RchiOBHm_Chr1g0370011

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_chinensis
1
OG0015003
Physical Location & Seq
Reverse (-)
59613497 .. 59616210
2714 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ59423

Sequence Viewer

Length: 825 bp
ATGGCCACCACCACAGCTGCCATCACGTCACGTTTCTTCGGAGCTCAACTTCAAAACCCTAGCCCTAGCTTCGGAAAGTTCCAAGCTCTCTTTAGCTTCGGCAAGAAGTCACCACCACCGCCGCCAAAGAAGGCCCCCAAGAAGCCGGAGACCGACAGGCTTGTGTGGTTCCCCGGTGCCCAACCACCCGAATGGCTCGATGGTTCCCTCGCAGGCGACCGCGGATTTGATCCATTCGGGCTGGGGAAGCCGACGGAGTACTTGCAGTTTGACTACGACGGGTTGGACCAGAACCTGGCCAAGAACTTGGCTGGTGATGTGATCGGGACCAGGATCGAAGCTTCGGACCTCAATCCGACGCCGTTGCAGCCGTACACGGAGGTTTTCGGGCTGCAGAGGTTCAGAGAGTGCGAGCTGATTCATGGGAGGTGGGCAATGCTTGGCTCTCTTGGAGCTCTAGCTGTTGAGGGTCTCACTGGTGTTGCATGGCAAGACGCTGGGAAGGTTGAATTGGTTGAGGGATCATCCTACCTTGGTCTTCCACTTCCCTTTAACATCACCACCTTGATATGGATCGAGGTGTTGGTACTAGGGTACATTGAGTTCCAAAGGAATGCAGAACTCGACCCCGAGAAGAGGCTATACCCGGGTGGTAAGTTTTTTGATCCATTGGGTTTGGCCGCCGACCCAGAAGAGAAGGAAAGACTTCAACTGGCTGAGATCAAGCATGCTCGTCTGGCTATGGTGGTCTTCCTTGTTTTCGGTATTCAAGCAGCTGTGACCGGAAAAGGACCTATCAGTTTTCTAGCTACCTTTAACAAATAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00196 ko01100 map00196 map01100
Pfam Domains
Protein Families
Chloroa_b-bind

Protein Analysis

274

Amino Acids

30.03

Weight (kDa)

5.39

Isoelectric Point (pI)

45.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 62 - 258 2.5e-38 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: OG0015003)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G40100
fragaria_vesca FvH4_7g24350
malus_domestica MD01G1132800.v1.1
prunus_persica Prupe.2G248900_v2.0.a1
pyrus_communis pycom01g16940
rosa_chinensis RchiOBHm_Chr1g0370011
rosa_laevigata RLG00000027078
rosa_multiflora Rmu_sc0005056.1_g000015
rosa_roxburghii Rroxscaffold_4G00286870 Rroxscaffold_4G00287160
rosa_rugosa Rorug01G0353400
rosa_samantha Rh1AG362100 Rh1BG325300 Rh1CG338600 Rh1DG355800
rosa_wichuraiana Rw1G031860

