MD09G1292900.v1.1

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
malus_domestica
Chr09
OG0000275
Physical Location & Seq
Forward (+)
37566547 .. 37567556
1010 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1292900.v1.1.491

Sequence Viewer

Length: 990 bp
ATGCTAAATCACTACATCACCCCTTTGAACCAATCAGGAAAAGGATCAAGATACACATCGATTCTGGATAGGATTCTGGATCTCACAGGACCCCCCCCTATAAATACAGAACCAACAGATTCTGCACGCTCAAACCATCAAACAATTTCATCATCATCTTCTCTCTCTCTCTCTCTCTCCCCCCCCCCCCCAATGGCAACTATGGCTCTCTCATCCCCATTCACTGGGAAGGCCATTCCTCTGAACACACAGACAGAGTTCTCAGCTGTCCAAGGAAACGGTAGGGTTTCTATGAGGAAGACGGCGAAAAAGCCTGCTGTCTCATCAGGGAGCCCCTGGTACGGCCCTGATCGTGTCAAGTACCTTGGCCCATTTTCCGGTGAGGCTCCATCTTACCTAACCGGAGAGTTCCCTGGTGACTACGGATGGGACACTGCTGGGCTATCAGCAGACCCCGAAACCTTTGCCAAGAACCGTGAACTTGAAGTCATTCACTCAAGATGGGCAATGCTTGGTGCTTTGGGCTGTGTTTTCCCGGAGCTTCTCTCCAGGAACGGAGTCAAGTTTGGAGAAGCAGTGTGGTTTAAAGCCGGAGCTCAAATCTTCAGCGAAGGTGGCCTCGATTACCTTGGAAACCCAAGCCTAGTTCATGCACAGAGCATTCTAGCAATCTGGGCAACCCAGGTGGTTCTCATGGGTGCTGTTGAGGGTTACCGCATTGCCGGAGGACCCCTTGGTGAGATCACCGACCCACTGTACCCAGGAGGCAGCTTTGATCCTTTGGGACTTGCAGATGACCCAGAGGCATTTGCAGAGCTTAAGGTCAAAGAACTCAAGAATGGAAGGCTTGCCATGTTCTCAATGTTCGGCTTCTTTGTGCAGGCTATTGTCACCGGAAAGGGCCCCATTGAGAACCTTGCTGATCATCTGGCTGACCCTGTTACCAACAACGCTTGGGCTTATGCCACCAACTTCGTGCCCGGGAAGTGA

Protein Analysis

330

Amino Acids

35.12

Weight (kDa)

5.59

Isoelectric Point (pI)

