Rh6AG470500

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
Chr6A
OG0013461
Physical Location & Seq
Reverse (-)
65364021 .. 65365539
1519 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh6AG470500.1

Sequence Viewer

Length: 798 bp
ATGGCAGTTGCAGCAGGAAGGGCTTTCCTTGTGCAGCCATCTTCTTTATGCTTTGCTTCGCATAACAATTTACCGAAGCATTCATTTGGTAACACAAGCACATCCTTGCTTGTTAAACCAGGAAATGCTCGAGGTTTTGCCCGACACATGGTTCGAGCCCAGGTGCGCCCTACTTGGCTTCCTGGGCTCGACCCCCCAGCATATCTGGATGGAAGCTTGGCTGGGGATTTCGGGTTTGACCCACTTGGGCTTGGAGAGGATCCGGAAAGCTTGAGGTGGTATGTGCAGGCAGAGCTGGTTCATTGTCGCTTTGCAATGCTTGGAGTTGCAGGAATTCTCCTAACAGATTTACTGCGTGTAACAGGAGTTCTCAGTATACCAGTATGGTACAATGCAGGGGCAGTTAAATTTGGGTTCGCCAATACAGAGACTTTGATCATTGTGCAGTTCCTTTTGATGGGATTTGTTGAAACTAAAAGATACATGGATTTCAAGACTCCTGGATCTCAAGCGAAAGATGGATCCTTCTTCGGACTGGAGGCTGCATTAGAAGGTTTAGAACCCGGGTATCCTGGTGGTCCATTGCTAAATCCTCTTGGTCTAGCAAAAGATATCAAGAATGCTCATGAGTGGAAGCTTAAAGAGATTAAGAATGGACGGCTTGCCATGGTGGCCATGCTCGGCATGTTTGTACAAGCTTCTGTTACTCATGCAGGACCCGTCGATAATCTTCTGTTACACCTCTCGGACCCATGGCACAGGACCATTGTTCAGACCCTAGCTAACTCTGGCTCTTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko00196 map00196
Pfam Domains
Protein Families
Chloroa_b-bind

Protein Analysis

265

Amino Acids

28.64

Weight (kDa)

7.84

Isoelectric Point (pI)

23.18

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 65 - 233 3.1e-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: OG0013461)

Species Orthologous Gene IDs
arabidopsis_thaliana AT1G45474 AT1G45474
fragaria_vesca FvH4_2g34471 FvH4_2g34471 FvH4_2g34471
malus_domestica MD15G1083400.v1.1
prunus_persica Prupe.1G435900_v2.0.a1
pyrus_communis pycom15g07790
rosa_chinensis RchiOBHm_Chr6g0307891
rosa_laevigata RLG00000010689
rosa_multiflora Rmu_sc0003252.1_g000017
rosa_roxburghii Rroxscaffold_7G00160780
rosa_rugosa Rorug06G0361500
rosa_samantha Rh6AG470500 Rh6BG481500 Rh6CG486900 Rh6DG473000
rosa_wichuraiana Rw6G041080