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 176
AccB7I CCANNNNNTGG 1 cut(s) 295
AccII CGCG 1 cut(s) 222
AciI CCGC 5 cut(s) 119, 122, 220, 222, 681
AclWI GGATC 5 cut(s) 224, 341, 529, 581, 659
AcoI YGGCCR 3 cut(s) 3, 297, 678
AcyI GRCGYC 1 cut(s) 359
AfaI GTAC 4 cut(s) 260, 374, 588, 596
AfiI CCNNNNNNNGG 4 cut(s) 71, 295, 570, 636
AgsI TTSAA 4 cut(s) 53, 509, 710, 770
AjiI CACGTC 1 cut(s) 27
AjnI CCWGG 2 cut(s) 294, 329
AjuI GAANNNNNNNTTGG 2 cut(s) 494, 526
Alw21I GWGCWC 2 cut(s) 46, 457
Alw26I GTCTC 2 cut(s) 143, 476
AlwI GGATC 5 cut(s) 224, 341, 529, 581, 659
AlwNI CAGNNNCTG 1 cut(s) 295
Ama87I CYCGRG 2 cut(s) 629, 646
AoxI GGCC 4 cut(s) 3, 132, 297, 678
ApeKI GCWGC 4 cut(s) 17, 367, 391, 773
ArsI GACNNNNNNTTYG 2 cut(s) 209, 241
Asp700I GAANNNNTTC 1 cut(s) 705
AspS9I GGNCC 5 cut(s) 133, 286, 327, 346, 791
AsuC2I CCSGG 3 cut(s) 174, 647, 648
AsuHPI GGTGA 3 cut(s) 102, 326, 550
AvaI CYCGRG 2 cut(s) 629, 646
AvaII GGWCC 4 cut(s) 286, 327, 346, 791
BaeGI GKGCMC 1 cut(s) 181
BaeI ACNNNNGTAYC 2 cut(s) 578, 611
BalI TGGCCA 2 cut(s) 5, 299
BanI GGYRCC 1 cut(s) 176
BanII GRGCYC 2 cut(s) 46, 457
BarI GAAGNNNNNNTAC 2 cut(s) 626, 658
BbsI GAAGAC 2 cut(s) 530, 742
Bbv12I GWGCWC 2 cut(s) 46, 457
BbvI GCAGC 4 cut(s) 4, 378, 379, 785
BccI CCATC 2 cut(s) 29, 194
BceAI ACGGC 2 cut(s) 346, 355
BcgI CGANNNNNNTGC 2 cut(s) 346, 380
BciT130I CCWGG 2 cut(s) 296, 331
BcnI CCSGG 3 cut(s) 174, 647, 648
BcoDI GTCTC 2 cut(s) 143, 476
BfaI CTAG 5 cut(s) 60, 66, 458, 590, 806
BfmI CTRYAG 1 cut(s) 392
BisI GCNGC 6 cut(s) 18, 122, 368, 392, 681, 774
BlsI GCNGC 6 cut(s) 19, 123, 369, 393, 682, 775
BmcAI AGTACT 1 cut(s) 260
Bme1390I CCNGG 5 cut(s) 174, 296, 331, 647, 648
Bme18I GGWCC 4 cut(s) 286, 327, 346, 791
BmeT110I CYCGRG 2 cut(s) 629, 646
BmgBI CACGTC 1 cut(s) 27
BmgT120I GGNCC 5 cut(s) 133, 286, 327, 346, 791
BmiI GGNNCC 5 cut(s) 135, 170, 178, 205, 328
BmrFI CCNGG 5 cut(s) 174, 296, 331, 647, 648
BpiI GAAGAC 2 cut(s) 530, 742
BpuMI CCSGG 3 cut(s) 174, 647, 648
BsaBI GATNNNNATC 1 cut(s) 572
BsaHI GRCGYC 1 cut(s) 359
BsaI GGTCTC 2 cut(s) 143, 476
BsaJI CCNNGG 4 cut(s) 172, 220, 532, 646
BsaWI WCCGGW 1 cut(s) 782
Bsc4I CCNNNNNNNGG 4 cut(s) 71, 295, 570, 636
Bse1I ACTGG 2 cut(s) 481, 717
Bse3DI GCAATG 1 cut(s) 441
Bse8I GATNNNNATC 1 cut(s) 572
BseBI CCWGG 2 cut(s) 296, 331
BseDI CCNNGG 4 cut(s) 172, 220, 532, 646
BseGI GGATG 1 cut(s) 524
BseJI GATNNNNATC 1 cut(s) 572
BseLI CCNNNNNNNGG 4 cut(s) 71, 295, 570, 636
BseMI GCAATG 1 cut(s) 441
BseMII CTCAG 1 cut(s) 708
BseNI ACTGG 2 cut(s) 481, 717
BseSI GKGCMC 1 cut(s) 181
