Rh5DG098800

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
Chr5D
OG0003713
Physical Location & Seq
Forward (+)
9019297 .. 9020088
792 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG098800.1

Sequence Viewer

Length: 792 bp
ATGACTGCTTCCACAATGGCCCTCTCTTCCCCAACATTCGCCGGCAAGGCCGTCCAATTGGCCCCGGCCGAGATCTTCGGAAGTGGAAGAATCTCCATGAGGAAAACCGCGGGCAAGCCCGTTTCCTCTGGAAGCCCATGGTACGGCCCAGACAGAGTCAAGTACTTGGGCCCATTCTCTGGCGAGCCCCCAAGCTACCTCACTGGTGAGTTCCCCGGTGACTACGGTTGGGACACTGCTGGACTCTCAGCCGACCCAGAGACCTTCGCCAAGAACCGTGAGCTCGAAGTGATCCACTCCAGGTGGGCCATGCTCGGAGCTCTCGGGTGCGTCTTCCCCGAGCTCTTGGCCCGCAACGGCGTCAAGTTCGGCGAGGCTGTGTGGTTCAAGGCCGGAGCCCAAATCTTCAGCGAGGGTGGGCTCGACTACTTGGGCAACCCTAGCTTGGTCCACGCGCAGAGTATCTTGGCCATCTGGGCCACCCAAGTCATCTTGATGGGCGCAGTTGAAGGATACAGAATTGCTGGAGGCCCACTTGGAGAGGTCGAAGACCCACTTTACCCAGGAGGCAGCTTTGACCCATTGGGTCTTGCTGATGACCCAGAGGCTTTTGCTGAGCTTAAGGTGAAGGAGCTCAAGAATGGTAGGCTGGCCATGTTCTCTATGTTTGGGTTCTTTGTTCAGGCCATTGTTACCGGAAAGGGTCCATTGGAGAACCTTGCAGACCACCTTGCTGACCCAGTTAACAACAATGCCTGGTCCTACGCCACCAACTTTGTCCCCGGAAAGTGA

Protein Analysis

263

Amino Acids

27.98

Weight (kDa)

5.04

Isoelectric Point (pI)

