Rw4G025870

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_wichuraiana
Chr4
OG0013316
Physical Location & Seq
Reverse (-)
51967323 .. 51969288
1966 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw4G025870.1

Sequence Viewer

Length: 654 bp
ATGGCTTCTGCTTGGGCTTCATCTGCCATTGCAGCTGTGTCTTCTCCCAGCTCGCAGAAAGCTGGGTCTGCTTTGGCAGCAACAAAGGCTTCGTTTTTTGGCGGGAGGAAGCTGAGAGTGAGAAACGTGGCAGCACCGAGTGGATCATCATCAACTTCTTTTAGAGTATGTGCTACTGCTGCTGACCCTGACAGACCCCTATGGTTCCCGGGAAGCACCCCTCCTCCATGGCTAGACGGGAGCCTTCCAGGAGACTTTGGCTTTGATCCGCTTGGTCTTTCATCTGACCCTGACAGCCTAAAGTGGAACACACAAGCCGAGCTCGTACACTGCCGGTGGGCGATGTTGGGCGCCGCCGGTATCTTCATCCCAGAATTCTTGACAAAGATTGGCATCCTAAACACTCCTTCATGGTACACAGCAGGAGAACAAGAGTACTTCACTGACACTACCACCCTTTTCATTGTTGAGCTGATTTTCATCGGGTGGGCCGAGGGGAGGAGATGGGCTGACATTCTCAAGCCTGGGTCTGTTAACACCGACCCAATCTTCCCCAACAACAAGCTCACCGGGACAGACGTAGGATACCCAGGCGGGCTCTGGTTCGACCCCTTGGATGGGGAAGTGGCTCACCCGAGAAGATCAAGGAGTTGA

Protein Analysis

217

Amino Acids

23.25

Weight (kDa)

5.67

Isoelectric Point (pI)

42.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 74 - 206 1.9e-36 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: OG0013316)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G61470
fragaria_vesca FvH4_4g23750 FvH4_4g23750
malus_domestica MD13G1119100.v1.1 MD16G1119500.v1.1
prunus_persica Prupe.1G225700_v2.0.a1
pyrus_communis pycom13g10390 pycom16g10220
rosa_chinensis RchiOBHm_Chr4g0430241
rosa_laevigata RLG00000006992
rosa_multiflora Rmu_sc0001089.1_g000008
rosa_roxburghii Rroxscaffold_5G00372030
rosa_rugosa Rorug04G0241800
rosa_samantha Rh4AG298200 Rh4BG304800 Rh4CG320100 Rh4DG302100
rosa_wichuraiana Rw4G025870