30.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 129 - 296 2.7e-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: OG0000275)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G05070 AT2G05100 AT2G05100 AT3G27690 AT3G27690
fragaria_vesca FvH4_3g37660 FvH4_6g32440 FvH4_6g38383 FvH4_6g38390 FvH4_6g38450 FvH4_6g38460 FvH4_6g40970 FvH4_6g41000
malus_domestica MD09G1122500.v1.1 MD09G1292900.v1.1 MD17G1109600.v1.1 MD17G1113400.v1.1 MD17G1137800.v1.1 MD17G1281900.v1.1
prunus_persica Prupe.3G004100_v2.0.a1 Prupe.3G174600_v2.0.a1 Prupe.3G174700_v2.0.a1 Prupe.3G201000_v2.0.a1 Prupe.3G201000_v2.0.a1
pyrus_communis pycom09g04690
rosa_chinensis RchiOBHm_Chr2g0138781 RchiOBHm_Chr2g0140601 RchiOBHm_Chr2g0140621 RchiOBHm_Chr2g0140661 RchiOBHm_Chr2g0140671 RchiOBHm_Chr2g0151701 RchiOBHm_Chr2g0156601 RchiOBHm_Chr2g0156611 RchiOBHm_Chr2g0156621 RchiOBHm_Chr3g0486251 RchiOBHm_Chr5g0067271 RchiOBHm_Chr5g0067731 RchiOBHm_Chr5g0067781 RchiOBHm_Chr5g0067851 RchiOBHm_Chr5g0067871 RchiOBHm_Chr5g0067881
rosa_laevigata RLG00000019760 RLG00000019883 RLG00000019890 RLG00000020570 RLG00000020571 RLG00000020572 RLG00000020573 RLG00000020923 RLG00000020924 RLG00000020925 RLG00000023090 RLG00000035922 RLG00000035943
rosa_multiflora Rmu_co7992426.1_g000001 Rmu_co8294383.1_g000001 Rmu_sc0000015.1_g000011 Rmu_sc0000435.1_g000050 Rmu_sc0000435.1_g000051 Rmu_sc0001857.1_g000019 Rmu_sc0003342.1_g000007 Rmu_sc0005294.1_g000040 Rmu_sc0005294.1_g000041 Rmu_sc0007131.1_g000005 Rmu_sc0007661.1_g000008 Rmu_sc0009883.1_g000012 Rmu_sc0011512.1_g000011 Rmu_sc0011512.1_g000012 Rmu_sc0011512.1_g000013 Rmu_sc0012576.1_g000001 Rmu_sc0014881.1_g000003 Rmu_sc0014881.1_g000004 Rmu_sc0014881.1_g000005 Rmu_ssc0000213.1_g000119
rosa_roxburghii Rroxscaffold_1G00013870 Rroxscaffold_2G00092910 Rroxscaffold_2G00092920 Rroxscaffold_2G00096220 Rroxscaffold_2G00096230 Rroxscaffold_2G00105960 Rroxscaffold_6G00395950
rosa_rugosa Rorug02G0428200 Rorug02G0428300 Rorug02G0454600 Rorug02G0454700 Rorug03G0224200 Rorug05G0383400 Rorug05G0385900
rosa_samantha Rh2AG402400 Rh2AG415500 Rh2AG489100 Rh2AG489200 Rh2AG489300 Rh2AG489400 Rh2AG520200 Rh2AG520300 Rh2AG520500 Rh2BG405200 Rh2BG501700 Rh2BG501800 Rh2BG533300 Rh2BG533500 Rh2BG533600 Rh2DG422600 Rh2DG434900 Rh2DG435000 Rh2DG435100 Rh2DG512800 Rh2DG512900 Rh2DG542100 Rh2DG542300 Rh2DG542400 Rh3AG274200 Rh3BG309500 Rh3CG308700 Rh5AG442900 Rh5AG444700 Rh5BG460100 Rh5DG475000 Rh5DG476700
rosa_wichuraiana Rw0G022540 Rw2G032710 Rw2G034000 Rw2G040110 Rw2G042910 Rw2G042920 Rw2G042930 Rw3G024310 Rw5G041390