BseXI GCAGC 4 cut(s) 4, 378, 379, 785
BseYI CCCAGC 2 cut(s) 241, 497
Bsh1236I CGCG 1 cut(s) 222
Bsh1285I CGRYCG 1 cut(s) 220
BshFI GGCC 4 cut(s) 5, 134, 299, 680
BshNI GGYRCC 1 cut(s) 176
BsiEI CGRYCG 1 cut(s) 220
BsiHKAI GWGCWC 2 cut(s) 46, 457
BsiHKCI CYCGRG 2 cut(s) 629, 646
BsiSI CCGG 4 cut(s) 146, 174, 647, 783
BslFI GGGAC 1 cut(s) 340
BslI CCNNNNNNNGG 4 cut(s) 71, 295, 570, 636
BsmAI GTCTC 2 cut(s) 143, 476
BsmFI GGGAC 1 cut(s) 340
BsmI GAATGC 1 cut(s) 619
BsnI GGCC 4 cut(s) 5, 134, 299, 680
Bso31I GGTCTC 2 cut(s) 143, 476
BsoBI CYCGRG 2 cut(s) 629, 646
Bsp1286I GDGCHC 3 cut(s) 46, 181, 457
Bsp143I GATC 7 cut(s) 229, 321, 333, 521, 573, 664, 720
BspACI CCGC 5 cut(s) 119, 122, 220, 222, 681
BspANI GGCC 4 cut(s) 5, 134, 299, 680
BspCNI CTCAG 1 cut(s) 709
BspFNI CGCG 1 cut(s) 222
BspLI GGNNCC 5 cut(s) 135, 170, 178, 205, 328
BspMAI CTGCAG 1 cut(s) 396
BspPI GGATC 5 cut(s) 224, 341, 529, 581, 659
BspT107I GGYRCC 1 cut(s) 176
BspTNI GGTCTC 2 cut(s) 143, 476
BsrDI GCAATG 1 cut(s) 441
BsrI ACTGG 2 cut(s) 481, 717
BssECI CCNNGG 4 cut(s) 172, 220, 532, 646
BssMI GATC 7 cut(s) 229, 321, 333, 521, 573, 664, 720
BssNI GRCGYC 1 cut(s) 359
BssT1I CCWWGG 1 cut(s) 532
Bst2UI CCWGG 2 cut(s) 296, 331
Bst6I CTCTTC 2 cut(s) 629, 687
BstACI GRCGYC 1 cut(s) 359
BstC8I GCNNGC 3 cut(s) 214, 413, 729
BstDEI CTNAG 1 cut(s) 717
BstDSI CCRYGG 1 cut(s) 220
BstF5I GGATG 1 cut(s) 524
BstFNI CGCG 1 cut(s) 222
BstKTI GATC 7 cut(s) 232, 324, 336, 524, 576, 667, 723
BstMAI GTCTC 2 cut(s) 143, 476
BstMBI GATC 7 cut(s) 229, 321, 333, 521, 573, 664, 720
BstMCI CGRYCG 1 cut(s) 220
BstMWI GCNNNNNNNGC 3 cut(s) 247, 367, 737
BstNI CCWGG 2 cut(s) 296, 331
BstNSI RCATGY 1 cut(s) 731
BstSCI CCNGG 5 cut(s) 172, 294, 329, 645, 646
BstSFI CTRYAG 1 cut(s) 392
BstSLI GKGCMC 1 cut(s) 181
BstUI CGCG 1 cut(s) 222
BstV1I GCAGC 4 cut(s) 4, 378, 379, 785
BstV2I GAAGAC 2 cut(s) 530, 742
BstXI CCANNNNNNTGG 2 cut(s) 192, 307
BsuRI GGCC 4 cut(s) 5, 134, 299, 680
BtgI CCRYGG 1 cut(s) 220
BtrI CACGTC 1 cut(s) 27
BtsCI GGATG 1 cut(s) 524
BtsIMutI CAGTG 1 cut(s) 474
Cac8I GCNNGC 3 cut(s) 214, 413, 729
CaiI CAGNNNCTG 1 cut(s) 295
Cfr13I GGNCC 5 cut(s) 133, 286, 327, 346, 791
Cfr42I CCGCGG 1 cut(s) 223
Cfr9I CCCGGG 1 cut(s) 646
CseI GACGC 2 cut(s) 367, 503
Csp6I GTAC 4 cut(s) 259, 373, 587, 595
CviAII CATG 3 cut(s) 422, 486, 728
CviQI GTAC 4 cut(s) 259, 373, 587, 595
DdeI CTNAG 1 cut(s) 717
DpnI GATC 7 cut(s) 231, 323, 335, 523, 575, 666, 722
DpnII GATC 7 cut(s) 229, 321, 333, 521, 573, 664, 720
EaeI YGGCCR 3 cut(s) 3, 297, 678