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 350
AciI CCGC 4 cut(s) 102, 269, 354, 594
AclWI GGATC 2 cut(s) 151, 260
AcsI RAATTY 1 cut(s) 374
AcyI GRCGYC 1 cut(s) 351
AdeI CACNNNGTG 1 cut(s) 140
AfaI GTAC 3 cut(s) 327, 416, 437
AfiI CCNNNNNNNGG 3 cut(s) 498, 617, 618
AjnI CCWGG 3 cut(s) 247, 523, 589
AluBI AGCT 7 cut(s) 35, 51, 62, 112, 322, 472, 565
AluI AGCT 7 cut(s) 35, 51, 62, 112, 322, 472, 565
Alw21I GWGCWC 1 cut(s) 324
Alw26I GTCTC 1 cut(s) 246
AlwI GGATC 2 cut(s) 151, 260
Ama87I CYCGRG 2 cut(s) 208, 634
AoxI GGCC 1 cut(s) 489
ApeKI GCWGC 4 cut(s) 32, 77, 131, 179
ApoI RAATTY 1 cut(s) 374
ArsI GACNNNNNNTTYG 2 cut(s) 245, 277
AspLEI GCGC 1 cut(s) 353
AspS9I GGNCC 1 cut(s) 489
AsuC2I CCSGG 3 cut(s) 209, 210, 571
AsuHPI GGTGA 2 cut(s) 559, 623
AvaI CYCGRG 2 cut(s) 208, 634
BanI GGYRCC 1 cut(s) 350
BanII GRGCYC 2 cut(s) 324, 600
BbsI GAAGAC 1 cut(s) 33
Bbv12I GWGCWC 1 cut(s) 324
BbvI GCAGC 4 cut(s) 44, 89, 143, 166
BccI CCATC 2 cut(s) 498, 611
BciT130I CCWGG 3 cut(s) 249, 525, 591
BciVI GTATCC 1 cut(s) 578
BcnI CCSGG 3 cut(s) 209, 210, 571
BcoDI GTCTC 1 cut(s) 246
BfaI CTAG 1 cut(s) 233
BfoI RGCGCY 1 cut(s) 354
BfuI GTATCC 1 cut(s) 578
BisI GCNGC 5 cut(s) 33, 78, 132, 180, 354
BlsI GCNGC 5 cut(s) 34, 79, 133, 181, 355
BmcAI AGTACT 1 cut(s) 437
Bme1390I CCNGG 6 cut(s) 209, 210, 249, 525, 571, 591
BmeT110I CYCGRG 2 cut(s) 208, 634
BmgT120I GGNCC 1 cut(s) 489
BmiI GGNNCC 3 cut(s) 206, 242, 352
BmrFI CCNGG 6 cut(s) 209, 210, 249, 525, 571, 591
BmsI GCATC 1 cut(s) 402
BpiI GAAGAC 1 cut(s) 33
BpuEI CTTGAG 1 cut(s) 503
BpuMI CCSGG 3 cut(s) 209, 210, 571
BsaBI GATNNNNATC 3 cut(s) 148, 392, 479
BsaHI GRCGYC 1 cut(s) 351
BsaJI CCNNGG 6 cut(s) 208, 227, 492, 524, 589, 612
BsaXI ACNNNNNCTCC 2 cut(s) 208, 238
Bsc4I CCNNNNNNNGG 3 cut(s) 498, 617, 618
Bse118I RCCGGY 2 cut(s) 333, 356
Bse3DI GCAATG 1 cut(s) 27
Bse8I GATNNNNATC 3 cut(s) 148, 392, 479
BseBI CCWGG 3 cut(s) 249, 525, 591
BseDI CCNNGG 6 cut(s) 208, 227, 492, 524, 589, 612
BseGI GGATG 3 cut(s) 366, 393, 622
BseJI GATNNNNATC 3 cut(s) 148, 392, 479
BseLI CCNNNNNNNGG 3 cut(s) 498, 617, 618
BseMI GCAATG 1 cut(s) 27
BseMII CTCAG 1 cut(s) 104
BseRI GAGGAG 2 cut(s) 213, 514
BseXI GCAGC 4 cut(s) 44, 89, 143, 166
BseYI CCCAGC 2 cut(s) 47, 62
BshFI GGCC 1 cut(s) 491
BshNI GGYRCC 1 cut(s) 350
BsiHKAI GWGCWC 1 cut(s) 324
BsiHKCI CYCGRG 2 cut(s) 208, 634
BsiSI CCGG 4 cut(s) 209, 334, 357, 570
BslFI GGGAC 1 cut(s) 586
BslI CCNNNNNNNGG 3 cut(s) 498, 617, 618
BsmAI GTCTC 1 cut(s) 246
BsmFI GGGAC 1 cut(s) 586
BsnI GGCC 1 cut(s) 491
BsoBI CYCGRG 2 cut(s) 208, 634
Bsp1286I GDGCHC 2 cut(s) 324, 600
Bsp143I GATC 3 cut(s) 143, 265, 641
Bsp19I CCATGG 1 cut(s) 227
BspACI CCGC 4 cut(s) 102, 269, 354, 594
BspANI GGCC 1 cut(s) 491
BspCNI CTCAG 1 cut(s) 105