23.39

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 63 - 230 6.3e-51 Chlorophyll A-B binding protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB7I CCANNNNNTGG 1 cut(s) 179
AccII CGCG 2 cut(s) 110, 455
AciI CCGC 3 cut(s) 108, 110, 352
AclWI GGATC 1 cut(s) 286
AcoI YGGCCR 3 cut(s) 66, 468, 651
AcuI CTGAAG 1 cut(s) 391
AcyI GRCGYC 1 cut(s) 360
AfaI GTAC 2 cut(s) 143, 164
AfiI CCNNNNNNNGG 3 cut(s) 143, 179, 445
AflII CTTAAG 1 cut(s) 620
AgsI TTSAA 2 cut(s) 388, 509
AjnI CCWGG 3 cut(s) 299, 562, 755
AluBI AGCT 8 cut(s) 195, 283, 320, 343, 444, 573, 619, 634
AluI AGCT 8 cut(s) 195, 283, 320, 343, 444, 573, 619, 634
Alw21I GWGCWC 4 cut(s) 285, 322, 345, 636
Alw26I GTCTC 1 cut(s) 254
AlwI GGATC 1 cut(s) 286
Ama87I CYCGRG 2 cut(s) 323, 338
ApaI GGGCCC 1 cut(s) 173
ApeKI GCWGC 1 cut(s) 570
AspLEI GCGC 2 cut(s) 457, 503
AsuC2I CCSGG 3 cut(s) 65, 216, 783
AsuHPI GGTGA 3 cut(s) 218, 230, 637
AvaI CYCGRG 2 cut(s) 323, 338
AvaII GGWCC 3 cut(s) 448, 704, 759
BaeGI GKGCMC 1 cut(s) 173
BalI TGGCCA 2 cut(s) 470, 653
BanII GRGCYC 8 cut(s) 173, 189, 285, 322, 345, 400, 423, 636
BbsI GAAGAC 2 cut(s) 325, 555
Bbv12I GWGCWC 4 cut(s) 285, 322, 345, 636
BbvI GCAGC 1 cut(s) 582
BccI CCATC 2 cut(s) 479, 490
BceAI ACGGC 3 cut(s) 35, 160, 373
BciT130I CCWGG 3 cut(s) 301, 564, 757
BciVI GTATCC 1 cut(s) 506
BcnI CCSGG 3 cut(s) 65, 216, 783
BcoDI GTCTC 1 cut(s) 254
BfaI CTAG 1 cut(s) 441
BfrI CTTAAG 1 cut(s) 620
BfuI GTATCC 1 cut(s) 506
BglI GCCNNNNNGGC 2 cut(s) 47, 476
BglII AGATCT 1 cut(s) 72
BisI GCNGC 1 cut(s) 571
BlpI GCTNAGC 1 cut(s) 615
BlsI GCNGC 1 cut(s) 572
BmcAI AGTACT 1 cut(s) 164
Bme1390I CCNGG 6 cut(s) 65, 216, 301, 564, 757, 783
Bme18I GGWCC 3 cut(s) 448, 704, 759
BmeT110I CYCGRG 2 cut(s) 323, 338
BmiI GGNNCC 4 cut(s) 63, 171, 397, 705
BmrFI CCNGG 6 cut(s) 65, 216, 301, 564, 757, 783
BmrI ACTGGG 1 cut(s) 734
BmuI ACTGGG 1 cut(s) 734
BpiI GAAGAC 2 cut(s) 325, 555
BpmI CTGGAG 2 cut(s) 283, 546
Bpu1102I GCTNAGC 1 cut(s) 615
BpuEI CTTGAG 1 cut(s) 620
BpuMI CCSGG 3 cut(s) 65, 216, 783
BsaHI GRCGYC 1 cut(s) 360
BsaI GGTCTC 1 cut(s) 254
BsaJI CCNNGG 6 cut(s) 63, 108, 137, 214, 562, 781
BsaWI WCCGGW 1 cut(s) 695
Bsc4I CCNNNNNNNGG 3 cut(s) 143, 179, 445
Bse118I RCCGGY 1 cut(s) 41
Bse1I ACTGG 2 cut(s) 208, 740
BseBI CCWGG 3 cut(s) 301, 564, 757
BseDI CCNNGG 6 cut(s) 63, 108, 137, 214, 562, 781
BseLI CCNNNNNNNGG 3 cut(s) 143, 179, 445
BseMII CTCAG 2 cut(s) 261, 606
BseNI ACTGG 2 cut(s) 208, 740