Eam1104I CTCTTC 2 cut(s) 629, 687
EarI CTCTTC 2 cut(s) 629, 687
Ecl136II GAGCTC 2 cut(s) 44, 455
Eco130I CCWWGG 1 cut(s) 532
Eco24I GRGCYC 2 cut(s) 46, 457
Eco31I GGTCTC 2 cut(s) 143, 476
Eco47I GGWCC 4 cut(s) 286, 327, 346, 791
Eco53kI GAGCTC 2 cut(s) 44, 455
Eco88I CYCGRG 2 cut(s) 629, 646
EcoICRI GAGCTC 2 cut(s) 44, 455
EcoO109I RGGNCCY 2 cut(s) 133, 791
EcoRII CCWGG 2 cut(s) 294, 329
EcoT14I CCWWGG 1 cut(s) 532
EcoT38I GRGCYC 2 cut(s) 46, 457
ErhI CCWWGG 1 cut(s) 532
FaeI CATG 3 cut(s) 425, 489, 731
FaiI YATR 6 cut(s) 423, 487, 571, 643, 729, 743
FaqI GGGAC 1 cut(s) 340
FatI CATG 3 cut(s) 421, 485, 727
Fnu4HI GCNGC 6 cut(s) 18, 122, 368, 392, 681, 774
FokI GGATG 1 cut(s) 511
FriOI GRGCYC 2 cut(s) 46, 457
Fsp4HI GCNGC 6 cut(s) 18, 122, 368, 392, 681, 774
FspBI CTAG 5 cut(s) 60, 66, 458, 590, 806
GluI GCNGC 6 cut(s) 18, 122, 368, 392, 681, 774
GsaI CCCAGC 2 cut(s) 245, 501
HaeIII GGCC 4 cut(s) 5, 134, 299, 680
HapII CCGG 4 cut(s) 146, 174, 647, 783
HgaI GACGC 2 cut(s) 367, 503
Hin1I GRCGYC 1 cut(s) 359
Hin1II CATG 3 cut(s) 425, 489, 731
HindIII AAGCTT 1 cut(s) 339
HinfI GANTC 1 cut(s) 418
HpaII CCGG 4 cut(s) 146, 174, 647, 783
HphI GGTGA 3 cut(s) 102, 326, 550
Hpy166II GTNNAC 1 cut(s) 375
Hpy188I TCNGA 5 cut(s) 41, 74, 346, 357, 404
Hpy188III TCNNGA 1 cut(s) 325
Hpy8I GTNNAC 1 cut(s) 375
Hpy99I CGWCG 3 cut(s) 256, 281, 361
HpyAV CCTTC 3 cut(s) 124, 496, 691
HpyCH4IV ACGT 2 cut(s) 26, 31
HpyCH4V TGCA 5 cut(s) 265, 367, 394, 485, 617
HpyF10VI GCNNNNNNNGC 3 cut(s) 247, 367, 737
HpyF3I CTNAG 1 cut(s) 717
HpySE526I ACGT 2 cut(s) 26, 31
Hsp92I GRCGYC 1 cut(s) 359
Hsp92II CATG 3 cut(s) 425, 489, 731
KspI CCGCGG 1 cut(s) 223
Kzo9I GATC 7 cut(s) 229, 321, 333, 521, 573, 664, 720
LmnI GCTCC 2 cut(s) 41, 452
Lsp1109I GCAGC 4 cut(s) 4, 378, 379, 785
MaeI CTAG 5 cut(s) 60, 66, 458, 590, 806
MaeII ACGT 2 cut(s) 26, 31
MaeIII GTNAC 3 cut(s) 27, 108, 778
MalI GATC 7 cut(s) 231, 323, 335, 523, 575, 666, 722
MboI GATC 7 cut(s) 229, 321, 333, 521, 573, 664, 720
MboII GAAGA 5 cut(s) 28, 530, 646, 704, 742
MhlI GDGCHC 3 cut(s) 46, 181, 457
MlsI TGGCCA 2 cut(s) 5, 299
MluCI AATT 1 cut(s) 509
MluNI TGGCCA 2 cut(s) 5, 299
MmeI TCCRAC 2 cut(s) 264, 380
MnlI CCTC 9 cut(s) 218, 359, 373, 390, 420, 460, 511, 571, 630
Mox20I TGGCCA 2 cut(s) 5, 299
MroXI GAANNNNTTC 1 cut(s) 705
MscI TGGCCA 2 cut(s) 5, 299
MseI TTAA 2 cut(s) 552, 816
MslI CAYNNNNRTG 1 cut(s) 190
Msp20I TGGCCA 2 cut(s) 5, 299
MspA1I CMGCKG 3 cut(s) 17, 222, 776
MspI CCGG 4 cut(s) 146, 174, 647, 783
MspR9I CCNGG 5 cut(s) 174, 296, 331, 647, 648
Mva1269I GAATGC 1 cut(s) 619