BspLI GGNNCC 3 cut(s) 206, 242, 352
BspPI GGATC 2 cut(s) 151, 260
BspT107I GGYRCC 1 cut(s) 350
BsrDI GCAATG 1 cut(s) 27
BsrFI RCCGGY 2 cut(s) 333, 356
BssAI RCCGGY 2 cut(s) 333, 356
BssECI CCNNGG 6 cut(s) 208, 227, 492, 524, 589, 612
BssMI GATC 3 cut(s) 143, 265, 641
BssNI GRCGYC 1 cut(s) 351
BssT1I CCWWGG 2 cut(s) 227, 612
Bst2UI CCWGG 3 cut(s) 249, 525, 591
BstACI GRCGYC 1 cut(s) 351
BstC8I GCNNGC 2 cut(s) 53, 596
BstDEI CTNAG 1 cut(s) 113
BstDSI CCRYGG 1 cut(s) 227
BstF5I GGATG 3 cut(s) 366, 393, 622
BstH2I RGCGCY 1 cut(s) 354
BstHHI GCGC 1 cut(s) 353
BstKTI GATC 3 cut(s) 146, 268, 644
BstMAI GTCTC 1 cut(s) 246
BstMBI GATC 3 cut(s) 143, 265, 641
BstMWI GCNNNNNNNGC 6 cut(s) 23, 32, 68, 77, 86, 179
BstNI CCWGG 3 cut(s) 249, 525, 591
BstSCI CCNGG 6 cut(s) 207, 208, 247, 523, 569, 589
BstV1I GCAGC 4 cut(s) 44, 89, 143, 166
BstV2I GAAGAC 1 cut(s) 33
BsuI GTATCC 1 cut(s) 578
BsuRI GGCC 1 cut(s) 491
BtgI CCRYGG 1 cut(s) 227
BtgZI GCGATG 1 cut(s) 356
BtsCI GGATG 3 cut(s) 366, 393, 622
BtsI GCAGTG 1 cut(s) 328
BtsIMutI CAGTG 2 cut(s) 328, 441
Cac8I GCNNGC 2 cut(s) 53, 596
CfoI GCGC 1 cut(s) 353
Cfr10I RCCGGY 2 cut(s) 333, 356
Cfr13I GGNCC 1 cut(s) 489
Cfr9I CCCGGG 1 cut(s) 208
Csp6I GTAC 3 cut(s) 326, 415, 436
CviAII CATG 2 cut(s) 228, 411
CviQI GTAC 3 cut(s) 326, 415, 436
DdeI CTNAG 1 cut(s) 113
DinI GGCGCC 1 cut(s) 352
DpnI GATC 3 cut(s) 145, 267, 643
DpnII GATC 3 cut(s) 143, 265, 641
DraIII CACNNNGTG 1 cut(s) 140
Ecl136II GAGCTC 1 cut(s) 322
Eco130I CCWWGG 2 cut(s) 227, 612
Eco24I GRGCYC 2 cut(s) 324, 600
Eco53kI GAGCTC 1 cut(s) 322
Eco88I CYCGRG 2 cut(s) 208, 634
EcoICRI GAGCTC 1 cut(s) 322
EcoRI GAATTC 1 cut(s) 374
EcoRII CCWGG 3 cut(s) 247, 523, 589
EcoT14I CCWWGG 2 cut(s) 227, 612
EcoT38I GRGCYC 2 cut(s) 324, 600
EgeI GGCGCC 1 cut(s) 352
EheI GGCGCC 1 cut(s) 352
ErhI CCWWGG 2 cut(s) 227, 612
FaeI CATG 2 cut(s) 231, 414
FaiI YATR 4 cut(s) 169, 202, 229, 412
FaqI GGGAC 1 cut(s) 586
FatI CATG 2 cut(s) 227, 410
FauI CCCGC 2 cut(s) 95, 587
Fnu4HI GCNGC 5 cut(s) 33, 78, 132, 180, 354
FokI GGATG 3 cut(s) 353, 380, 629
FriOI GRGCYC 2 cut(s) 324, 600
Fsp4HI GCNGC 5 cut(s) 33, 78, 132, 180, 354
FspBI CTAG 1 cut(s) 233
GlaI GCGC 1 cut(s) 352
GluI GCNGC 5 cut(s) 33, 78, 132, 180, 354
GsaI CCCAGC 2 cut(s) 51, 66
HaeII RGCGCY 1 cut(s) 354
HaeIII GGCC 1 cut(s) 491
HapII CCGG 4 cut(s) 209, 334, 357, 570
HhaI GCGC 1 cut(s) 353
Hin1I GRCGYC 1 cut(s) 351
Hin1II CATG 2 cut(s) 231, 414
Hin6I GCGC 1 cut(s) 351
HinP1I GCGC 1 cut(s) 351
HincII GTYRAC 1 cut(s) 535
HindII GTYRAC 1 cut(s) 535
HpaI GTTAAC 1 cut(s) 535
HpaII CCGG 4 cut(s) 209, 334, 357, 570
HphI GGTGA 2 cut(s) 559, 623
Hpy166II GTNNAC 3 cut(s) 328, 417, 535
Hpy188I TCNGA 1 cut(s) 286
Hpy188III TCNNGA 1 cut(s) 379
Hpy8I GTNNAC 3 cut(s) 328, 417, 535
HpyAV CCTTC 2 cut(s) 254, 417