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccI GTMKAC 1 cut(s) 376
AccIII TCCGGA 1 cut(s) 262
AclWI GGATC 5 cut(s) 254, 267, 511, 516, 529
AcoI YGGCCR 1 cut(s) 672
AcsI RAATTY 2 cut(s) 333, 407
AfaI GTAC 2 cut(s) 389, 693
AfiI CCNNNNNNNGG 2 cut(s) 148, 457
AgsI TTSAA 2 cut(s) 470, 493
AjnI CCWGG 5 cut(s) 118, 159, 181, 499, 571
AluBI AGCT 6 cut(s) 216, 270, 295, 637, 698, 782
AluI AGCT 6 cut(s) 216, 270, 295, 637, 698, 782
Alw26I GTCTC 1 cut(s) 422
AlwI GGATC 5 cut(s) 254, 267, 511, 516, 529
Ama87I CYCGRG 2 cut(s) 129, 563
Aor13HI TCCGGA 1 cut(s) 262
AoxI GGCC 1 cut(s) 672
ApeKI GCWGC 3 cut(s) 11, 34, 542
ApoI RAATTY 2 cut(s) 333, 407
ArsI GACNNNNNNTTYG 2 cut(s) 135, 167
AspLEI GCGC 1 cut(s) 168
AspS9I GGNCC 4 cut(s) 578, 716, 748, 762
AsuC2I CCSGG 2 cut(s) 564, 565
AvaI CYCGRG 2 cut(s) 129, 563
AvaII GGWCC 4 cut(s) 578, 716, 748, 762
BaeI ACNNNNGTAYC 2 cut(s) 551, 584
BalI TGGCCA 1 cut(s) 674
BamHI GGATCC 2 cut(s) 259, 521
BanII GRGCYC 2 cut(s) 160, 189
BbvI GCAGC 3 cut(s) 23, 46, 529
BccI CCATC 4 cut(s) 46, 203, 451, 512
BceAI ACGGC 1 cut(s) 674
BciT130I CCWGG 5 cut(s) 120, 161, 183, 501, 573
BciVI GTATCC 1 cut(s) 579
BclI TGATCA 1 cut(s) 435
BcnI CCSGG 2 cut(s) 564, 565
BcoDI GTCTC 1 cut(s) 422
BfaI CTAG 2 cut(s) 602, 779
BfuI GTATCC 1 cut(s) 579
BglI GCCNNNNNGGC 1 cut(s) 671
BisI GCNGC 3 cut(s) 12, 35, 543
BlsI GCNGC 3 cut(s) 13, 36, 544
Bme1390I CCNGG 7 cut(s) 120, 161, 183, 501, 564, 565, 573
Bme18I GGWCC 4 cut(s) 578, 716, 748, 762
BmeT110I CYCGRG 2 cut(s) 129, 563
BmgT120I GGNCC 4 cut(s) 578, 716, 748, 762
BmiI GGNNCC 4 cut(s) 261, 523, 718, 750
BmrFI CCNGG 7 cut(s) 120, 161, 183, 501, 564, 565, 573
BpmI CTGGAG 1 cut(s) 557
BpuEI CTTGAG 2 cut(s) 292, 492
BpuMI CCSGG 2 cut(s) 564, 565
BsaJI CCNNGG 5 cut(s) 159, 182, 563, 666, 752
BsaWI WCCGGW 1 cut(s) 262
Bsc4I CCNNNNNNNGG 2 cut(s) 148, 457
Bse1I ACTGG 2 cut(s) 380, 540
Bse3DI GCAATG 2 cut(s) 321, 581
BseAI TCCGGA 1 cut(s) 262
BseBI CCWGG 5 cut(s) 120, 161, 183, 501, 573
BseDI CCNNGG 5 cut(s) 159, 182, 563, 666, 752
BseGI GGATG 2 cut(s) 101, 214
BseLI CCNNNNNNNGG 2 cut(s) 148, 457
BseMI GCAATG 2 cut(s) 321, 581
BseMII CTCAG 1 cut(s) 385
BseNI ACTGG 2 cut(s) 380, 540