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 224
AciI CCGC 1 cut(s) 715
AclWI GGATC 3 cut(s) 52, 87, 770
AcuI CTGAAG 1 cut(s) 589
AfaI GTAC 3 cut(s) 341, 362, 758
AfiI CCNNNNNNNGG 4 cut(s) 193, 224, 341, 377
AflII CTTAAG 1 cut(s) 818
AgsI TTSAA 2 cut(s) 28, 485
AjnI CCWGG 5 cut(s) 335, 412, 548, 681, 760
AluBI AGCT 5 cut(s) 266, 541, 596, 771, 817
AluI AGCT 5 cut(s) 266, 541, 596, 771, 817
Alw21I GWGCWC 1 cut(s) 598
Alw26I GTCTC 1 cut(s) 325
AlwI GGATC 3 cut(s) 52, 87, 770
AlwNI CAGNNNCTG 1 cut(s) 122
Ama87I CYCGRG 1 cut(s) 980
AoxI GGCC 5 cut(s) 231, 343, 367, 616, 901
ApaI GGGCCC 1 cut(s) 905
ApeKI GCWGC 1 cut(s) 768
Asp700I GAANNNNTTC 1 cut(s) 489
AspS9I GGNCC 6 cut(s) 89, 344, 368, 728, 901, 902
AsuC2I CCSGG 3 cut(s) 536, 981, 982
AsuHPI GGTGA 6 cut(s) 10, 392, 428, 736, 749, 883
AvaI CYCGRG 1 cut(s) 980
AvaII GGWCC 2 cut(s) 89, 728
BaeGI GKGCMC 2 cut(s) 905, 981
BanII GRGCYC 3 cut(s) 335, 598, 905
BbsI GAAGAC 1 cut(s) 305
Bbv12I GWGCWC 1 cut(s) 598
BbvI GCAGC 1 cut(s) 780
BccI CCATC 4 cut(s) 144, 397, 420, 495
BceAI ACGGC 2 cut(s) 318, 358
BcgI CGANNNNNNTGC 2 cut(s) 446, 480
BciT130I CCWGG 5 cut(s) 337, 414, 550, 683, 762
BclI TGATCA 1 cut(s) 922
BcnI CCSGG 3 cut(s) 536, 981, 982
BcoDI GTCTC 1 cut(s) 325
BfaI CTAG 2 cut(s) 644, 665
BfrI CTTAAG 1 cut(s) 818
BisI GCNGC 1 cut(s) 769
BlsI GCNGC 1 cut(s) 770
Bme1390I CCNGG 8 cut(s) 337, 414, 536, 550, 683, 762, 981, 982
Bme18I GGWCC 2 cut(s) 89, 728
BmeT110I CYCGRG 1 cut(s) 980
BmgT120I GGNCC 6 cut(s) 89, 344, 368, 728, 901, 902
BmiI GGNNCC 6 cut(s) 91, 332, 387, 730, 903, 904
BmrFI CCNGG 8 cut(s) 337, 414, 536, 550, 683, 762, 981, 982
BmrI ACTGGG 1 cut(s) 234
BmuI ACTGGG 1 cut(s) 234
BpiI GAAGAC 1 cut(s) 305
BplI GAGNNNNNCTC 2 cut(s) 530, 562
BpmI CTGGAG 1 cut(s) 532
BpuEI CTTGAG 2 cut(s) 481, 818
BpuMI CCSGG 3 cut(s) 536, 981, 982
Bsa29I ATCGAT 1 cut(s) 59
BsaBI GATNNNNATC 1 cut(s) 55
BsaJI CCNNGG 9 cut(s) 271, 335, 364, 412, 628, 681, 733, 760, 980
BsaWI WCCGGW 3 cut(s) 377, 401, 893
BsaXI ACNNNNNCTCC 2 cut(s) 561, 591
Bsc4I CCNNNNNNNGG 4 cut(s) 193, 224, 341, 377
Bse1I ACTGG 1 cut(s) 229
Bse3DI GCAATG 2 cut(s) 513, 717
Bse8I GATNNNNATC 1 cut(s) 55
BseBI CCWGG 5 cut(s) 337, 414, 550, 683, 762
BseCI ATCGAT 1 cut(s) 59
BseDI CCNNGG 9 cut(s) 271, 335, 364, 412, 628, 681, 733, 760, 980
BseGI GGATG 2 cut(s) 212, 431
BseJI GATNNNNATC 1 cut(s) 55
BseLI CCNNNNNNNGG 4 cut(s) 193, 224, 341, 377