BseSI GKGCMC 1 cut(s) 173
BseX3I CGGCCG 1 cut(s) 66
BseXI GCAGC 1 cut(s) 582
Bsh1236I CGCG 2 cut(s) 110, 455
Bsh1285I CGRYCG 1 cut(s) 69
BsiEI CGRYCG 1 cut(s) 69
BsiHKAI GWGCWC 4 cut(s) 285, 322, 345, 636
BsiHKCI CYCGRG 2 cut(s) 323, 338
BsiSI CCGG 6 cut(s) 42, 65, 216, 393, 696, 783
BslFI GGGAC 2 cut(s) 245, 764
BslI CCNNNNNNNGG 3 cut(s) 143, 179, 445
BsmAI GTCTC 1 cut(s) 254
BsmFI GGGAC 2 cut(s) 245, 764
Bso31I GGTCTC 1 cut(s) 254
BsoBI CYCGRG 2 cut(s) 323, 338
Bsp120I GGGCCC 1 cut(s) 169
Bsp1286I GDGCHC 8 cut(s) 173, 189, 285, 322, 345, 400, 423, 636
Bsp143I GATC 2 cut(s) 72, 291
Bsp1720I GCTNAGC 1 cut(s) 615
Bsp19I CCATGG 1 cut(s) 137
BspACI CCGC 3 cut(s) 108, 110, 352
BspCNI CTCAG 2 cut(s) 260, 607
BspFNI CGCG 2 cut(s) 110, 455
BspLI GGNNCC 4 cut(s) 63, 171, 397, 705
BspPI GGATC 1 cut(s) 286
BspTI CTTAAG 1 cut(s) 620
BspTNI GGTCTC 1 cut(s) 254
BsrFI RCCGGY 1 cut(s) 41
BsrI ACTGG 2 cut(s) 208, 740
BssAI RCCGGY 1 cut(s) 41
BssECI CCNNGG 6 cut(s) 63, 108, 137, 214, 562, 781
BssMI GATC 2 cut(s) 72, 291
BssNI GRCGYC 1 cut(s) 360
BssT1I CCWWGG 1 cut(s) 137
Bst2UI CCWGG 3 cut(s) 301, 564, 757
Bst4CI ACNGT 2 cut(s) 227, 278
Bst6I CTCTTC 1 cut(s) 31
BstACI GRCGYC 1 cut(s) 360
BstAFI CTTAAG 1 cut(s) 620
BstC8I GCNNGC 6 cut(s) 43, 112, 116, 185, 352, 651
BstDEI CTNAG 2 cut(s) 247, 615
BstDSI CCRYGG 2 cut(s) 108, 137
BstFNI CGCG 2 cut(s) 110, 455
BstHHI GCGC 2 cut(s) 457, 503
BstKTI GATC 2 cut(s) 75, 294
BstMAI GTCTC 1 cut(s) 254
BstMBI GATC 2 cut(s) 72, 291
BstMCI CGRYCG 1 cut(s) 69
BstMWI GCNNNNNNNGC 3 cut(s) 47, 441, 476
BstNI CCWGG 3 cut(s) 301, 564, 757
BstSCI CCNGG 6 cut(s) 63, 214, 299, 562, 755, 781
BstSLI GKGCMC 1 cut(s) 173
BstUI CGCG 2 cut(s) 110, 455
BstV1I GCAGC 1 cut(s) 582
BstV2I GAAGAC 2 cut(s) 325, 555
BstX2I RGATCY 1 cut(s) 72
BstYI RGATCY 1 cut(s) 72
BstZI CGGCCG 1 cut(s) 66
BsuI GTATCC 1 cut(s) 506
BtgI CCRYGG 2 cut(s) 108, 137
BtsI GCAGTG 1 cut(s) 234
BtsIMutI CAGTG 2 cut(s) 201, 234
Cac8I GCNNGC 6 cut(s) 43, 112, 116, 185, 352, 651
CfoI GCGC 2 cut(s) 457, 503
Cfr10I RCCGGY 1 cut(s) 41
Cfr42I CCGCGG 1 cut(s) 111
CseI GACGC 2 cut(s) 319, 349
Csp6I GTAC 2 cut(s) 142, 163
CspCI CAANNNNNGTGG 2 cut(s) 757, 792
CviAII CATG 4 cut(s) 97, 138, 310, 655
CviQI GTAC 2 cut(s) 142, 163
DdeI CTNAG 2 cut(s) 247, 615
DpnI GATC 2 cut(s) 74, 293
DpnII GATC 2 cut(s) 72, 291
EaeI YGGCCR 3 cut(s) 66, 468, 651
EagI CGGCCG 1 cut(s) 66
Eam1104I CTCTTC 1 cut(s) 31
EarI CTCTTC 1 cut(s) 31