BseXI GCAGC 3 cut(s) 23, 46, 529
BseYI CCCAGC 2 cut(s) 196, 221
BsgI GTGCAG 3 cut(s) 53, 305, 464
BshFI GGCC 1 cut(s) 674
BsiHKCI CYCGRG 2 cut(s) 129, 563
BsiSI CCGG 2 cut(s) 263, 564
BslI CCNNNNNNNGG 2 cut(s) 148, 457
BsmAI GTCTC 1 cut(s) 422
BsmI GAATGC 2 cut(s) 79, 625
BsnI GGCC 1 cut(s) 674
BsoBI CYCGRG 2 cut(s) 129, 563
Bsp1286I GDGCHC 2 cut(s) 160, 189
Bsp13I TCCGGA 1 cut(s) 262
Bsp1407I TGTACA 1 cut(s) 691
Bsp143I GATC 4 cut(s) 259, 435, 503, 521
Bsp19I CCATGG 2 cut(s) 666, 752
BspANI GGCC 1 cut(s) 674
BspCNI CTCAG 1 cut(s) 384
BspEI TCCGGA 1 cut(s) 262
BspHI TCATGA 1 cut(s) 625
BspLI GGNNCC 4 cut(s) 261, 523, 718, 750
BspPI GGATC 5 cut(s) 254, 267, 511, 516, 529
BsrDI GCAATG 2 cut(s) 321, 581
BsrGI TGTACA 1 cut(s) 691
BsrI ACTGG 2 cut(s) 380, 540
BssECI CCNNGG 5 cut(s) 159, 182, 563, 666, 752
BssMI GATC 4 cut(s) 259, 435, 503, 521
BssNAI GTATAC 1 cut(s) 377
BssT1I CCWWGG 2 cut(s) 666, 752
Bst1107I GTATAC 1 cut(s) 377
Bst2UI CCWGG 5 cut(s) 120, 161, 183, 501, 573
BstAUI TGTACA 1 cut(s) 691
BstC8I GCNNGC 2 cut(s) 288, 663
BstDEI CTNAG 1 cut(s) 371
BstDSI CCRYGG 2 cut(s) 666, 752
BstF5I GGATG 2 cut(s) 101, 214
BstHHI GCGC 1 cut(s) 168
BstKTI GATC 4 cut(s) 262, 438, 506, 524
BstMAI GTCTC 1 cut(s) 422
BstMBI GATC 4 cut(s) 259, 435, 503, 521
BstMWI GCNNNNNNNGC 5 cut(s) 11, 20, 184, 292, 671
BstNI CCWGG 5 cut(s) 120, 161, 183, 501, 573
BstNSI RCATGY 1 cut(s) 688
BstSCI CCNGG 7 cut(s) 118, 159, 181, 499, 562, 563, 571
BstV1I GCAGC 3 cut(s) 23, 46, 529
BstX2I RGATCY 3 cut(s) 259, 503, 521
BstYI RGATCY 3 cut(s) 259, 503, 521
BstZ17I GTATAC 1 cut(s) 377
BsuI GTATCC 1 cut(s) 579
BsuRI GGCC 1 cut(s) 674
BtgI CCRYGG 2 cut(s) 666, 752
BtsCI GGATG 2 cut(s) 101, 214
Cac8I GCNNGC 2 cut(s) 288, 663
CciI TCATGA 1 cut(s) 625
CfoI GCGC 1 cut(s) 168
Cfr13I GGNCC 4 cut(s) 578, 716, 748, 762
Cfr9I CCCGGG 1 cut(s) 563
Csp6I GTAC 2 cut(s) 388, 692
CviAII CATG 8 cut(s) 148, 484, 626, 667, 676, 685, 710, 753
CviQI GTAC 2 cut(s) 388, 692
DdeI CTNAG 1 cut(s) 371
DpnI GATC 4 cut(s) 261, 437, 505, 523
DpnII GATC 4 cut(s) 259, 435, 503, 521
EaeI YGGCCR 1 cut(s) 672
Eco130I CCWWGG 2 cut(s) 666, 752
Eco24I GRGCYC 2 cut(s) 160, 189
Eco32I GATATC 1 cut(s) 613