HpyCH4IV ACGT 2 cut(s) 126, 579
HpyCH4V TGCA 1 cut(s) 32
HpyF10VI GCNNNNNNNGC 6 cut(s) 23, 32, 68, 77, 86, 179
HpyF3I CTNAG 1 cut(s) 113
HpySE526I ACGT 2 cut(s) 126, 579
Hsp92I GRCGYC 1 cut(s) 351
Hsp92II CATG 2 cut(s) 231, 414
HspAI GCGC 1 cut(s) 351
KasI GGCGCC 1 cut(s) 350
KspAI GTTAAC 1 cut(s) 535
Kzo9I GATC 3 cut(s) 143, 265, 641
LmnI GCTCC 1 cut(s) 240
Lsp1109I GCAGC 4 cut(s) 44, 89, 143, 166
LweI GCATC 1 cut(s) 402
MaeI CTAG 1 cut(s) 233
MaeII ACGT 2 cut(s) 126, 579
MalI GATC 3 cut(s) 145, 267, 643
MboI GATC 3 cut(s) 143, 265, 641
MboII GAAGA 4 cut(s) 33, 355, 541, 651
MhlI GDGCHC 2 cut(s) 324, 600
MluCI AATT 1 cut(s) 374
Mly113I GGCGCC 1 cut(s) 351
MnlI CCTC 5 cut(s) 99, 231, 234, 487, 492
MseI TTAA 1 cut(s) 534
MspA1I CMGCKG 1 cut(s) 35
MspI CCGG 4 cut(s) 209, 334, 357, 570
MspR9I CCNGG 6 cut(s) 209, 210, 249, 525, 571, 591
MvaI CCWGG 3 cut(s) 249, 525, 591
MwoI GCNNNNNNNGC 6 cut(s) 23, 32, 68, 77, 86, 179
NarI GGCGCC 1 cut(s) 351
NciI CCSGG 3 cut(s) 209, 210, 571
NcoI CCATGG 1 cut(s) 227
NdeII GATC 3 cut(s) 143, 265, 641
NlaIII CATG 2 cut(s) 231, 414
NlaIV GGNNCC 3 cut(s) 206, 242, 352
NmeAIII GCCGAG 2 cut(s) 343, 517
PcsI WCGNNNNNNNCGW 1 cut(s) 489
PfoI TCCNGGA 1 cut(s) 247
PkrI GCNGC 5 cut(s) 34, 79, 133, 181, 355
PluTI GGCGCC 1 cut(s) 354
Psp124BI GAGCTC 1 cut(s) 324
Psp6I CCWGG 3 cut(s) 247, 523, 589
PspFI CCCAGC 2 cut(s) 47, 62
PspGI CCWGG 3 cut(s) 247, 523, 589
PspN4I GGNNCC 3 cut(s) 206, 242, 352
PspPI GGNCC 1 cut(s) 489
PvuII CAGCTG 1 cut(s) 35
RsaI GTAC 3 cut(s) 327, 416, 437
RsaNI GTAC 3 cut(s) 326, 415, 436
SacI GAGCTC 1 cut(s) 324
SaqAI TTAA 1 cut(s) 534
SatI GCNGC 5 cut(s) 33, 78, 132, 180, 354
Sau3AI GATC 3 cut(s) 143, 265, 641
Sau96I GGNCC 1 cut(s) 489
ScaI AGTACT 1 cut(s) 437
ScrFI CCNGG 6 cut(s) 209, 210, 249, 525, 571, 591
SduI GDGCHC 2 cut(s) 324, 600
SetI ASST 9 cut(s) 37, 53, 64, 114, 129, 324, 474, 567, 582
SfaNI GCATC 1 cut(s) 402
SfoI GGCGCC 1 cut(s) 352
SmaI CCCGGG 1 cut(s) 210
SmlI CTYRAG 1 cut(s) 518
SmoI CTYRAG 1 cut(s) 518
Sse9I AATT 1 cut(s) 374
SsiI CCGC 4 cut(s) 102, 269, 354, 594
SspDI GGCGCC 1 cut(s) 350
SspMI CTAG 1 cut(s) 233
SstI GAGCTC 1 cut(s) 324
StyD4I CCNGG 6 cut(s) 207, 208, 247, 523, 569, 589
StyI CCWWGG 2 cut(s) 227, 612
TaiI ACGT 2 cut(s) 129, 582
TaqI TCGA 1 cut(s) 606
TasI AATT 1 cut(s) 374
TatI WGTACW 1 cut(s) 435
TauI GCSGC 1 cut(s) 356
Tru1I TTAA 1 cut(s) 534
Tru9I TTAA 1 cut(s) 534
TscAI CASTG 2 cut(s) 335, 448
TseI GCWGC 4 cut(s) 32, 77, 131, 179
TspDTI ATGAA 6 cut(s) 9, 270, 355, 399, 451, 469
TspMI CCCGGG 1 cut(s) 208
TspRI CASTG 2 cut(s) 335, 448
XapI RAATTY 1 cut(s) 374
XcmI CCANNNNNNNNNTGG 1 cut(s) 597
XmaI CCCGGG 1 cut(s) 208
XspI CTAG 1 cut(s) 233
ZrmI AGTACT 1 cut(s) 437
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.