Ecl136II GAGCTC 4 cut(s) 283, 320, 343, 634
EclXI CGGCCG 1 cut(s) 66
Eco130I CCWWGG 1 cut(s) 137
Eco24I GRGCYC 8 cut(s) 173, 189, 285, 322, 345, 400, 423, 636
Eco31I GGTCTC 1 cut(s) 254
Eco47I GGWCC 3 cut(s) 448, 704, 759
Eco52I CGGCCG 1 cut(s) 66
Eco53kI GAGCTC 4 cut(s) 283, 320, 343, 634
Eco57I CTGAAG 1 cut(s) 391
Eco88I CYCGRG 2 cut(s) 323, 338
EcoICRI GAGCTC 4 cut(s) 283, 320, 343, 634
EcoRII CCWGG 3 cut(s) 299, 562, 755
EcoT14I CCWWGG 1 cut(s) 137
EcoT38I GRGCYC 8 cut(s) 173, 189, 285, 322, 345, 400, 423, 636
ErhI CCWWGG 1 cut(s) 137
FaeI CATG 4 cut(s) 100, 141, 313, 658
FaiI YATR 5 cut(s) 98, 139, 311, 656, 665
FalI AAGNNNNNCTT 2 cut(s) 540, 572
FaqI GGGAC 2 cut(s) 245, 764
FatI CATG 4 cut(s) 96, 137, 309, 654
FauI CCCGC 2 cut(s) 103, 359
Fnu4HI GCNGC 1 cut(s) 571
FriOI GRGCYC 8 cut(s) 173, 189, 285, 322, 345, 400, 423, 636
Fsp4HI GCNGC 1 cut(s) 571
FspBI CTAG 1 cut(s) 441
GlaI GCGC 2 cut(s) 456, 502
GluI GCNGC 1 cut(s) 571
GsuI CTGGAG 2 cut(s) 283, 546
HapII CCGG 6 cut(s) 42, 65, 216, 393, 696, 783
HgaI GACGC 2 cut(s) 319, 349
HhaI GCGC 2 cut(s) 457, 503
Hin1I GRCGYC 1 cut(s) 360
Hin1II CATG 4 cut(s) 100, 141, 313, 658
Hin6I GCGC 2 cut(s) 455, 501
HinP1I GCGC 2 cut(s) 455, 501
HincII GTYRAC 1 cut(s) 745
HindII GTYRAC 1 cut(s) 745
HinfI GANTC 3 cut(s) 90, 156, 243
HpaI GTTAAC 1 cut(s) 745
HpaII CCGG 6 cut(s) 42, 65, 216, 393, 696, 783
HphI GGTGA 3 cut(s) 218, 230, 637
Hpy166II GTNNAC 2 cut(s) 451, 745
Hpy188I TCNGA 2 cut(s) 80, 317
Hpy188III TCNNGA 3 cut(s) 129, 493, 637
Hpy8I GTNNAC 2 cut(s) 451, 745
HpyAV CCTTC 3 cut(s) 274, 503, 622
HpyCH4III ACNGT 2 cut(s) 227, 278
HpyCH4V TGCA 1 cut(s) 722
HpyF10VI GCNNNNNNNGC 3 cut(s) 47, 441, 476
HpyF3I CTNAG 2 cut(s) 247, 615
Hsp92I GRCGYC 1 cut(s) 360
Hsp92II CATG 4 cut(s) 100, 141, 313, 658
HspAI GCGC 2 cut(s) 455, 501
KroI GCCGGC 1 cut(s) 41
KroNI GCCGGC 1 cut(s) 43
KspAI GTTAAC 1 cut(s) 745
KspI CCGCGG 1 cut(s) 111
Kzo9I GATC 2 cut(s) 72, 291
LmnI GCTCC 3 cut(s) 317, 395, 631
Lsp1109I GCAGC 1 cut(s) 582
MaeI CTAG 1 cut(s) 441
MaeIII GTNAC 2 cut(s) 218, 691
MalI GATC 2 cut(s) 74, 293
MboI GATC 2 cut(s) 72, 291
MboII GAAGA 6 cut(s) 18, 67, 99, 325, 397, 560
MfeI CAATTG 1 cut(s) 56
MflI RGATCY 1 cut(s) 72
MhlI GDGCHC 8 cut(s) 173, 189, 285, 322, 345, 400, 423, 636
MlsI TGGCCA 2 cut(s) 470, 653
MluCI AATT 2 cut(s) 56, 519
MluNI TGGCCA 2 cut(s) 470, 653
MlyI GAGTC 2 cut(s) 165, 237
Mox20I TGGCCA 2 cut(s) 470, 653
MroNI GCCGGC 1 cut(s) 41
MscI TGGCCA 2 cut(s) 470, 653