Eco47I GGWCC 4 cut(s) 578, 716, 748, 762
Eco88I CYCGRG 2 cut(s) 129, 563
EcoO109I RGGNCCY 1 cut(s) 716
EcoRI GAATTC 1 cut(s) 333
EcoRII CCWGG 5 cut(s) 118, 159, 181, 499, 571
EcoRV GATATC 1 cut(s) 613
EcoT14I CCWWGG 2 cut(s) 666, 752
EcoT38I GRGCYC 2 cut(s) 160, 189
ErhI CCWWGG 2 cut(s) 666, 752
FaeI CATG 8 cut(s) 151, 487, 629, 670, 679, 688, 713, 756
FatI CATG 8 cut(s) 147, 483, 625, 666, 675, 684, 709, 752
FbaI TGATCA 1 cut(s) 435
FblI GTMKAC 1 cut(s) 376
Fnu4HI GCNGC 3 cut(s) 12, 35, 543
FokI GGATG 2 cut(s) 88, 221
FriOI GRGCYC 2 cut(s) 160, 189
Fsp4HI GCNGC 3 cut(s) 12, 35, 543
FspBI CTAG 2 cut(s) 602, 779
GlaI GCGC 1 cut(s) 167
GluI GCNGC 3 cut(s) 12, 35, 543
GsaI CCCAGC 2 cut(s) 200, 225
GsuI CTGGAG 1 cut(s) 557
HaeIII GGCC 1 cut(s) 674
HapII CCGG 2 cut(s) 263, 564
HhaI GCGC 1 cut(s) 168
Hin1II CATG 8 cut(s) 151, 487, 629, 670, 679, 688, 713, 756
Hin6I GCGC 1 cut(s) 166
HinP1I GCGC 1 cut(s) 166
HindIII AAGCTT 4 cut(s) 214, 268, 635, 696
HinfI GANTC 1 cut(s) 496
HpaII CCGG 2 cut(s) 263, 564
Hpy166II GTNNAC 1 cut(s) 377
Hpy188I TCNGA 3 cut(s) 533, 748, 774
Hpy188III TCNNGA 5 cut(s) 206, 263, 493, 616, 626
Hpy8I GTNNAC 1 cut(s) 377
Hpy99I CGWCG 1 cut(s) 725
HpyAV CCTTC 3 cut(s) 12, 535, 545
HpyCH4V TGCA 9 cut(s) 11, 34, 286, 314, 329, 395, 445, 545, 713
HpyF10VI GCNNNNNNNGC 5 cut(s) 11, 20, 184, 292, 671
HpyF3I CTNAG 1 cut(s) 371
Hsp92II CATG 8 cut(s) 151, 487, 629, 670, 679, 688, 713, 756
HspAI GCGC 1 cut(s) 166
Kpn2I TCCGGA 1 cut(s) 262
Ksp22I TGATCA 1 cut(s) 435
Kzo9I GATC 4 cut(s) 259, 435, 503, 521
Lsp1109I GCAGC 3 cut(s) 23, 46, 529
MaeI CTAG 2 cut(s) 602, 779
MaeIII GTNAC 4 cut(s) 89, 358, 703, 735
MalI GATC 4 cut(s) 261, 437, 505, 523
MboI GATC 4 cut(s) 259, 435, 503, 521
MboII GAAGA 3 cut(s) 33, 520, 722
MflI RGATCY 3 cut(s) 259, 503, 521
MhlI GDGCHC 2 cut(s) 160, 189
MlsI TGGCCA 1 cut(s) 674
MluCI AATT 3 cut(s) 67, 333, 407
MluNI TGGCCA 1 cut(s) 674
MlyI GAGTC 1 cut(s) 490
MnlI CCTC 6 cut(s) 125, 250, 267, 532, 603, 752
Mox20I TGGCCA 1 cut(s) 674
MroI TCCGGA 1 cut(s) 262
MscI TGGCCA 1 cut(s) 674
MseI TTAA 5 cut(s) 114, 405, 639, 648, 796
Msp20I TGGCCA 1 cut(s) 674
MspI CCGG 2 cut(s) 263, 564