MvaI CCWGG 2 cut(s) 296, 331
MvnI CGCG 1 cut(s) 222
MwoI GCNNNNNNNGC 3 cut(s) 247, 367, 737
NciI CCSGG 3 cut(s) 174, 647, 648
NdeII GATC 7 cut(s) 229, 321, 333, 521, 573, 664, 720
NlaIII CATG 3 cut(s) 425, 489, 731
NlaIV GGNNCC 5 cut(s) 135, 170, 178, 205, 328
NmuCI GTSAC 3 cut(s) 27, 108, 778
NspI RCATGY 1 cut(s) 731
PaeI GCATGC 1 cut(s) 731
PctI GAATGC 1 cut(s) 619
PdmI GAANNNNTTC 1 cut(s) 705
PfeI GAWTC 1 cut(s) 418
PflMI CCANNNNNTGG 1 cut(s) 295
PkrI GCNGC 6 cut(s) 19, 123, 369, 393, 682, 775
PpuMI RGGWCCY 1 cut(s) 791
Psp124BI GAGCTC 2 cut(s) 46, 457
Psp5II RGGWCCY 1 cut(s) 791
Psp6I CCWGG 2 cut(s) 294, 329
PspFI CCCAGC 2 cut(s) 241, 497
PspGI CCWGG 2 cut(s) 294, 329
PspN4I GGNNCC 5 cut(s) 135, 170, 178, 205, 328
PspPI GGNCC 5 cut(s) 133, 286, 327, 346, 791
PspPPI RGGWCCY 1 cut(s) 791
PsrI GAACNNNNNNTAC 2 cut(s) 587, 619
PstI CTGCAG 1 cut(s) 396
PstNI CAGNNNCTG 1 cut(s) 295
PvuII CAGCTG 2 cut(s) 17, 776
RsaI GTAC 4 cut(s) 260, 374, 588, 596
RsaNI GTAC 4 cut(s) 259, 373, 587, 595
RseI CAYNNNNRTG 1 cut(s) 190
SacI GAGCTC 2 cut(s) 46, 457
SacII CCGCGG 1 cut(s) 223
SaqAI TTAA 2 cut(s) 552, 816
SatI GCNGC 6 cut(s) 18, 122, 368, 392, 681, 774
Sau3AI GATC 7 cut(s) 229, 321, 333, 521, 573, 664, 720
Sau96I GGNCC 5 cut(s) 133, 286, 327, 346, 791
ScaI AGTACT 1 cut(s) 260
ScrFI CCNGG 5 cut(s) 174, 296, 331, 647, 648
SduI GDGCHC 3 cut(s) 46, 181, 457
SfcI CTRYAG 1 cut(s) 392
Sfr303I CCGCGG 1 cut(s) 223
SgrBI CCGCGG 1 cut(s) 223
SinI GGWCC 4 cut(s) 286, 327, 346, 791
SmaI CCCGGG 1 cut(s) 648
SmiMI CAYNNNNRTG 1 cut(s) 190
SphI GCATGC 1 cut(s) 731
Sse9I AATT 1 cut(s) 509
SsiI CCGC 5 cut(s) 119, 122, 220, 222, 681
SspMI CTAG 5 cut(s) 60, 66, 458, 590, 806
SstI GAGCTC 2 cut(s) 46, 457
StyD4I CCNGG 5 cut(s) 172, 294, 329, 645, 646
StyI CCWWGG 1 cut(s) 532
TaiI ACGT 2 cut(s) 29, 34
TaqI TCGA 4 cut(s) 198, 336, 576, 624
TaqII GACCGA 1 cut(s) 167
TasI AATT 1 cut(s) 509
TatI WGTACW 1 cut(s) 258
TauI GCSGC 2 cut(s) 124, 683
TfiI GAWTC 1 cut(s) 418
Tru1I TTAA 2 cut(s) 552, 816
Tru9I TTAA 2 cut(s) 552, 816
TscAI CASTG 1 cut(s) 481
TseFI GTSAC 3 cut(s) 27, 108, 778
TseI GCWGC 4 cut(s) 17, 367, 391, 773
Tsp45I GTSAC 3 cut(s) 27, 108, 778
TspDTI ATGAA 1 cut(s) 410
TspGWI ACGGA 2 cut(s) 269, 392
TspMI CCCGGG 1 cut(s) 646
TspRI CASTG 1 cut(s) 481
Van91I CCANNNNNTGG 1 cut(s) 295
VpaK11BI GGWCC 4 cut(s) 286, 327, 346, 791
XceI RCATGY 1 cut(s) 731
XmaI CCCGGG 1 cut(s) 646
XmnI GAANNNNTTC 1 cut(s) 705
XspI CTAG 5 cut(s) 60, 66, 458, 590, 806
ZrmI AGTACT 1 cut(s) 260
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.