BseMI GCAATG 2 cut(s) 513, 717
BseMII CTCAG 1 cut(s) 276
BseNI ACTGG 1 cut(s) 229
BseSI GKGCMC 2 cut(s) 905, 981
BseXI GCAGC 1 cut(s) 780
BseYI CCCAGC 1 cut(s) 437
BsgI GTGCAG 2 cut(s) 108, 899
BshFI GGCC 5 cut(s) 233, 345, 369, 618, 903
BshVI ATCGAT 1 cut(s) 59
BsiHKAI GWGCWC 1 cut(s) 598
BsiHKCI CYCGRG 1 cut(s) 980
BsiSI CCGG 7 cut(s) 378, 402, 536, 591, 723, 894, 981
BslFI GGGAC 2 cut(s) 443, 798
BslI CCNNNNNNNGG 4 cut(s) 193, 224, 341, 377
BsmAI GTCTC 1 cut(s) 325
BsmFI GGGAC 2 cut(s) 443, 798
BsmI GAATGC 1 cut(s) 660
BsnI GGCC 5 cut(s) 233, 345, 369, 618, 903
BsoBI CYCGRG 1 cut(s) 980
Bsp120I GGGCCC 1 cut(s) 901
Bsp1286I GDGCHC 4 cut(s) 335, 598, 905, 981
Bsp143I GATC 6 cut(s) 44, 79, 349, 741, 775, 922
BspACI CCGC 1 cut(s) 715
BspANI GGCC 5 cut(s) 233, 345, 369, 618, 903
BspCNI CTCAG 1 cut(s) 275
BspDI ATCGAT 1 cut(s) 59
BspLI GGNNCC 6 cut(s) 91, 332, 387, 730, 903, 904
BspPI GGATC 3 cut(s) 52, 87, 770
BspTI CTTAAG 1 cut(s) 818
BsrDI GCAATG 2 cut(s) 513, 717
BsrI ACTGG 1 cut(s) 229
BssECI CCNNGG 9 cut(s) 271, 335, 364, 412, 628, 681, 733, 760, 980
BssMI GATC 6 cut(s) 44, 79, 349, 741, 775, 922
BssT1I CCWWGG 4 cut(s) 271, 364, 628, 733
Bst2UI CCWGG 5 cut(s) 337, 414, 550, 683, 762
Bst4CI ACNGT 3 cut(s) 281, 476, 756
BstAFI CTTAAG 1 cut(s) 818
BstC8I GCNNGC 4 cut(s) 127, 315, 849, 882
BstDEI CTNAG 1 cut(s) 262
BstEII GGTNACC 1 cut(s) 710
BstF5I GGATG 2 cut(s) 212, 431
BstKTI GATC 6 cut(s) 47, 82, 352, 744, 778, 925
BstMAI GTCTC 1 cut(s) 325
BstMBI GATC 6 cut(s) 44, 79, 349, 741, 775, 922
BstMWI GCNNNNNNNGC 3 cut(s) 203, 615, 674
BstNI CCWGG 5 cut(s) 337, 414, 550, 683, 762
BstPI GGTNACC 1 cut(s) 710
BstSCI CCNGG 8 cut(s) 335, 412, 534, 548, 681, 760, 979, 980
BstSLI GKGCMC 2 cut(s) 905, 981
BstV1I GCAGC 1 cut(s) 780
BstV2I GAAGAC 1 cut(s) 305
BstX2I RGATCY 1 cut(s) 79
BstYI RGATCY 1 cut(s) 79
Bsu15I ATCGAT 1 cut(s) 59
BsuRI GGCC 5 cut(s) 233, 345, 369, 618, 903
BsuTUI ATCGAT 1 cut(s) 59
BtsCI GGATG 2 cut(s) 212, 431
BtsI GCAGTG 2 cut(s) 432, 582
BtsIMutI CAGTG 4 cut(s) 222, 432, 582, 752
Cac8I GCNNGC 4 cut(s) 127, 315, 849, 882
CaiI CAGNNNCTG 1 cut(s) 122
Cfr13I GGNCC 6 cut(s) 89, 344, 368, 728, 901, 902
Cfr9I CCCGGG 1 cut(s) 980
ClaI ATCGAT 1 cut(s) 59
Csp6I GTAC 3 cut(s) 340, 361, 757
CspCI CAANNNNNGTGG 2 cut(s) 666, 701
CviAII CATG 3 cut(s) 650, 694, 853
CviQI GTAC 3 cut(s) 340, 361, 757
DdeI CTNAG 1 cut(s) 262