MspR9I CCNGG 7 cut(s) 120, 161, 183, 501, 564, 565, 573
Mva1269I GAATGC 2 cut(s) 79, 625
MvaI CCWGG 5 cut(s) 120, 161, 183, 501, 573
MwoI GCNNNNNNNGC 5 cut(s) 11, 20, 184, 292, 671
NciI CCSGG 2 cut(s) 564, 565
NcoI CCATGG 2 cut(s) 666, 752
NdeII GATC 4 cut(s) 259, 435, 503, 521
NlaIII CATG 8 cut(s) 151, 487, 629, 670, 679, 688, 713, 756
NlaIV GGNNCC 4 cut(s) 261, 523, 718, 750
NmeAIII GCCGAG 1 cut(s) 660
NspI RCATGY 1 cut(s) 688
PaeR7I CTCGAG 1 cut(s) 129
PagI TCATGA 1 cut(s) 625
PctI GAATGC 2 cut(s) 79, 625
PfoI TCCNGGA 1 cut(s) 499
PkrI GCNGC 3 cut(s) 13, 36, 544
PleI GAGTC 1 cut(s) 490
PpsI GAGTC 1 cut(s) 490
PpuMI RGGWCCY 1 cut(s) 716
Psp5II RGGWCCY 1 cut(s) 716
Psp6I CCWGG 5 cut(s) 118, 159, 181, 499, 571
PspFI CCCAGC 2 cut(s) 196, 221
PspGI CCWGG 5 cut(s) 118, 159, 181, 499, 571
PspN4I GGNNCC 4 cut(s) 261, 523, 718, 750
PspPI GGNCC 4 cut(s) 578, 716, 748, 762
PspPPI RGGWCCY 1 cut(s) 716
PspXI VCTCGAGB 1 cut(s) 129
PsrI GAACNNNNNNTAC 2 cut(s) 351, 383
PsuI RGATCY 3 cut(s) 259, 503, 521
RsaI GTAC 2 cut(s) 389, 693
RsaNI GTAC 2 cut(s) 388, 692
SaqAI TTAA 5 cut(s) 114, 405, 639, 648, 796
SatI GCNGC 3 cut(s) 12, 35, 543
Sau3AI GATC 4 cut(s) 259, 435, 503, 521
Sau96I GGNCC 4 cut(s) 578, 716, 748, 762
SchI GAGTC 1 cut(s) 490
ScrFI CCNGG 7 cut(s) 120, 161, 183, 501, 564, 565, 573
SduI GDGCHC 2 cut(s) 160, 189
Sfr274I CTCGAG 1 cut(s) 129
SinI GGWCC 4 cut(s) 578, 716, 748, 762
SlaI CTCGAG 1 cut(s) 129
SmaI CCCGGG 1 cut(s) 565
SmlI CTYRAG 3 cut(s) 129, 271, 507
SmoI CTYRAG 3 cut(s) 129, 271, 507
Sse9I AATT 3 cut(s) 67, 333, 407
SspMI CTAG 2 cut(s) 602, 779
StyD4I CCNGG 7 cut(s) 118, 159, 181, 499, 562, 563, 571
StyI CCWWGG 2 cut(s) 666, 752
TaqI TCGA 4 cut(s) 130, 154, 189, 723
TasI AATT 3 cut(s) 67, 333, 407
TatI WGTACW 1 cut(s) 691
Tru1I TTAA 5 cut(s) 114, 405, 639, 648, 796
Tru9I TTAA 5 cut(s) 114, 405, 639, 648, 796
TseI GCWGC 3 cut(s) 11, 34, 542
TspDTI ATGAA 2 cut(s) 72, 290
TspMI CCCGGG 1 cut(s) 563
VpaK11BI GGWCC 4 cut(s) 578, 716, 748, 762
XapI RAATTY 2 cut(s) 333, 407
XceI RCATGY 1 cut(s) 688
XhoI CTCGAG 1 cut(s) 129
XmaI CCCGGG 1 cut(s) 563
XmiI GTMKAC 1 cut(s) 376
XspI CTAG 2 cut(s) 602, 779
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.