MseI TTAA 2 cut(s) 621, 744
MslI CAYNNNNRTG 1 cut(s) 494
Msp20I TGGCCA 2 cut(s) 470, 653
MspA1I CMGCKG 1 cut(s) 110
MspCI CTTAAG 1 cut(s) 620
MspI CCGG 6 cut(s) 42, 65, 216, 393, 696, 783
MspR9I CCNGG 6 cut(s) 65, 216, 301, 564, 757, 783
MunI CAATTG 1 cut(s) 56
MvaI CCWGG 3 cut(s) 301, 564, 757
MvnI CGCG 2 cut(s) 110, 455
MwoI GCNNNNNNNGC 3 cut(s) 47, 441, 476
NaeI GCCGGC 1 cut(s) 43
NciI CCSGG 3 cut(s) 65, 216, 783
NcoI CCATGG 1 cut(s) 137
NdeII GATC 2 cut(s) 72, 291
NgoMIV GCCGGC 1 cut(s) 41
NlaIII CATG 4 cut(s) 100, 141, 313, 658
NlaIV GGNNCC 4 cut(s) 63, 171, 397, 705
NmeAIII GCCGAG 1 cut(s) 94
NmuCI GTSAC 1 cut(s) 218
PdiI GCCGGC 1 cut(s) 43
PfeI GAWTC 1 cut(s) 90
PflFI GACNNNGTC 1 cut(s) 155
PflMI CCANNNNNTGG 1 cut(s) 179
PkrI GCNGC 1 cut(s) 572
PleI GAGTC 2 cut(s) 164, 237
PpsI GAGTC 2 cut(s) 164, 237
Psp124BI GAGCTC 4 cut(s) 285, 322, 345, 636
Psp6I CCWGG 3 cut(s) 299, 562, 755
PspGI CCWGG 3 cut(s) 299, 562, 755
PspN4I GGNNCC 4 cut(s) 63, 171, 397, 705
PspOMI GGGCCC 1 cut(s) 169
PsuI RGATCY 1 cut(s) 72
PsyI GACNNNGTC 1 cut(s) 155
RsaI GTAC 2 cut(s) 143, 164
RsaNI GTAC 2 cut(s) 142, 163
RseI CAYNNNNRTG 1 cut(s) 494
SacI GAGCTC 4 cut(s) 285, 322, 345, 636
SacII CCGCGG 1 cut(s) 111
SaqAI TTAA 2 cut(s) 621, 744
SatI GCNGC 1 cut(s) 571
Sau3AI GATC 2 cut(s) 72, 291
ScaI AGTACT 1 cut(s) 164
SchI GAGTC 2 cut(s) 165, 237
ScrFI CCNGG 6 cut(s) 65, 216, 301, 564, 757, 783
SduI GDGCHC 8 cut(s) 173, 189, 285, 322, 345, 400, 423, 636
SfiI GGCCNNNNNGGCC 1 cut(s) 476
Sfr303I CCGCGG 1 cut(s) 111
SgrBI CCGCGG 1 cut(s) 111
SinI GGWCC 3 cut(s) 448, 704, 759
SmiMI CAYNNNNRTG 1 cut(s) 494
SmlI CTYRAG 2 cut(s) 620, 635
SmoI CTYRAG 2 cut(s) 620, 635
Sse9I AATT 2 cut(s) 56, 519
SsiI CCGC 3 cut(s) 108, 110, 352
SspMI CTAG 1 cut(s) 441
SstI GAGCTC 4 cut(s) 285, 322, 345, 636
StyD4I CCNGG 6 cut(s) 63, 214, 299, 562, 755, 781
StyI CCWWGG 1 cut(s) 137
TaaI ACNGT 2 cut(s) 227, 278
TaqI TCGA 3 cut(s) 285, 423, 546
TasI AATT 2 cut(s) 56, 519
TatI WGTACW 1 cut(s) 162
TfiI GAWTC 1 cut(s) 90
Tru1I TTAA 2 cut(s) 621, 744
Tru9I TTAA 2 cut(s) 621, 744
TscAI CASTG 2 cut(s) 208, 241
TseFI GTSAC 1 cut(s) 218
TseI GCWGC 1 cut(s) 570
Tsp45I GTSAC 1 cut(s) 218
TspRI CASTG 2 cut(s) 208, 241
Tth111I GACNNNGTC 1 cut(s) 155
Van91I CCANNNNNTGG 1 cut(s) 179
Vha464I CTTAAG 1 cut(s) 620
VpaK11BI GGWCC 3 cut(s) 448, 704, 759
XspI CTAG 1 cut(s) 441
ZrmI AGTACT 1 cut(s) 164
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.