DpnI GATC 6 cut(s) 46, 81, 351, 743, 777, 924
DpnII GATC 6 cut(s) 44, 79, 349, 741, 775, 922
DraI TTTAAA 1 cut(s) 586
Ecl136II GAGCTC 1 cut(s) 596
Eco130I CCWWGG 4 cut(s) 271, 364, 628, 733
Eco24I GRGCYC 3 cut(s) 335, 598, 905
Eco47I GGWCC 2 cut(s) 89, 728
Eco53kI GAGCTC 1 cut(s) 596
Eco57I CTGAAG 1 cut(s) 589
Eco88I CYCGRG 1 cut(s) 980
Eco91I GGTNACC 1 cut(s) 710
EcoICRI GAGCTC 1 cut(s) 596
EcoO109I RGGNCCY 4 cut(s) 89, 728, 901, 902
EcoO65I GGTNACC 1 cut(s) 710
EcoRII CCWGG 5 cut(s) 335, 412, 548, 681, 760
EcoT14I CCWWGG 4 cut(s) 271, 364, 628, 733
EcoT38I GRGCYC 3 cut(s) 335, 598, 905
ErhI CCWWGG 4 cut(s) 271, 364, 628, 733
FaeI CATG 3 cut(s) 653, 697, 856
FaiI YATR 7 cut(s) 101, 203, 293, 651, 695, 854, 963
FaqI GGGAC 2 cut(s) 443, 798
FatI CATG 3 cut(s) 649, 693, 852
FbaI TGATCA 1 cut(s) 922
Fnu4HI GCNGC 1 cut(s) 769
FokI GGATG 2 cut(s) 199, 438
FriOI GRGCYC 3 cut(s) 335, 598, 905
Fsp4HI GCNGC 1 cut(s) 769
FspBI CTAG 2 cut(s) 644, 665
GluI GCNGC 1 cut(s) 769
GsaI CCCAGC 1 cut(s) 441
GsuI CTGGAG 1 cut(s) 532
HaeIII GGCC 5 cut(s) 233, 345, 369, 618, 903
HapII CCGG 7 cut(s) 378, 402, 536, 591, 723, 894, 981
Hin1II CATG 3 cut(s) 653, 697, 856
HinfI GANTC 4 cut(s) 61, 73, 119, 558
HpaII CCGG 7 cut(s) 378, 402, 536, 591, 723, 894, 981
HphI GGTGA 6 cut(s) 10, 392, 428, 736, 749, 883
Hpy166II GTNNAC 1 cut(s) 479
Hpy188I TCNGA 1 cut(s) 243
Hpy188III TCNNGA 6 cut(s) 36, 48, 65, 77, 498, 835
Hpy8I GTNNAC 1 cut(s) 479
HpyAV CCTTC 3 cut(s) 223, 605, 837
HpyCH4III ACNGT 3 cut(s) 281, 476, 756
HpyCH4V TGCA 5 cut(s) 125, 653, 791, 812, 880
HpyF10VI GCNNNNNNNGC 3 cut(s) 203, 615, 674
HpyF3I CTNAG 1 cut(s) 262
Hsp92II CATG 3 cut(s) 653, 697, 856
Ksp22I TGATCA 1 cut(s) 922
Kzo9I GATC 6 cut(s) 44, 79, 349, 741, 775, 922
LmnI GCTCC 4 cut(s) 330, 391, 538, 593
Lsp1109I GCAGC 1 cut(s) 780
MaeI CTAG 2 cut(s) 644, 665
MaeIII GTNAC 4 cut(s) 416, 710, 889, 940
MalI GATC 6 cut(s) 46, 81, 351, 743, 777, 924
MboI GATC 6 cut(s) 44, 79, 349, 741, 775, 922
MboII GAAGA 3 cut(s) 150, 310, 595
MflI RGATCY 1 cut(s) 79
MhlI GDGCHC 4 cut(s) 335, 598, 905, 981
MluCI AATT 1 cut(s) 144
MlyI GAGTC 1 cut(s) 567
MnlI CCTC 8 cut(s) 249, 288, 376, 629, 700, 719, 758, 796
MroXI GAANNNNTTC 1 cut(s) 489
MseI TTAA 2 cut(s) 585, 819
MspA1I CMGCKG 1 cut(s) 266
MspCI CTTAAG 1 cut(s) 818
MspI CCGG 7 cut(s) 378, 402, 536, 591, 723, 894, 981
MspR9I CCNGG 8 cut(s) 337, 414, 536, 550, 683, 762, 981, 982
