 2 cut(s) 239, 395
BsrI ACTGG 3 cut(s) 380, 608, 706
BssAI RCCGGY 2 cut(s) 239, 395
BssECI CCNNGG 5 cut(s) 52, 214, 295, 478, 565
BssMI GATC 5 cut(s) 107, 133, 291, 604, 639
BssSI CACGAG 1 cut(s) 16
BssT1I CCWWGG 3 cut(s) 52, 295, 478
Bst2BI CACGAG 1 cut(s) 16
Bst2UI CCWGG 2 cut(s) 216, 789
Bst4CI ACNGT 1 cut(s) 530
BstAFI CTTAAG 1 cut(s) 626
BstDEI CTNAG 5 cut(s) 166, 433, 459, 621, 777
BstDSI CCRYGG 1 cut(s) 295
BstF5I GGATG 1 cut(s) 492
BstKTI GATC 5 cut(s) 110, 136, 294, 607, 642
BstMAI GTCTC 2 cut(s) 103, 599
BstMBI GATC 5 cut(s) 107, 133, 291, 604, 639
BstMWI GCNNNNNNNGC 2 cut(s) 758, 791
BstNI CCWGG 2 cut(s) 216, 789
BstSCI CCNGG 3 cut(s) 214, 565, 787
BstX2I RGATCY 1 cut(s) 107
BstYI RGATCY 1 cut(s) 107
BsuRI GGCC 1 cut(s) 57
BtgI CCRYGG 1 cut(s) 295
BtsCI GGATG 1 cut(s) 492
BtsI GCAGTG 1 cut(s) 34
BtsIMutI CAGTG 1 cut(s) 34
CaiI CAGNNNCTG 1 cut(s) 257
Cfr10I RCCGGY 2 cut(s) 239, 395
Cfr13I GGNCC 4 cut(s) 146, 170, 358, 710
Csp6I GTAC 3 cut(s) 118, 163, 562
CviAII CATG 3 cut(s) 296, 455, 499
CviQI GTAC 3 cut(s) 118, 163, 562
DdeI CTNAG 5 cut(s) 166, 433, 459, 621, 777
DpnI GATC 5 cut(s) 109, 135, 293, 606, 641
DpnII GATC 5 cut(s) 107, 133, 291, 604, 639
EaeI YGGCCR 1 cut(s) 55
Ecl136II GAGCTC 2 cut(s) 21, 281
Eco130I CCWWGG 3 cut(s) 52, 295, 478
Eco24I GRGCYC 2 cut(s) 23, 283
Eco31I GGTCTC 1 cut(s) 599
Eco47I GGWCC 4 cut(s) 146, 170, 358, 710
Eco53kI GAGCTC 2 cut(s) 21, 281
Eco57I CTGAAG 2 cut(s) 279, 360
EcoICRI GAGCTC 2 cut(s) 21, 281
EcoO109I RGGNCCY 2 cut(s) 170, 710
EcoRI GAATTC 1 cut(s) 209
EcoRII CCWGG 2 cut(s) 214, 787
EcoT14I CCWWGG 3 cut(s) 52, 295, 478
EcoT38I GRGCYC 2 cut(s) 23, 283
ErhI CCWWGG 3 cut(s) 52, 295, 478
FaeI CATG 3 cut(s) 299, 458, 502
FaiI YATR 9 cut(s) 125, 144, 225, 297, 332, 456, 500, 662, 671
FaqI GGGAC 1 cut(s) 245
FatI CATG 3 cut(s) 295, 454, 498
FokI GGATG 1 cut(s) 479
FriOI GRGCYC 2 cut(s) 23, 283
FspBI CTAG 1 cut(s) 449
HaeIII GGCC 1 cut(s) 57
HapII CCGG 4 cut(s) 204, 240, 396, 567
Hin1II CATG 3 cut(s) 299, 458, 502
HindIII AAGCTT 1 cut(s) 73
HinfI GANTC 1 cut(s) 721
HpaII CCGG 4 cut(s) 204, 240, 396, 567
HphI GGTGA 3 cut(s) 193, 301, 643
Hpy166II GTNNAC 3 cut(s) 120, 367, 401
Hpy188I TCNGA 3 cut(s) 107, 415, 462
Hpy188III TCNNGA 6 cut(s) 16, 89, 284, 533, 643, 737
Hpy8I GTNNAC 3 cut(s) 120, 367, 401
HpyAV CCTTC 4 cut(s) 95, 410, 506, 542
HpyCH4III ACNGT 1 cut(s) 530
HpyCH4V TGCA 2 cut(s) 330, 785
HpyF10VI GCNNNNNNNGC 2 cut(s) 758, 791
HpyF3I CTNAG 5 cut(s) 166, 433, 459, 621, 777
Hsp92II CATG 3 cut(s) 299, 458, 502