Mva1269I GAATGC 1 cut(s) 660
MvaI CCWGG 5 cut(s) 337, 414, 550, 683, 762
MwoI GCNNNNNNNGC 3 cut(s) 203, 615, 674
NciI CCSGG 3 cut(s) 536, 981, 982
NdeII GATC 6 cut(s) 44, 79, 349, 741, 775, 922
NlaIII CATG 3 cut(s) 653, 697, 856
NlaIV GGNNCC 6 cut(s) 91, 332, 387, 730, 903, 904
NmuCI GTSAC 2 cut(s) 416, 889
PctI GAATGC 1 cut(s) 660
PdmI GAANNNNTTC 1 cut(s) 489
PfeI GAWTC 3 cut(s) 61, 73, 119
PflMI CCANNNNNTGG 1 cut(s) 224
PfoI TCCNGGA 2 cut(s) 534, 548
PkrI GCNGC 1 cut(s) 770
PleI GAGTC 1 cut(s) 566
PpsI GAGTC 1 cut(s) 566
PpuMI RGGWCCY 2 cut(s) 89, 728
Psp124BI GAGCTC 1 cut(s) 598
Psp5II RGGWCCY 2 cut(s) 89, 728
Psp6I CCWGG 5 cut(s) 335, 412, 548, 681, 760
PspEI GGTNACC 1 cut(s) 710
PspFI CCCAGC 1 cut(s) 437
PspGI CCWGG 5 cut(s) 335, 412, 548, 681, 760
PspN4I GGNNCC 6 cut(s) 91, 332, 387, 730, 903, 904
PspOMI GGGCCC 1 cut(s) 901
PspPI GGNCC 6 cut(s) 89, 344, 368, 728, 901, 902
PspPPI RGGWCCY 2 cut(s) 89, 728
PstNI CAGNNNCTG 1 cut(s) 122
PsuI RGATCY 1 cut(s) 79
PvuII CAGCTG 1 cut(s) 266
RsaI GTAC 3 cut(s) 341, 362, 758
RsaNI GTAC 3 cut(s) 340, 361, 757
SacI GAGCTC 1 cut(s) 598
SaqAI TTAA 2 cut(s) 585, 819
SatI GCNGC 1 cut(s) 769
Sau3AI GATC 6 cut(s) 44, 79, 349, 741, 775, 922
Sau96I GGNCC 6 cut(s) 89, 344, 368, 728, 901, 902
SchI GAGTC 1 cut(s) 567
ScrFI CCNGG 8 cut(s) 337, 414, 536, 550, 683, 762, 981, 982
SduI GDGCHC 4 cut(s) 335, 598, 905, 981
SinI GGWCC 2 cut(s) 89, 728
SmaI CCCGGG 1 cut(s) 982
SmlI CTYRAG 3 cut(s) 496, 818, 833
SmoI CTYRAG 3 cut(s) 496, 818, 833
Sse9I AATT 1 cut(s) 144
SsiI CCGC 1 cut(s) 715
SspMI CTAG 2 cut(s) 644, 665
SstI GAGCTC 1 cut(s) 598
StyD4I CCNGG 8 cut(s) 335, 412, 534, 548, 681, 760, 979, 980
StyI CCWWGG 4 cut(s) 271, 364, 628, 733
TaaI ACNGT 3 cut(s) 281, 476, 756
TaqI TCGA 2 cut(s) 59, 621
TasI AATT 1 cut(s) 144
TfiI GAWTC 3 cut(s) 61, 73, 119
Tru1I TTAA 2 cut(s) 585, 819
Tru9I TTAA 2 cut(s) 585, 819
TscAI CASTG 4 cut(s) 229, 439, 582, 759
TseFI GTSAC 2 cut(s) 416, 889
TseI GCWGC 1 cut(s) 768
Tsp45I GTSAC 2 cut(s) 416, 889
TspDTI ATGAA 2 cut(s) 138, 638
TspGWI ACGGA 2 cut(s) 438, 570
TspMI CCCGGG 1 cut(s) 980
TspRI CASTG 4 cut(s) 229, 439, 582, 759
Van91I CCANNNNNTGG 1 cut(s) 224
Vha464I CTTAAG 1 cut(s) 818
VpaK11BI GGWCC 2 cut(s) 89, 728
XmaI CCCGGG 1 cut(s) 980
XmnI GAANNNNTTC 1 cut(s) 489
XspI CTAG 2 cut(s) 644, 665
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.