Kzo9I GATC 5 cut(s) 107, 133, 291, 604, 639
LmnI GCTCC 2 cut(s) 317, 791
LweI GCATC 2 cut(s) 14, 531
MaeI CTAG 1 cut(s) 449
MaeIII GTNAC 2 cut(s) 610, 697
MalI GATC 5 cut(s) 109, 135, 293, 606, 641
MboI GATC 5 cut(s) 107, 133, 291, 604, 639
MboII GAAGA 3 cut(s) 338, 400, 663
MflI RGATCY 1 cut(s) 107
MhlI GDGCHC 2 cut(s) 23, 283
MlsI TGGCCA 1 cut(s) 57
MluCI AATT 1 cut(s) 209
MluNI TGGCCA 1 cut(s) 57
MnlI CCTC 4 cut(s) 79, 209, 280, 506
Mox20I TGGCCA 1 cut(s) 57
MroXI GAANNNNTTC 1 cut(s) 345
MscI TGGCCA 1 cut(s) 57
MseI TTAA 3 cut(s) 78, 627, 796
MslI CAYNNNNRTG 1 cut(s) 497
Msp20I TGGCCA 1 cut(s) 57
MspCI CTTAAG 1 cut(s) 626
MspI CCGG 4 cut(s) 204, 240, 396, 567
MspR9I CCNGG 3 cut(s) 216, 567, 789
MvaI CCWGG 2 cut(s) 216, 789
MwoI GCNNNNNNNGC 2 cut(s) 758, 791
NciI CCSGG 1 cut(s) 567
NcoI CCATGG 1 cut(s) 295
NdeII GATC 5 cut(s) 107, 133, 291, 604, 639
NlaIII CATG 3 cut(s) 299, 458, 502
NlaIV GGNNCC 2 cut(s) 172, 359
PdmI GAANNNNTTC 1 cut(s) 345
PfeI GAWTC 1 cut(s) 721
PpuMI RGGWCCY 2 cut(s) 170, 710
Psp124BI GAGCTC 2 cut(s) 23, 283
Psp5II RGGWCCY 2 cut(s) 170, 710
Psp6I CCWGG 2 cut(s) 214, 787
PspGI CCWGG 2 cut(s) 214, 787
PspN4I GGNNCC 2 cut(s) 172, 359
PspPI GGNCC 4 cut(s) 146, 170, 358, 710
PspPPI RGGWCCY 2 cut(s) 170, 710
PstNI CAGNNNCTG 1 cut(s) 257
PsuI RGATCY 1 cut(s) 107
RsaI GTAC 3 cut(s) 119, 164, 563
RsaNI GTAC 3 cut(s) 118, 163, 562
RseI CAYNNNNRTG 1 cut(s) 497
SacI GAGCTC 2 cut(s) 23, 283
SaqAI TTAA 3 cut(s) 78, 627, 796
Sau3AI GATC 5 cut(s) 107, 133, 291, 604, 639
Sau96I GGNCC 4 cut(s) 146, 170, 358, 710
ScaI AGTACT 1 cut(s) 164
ScrFI CCNGG 3 cut(s) 216, 567, 789
SduI GDGCHC 2 cut(s) 23, 283
SfaNI GCATC 2 cut(s) 14, 531
SinI GGWCC 4 cut(s) 146, 170, 358, 710
SmiMI CAYNNNNRTG 1 cut(s) 497
SmlI CTYRAG 4 cut(s) 22, 70, 284, 626
SmoI CTYRAG 4 cut(s) 22, 70, 284, 626
Sse9I AATT 1 cut(s) 209
SsiI CCGC 4 cut(s) 237, 249, 420, 520
SspMI CTAG 1 cut(s) 449
SstI GAGCTC 2 cut(s) 23, 283
StyD4I CCNGG 3 cut(s) 214, 565, 787
StyI CCWWGG 3 cut(s) 52, 295, 478
TaaI ACNGT 1 cut(s) 530
TasI AATT 1 cut(s) 209
TatI WGTACW 2 cut(s) 117, 162
TfiI GAWTC 1 cut(s) 721
Tru1I TTAA 3 cut(s) 78, 627, 796
Tru9I TTAA 3 cut(s) 78, 627, 796
TscAI CASTG 1 cut(s) 34
TspGWI ACGGA 4 cut(s) 169, 180, 350, 663
TspRI CASTG 1 cut(s) 34
Vha464I CTTAAG 1 cut(s) 626
VpaK11BI GGWCC 4 cut(s) 146, 170, 358, 710
XapI RAATTY 1 cut(s) 209
XcmI CCANNNNNNNNNTGG 1 cut(s) 121
XmnI GAANNNNTTC 1 cut(s) 345
XspI CTAG 1 cut(s) 449
ZrmI AGTACT 1 cut(s) 164
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.