Rh2DG542400

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
Chr2D
OG0000275
Physical Location & Seq
Forward (+)
77174541 .. 77175679
1139 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG542400.1

Sequence Viewer

Length: 798 bp
ATGGCAACCTCTCAAATCCAGCAGTCAGCATTTGCCGGCCAGACCGCATTGAAGCAATCAAATGAGCTCATCCAAAAGATTGGAGGCCTTGGTGGTGGCCGCATCACGATGAGGCGCACTGTTAAGAGTGCCCCCGAAAGCATATGGTATGGCCCTGACCGTCCAAAATACTTGGGACCATTCTCCGAGCAAACTCCGTCCTACTTGACTGGTGAATTCCCAGGCGACTACGGATGGGACACTGCTGGACTATCTGCAGACCCCGAGACCTTTGCCAAAAACCGTGAGCTTGAGGTGATCCACAGCCGATGGGCAATGCTTGGTGCATTGGGCTGCGTCTTCCCAGAAGTCTTGTCCAAGAATGGTGTCAAGTTCGGTGAGGCTGTTTGGTTCAAGGCCGGGTCCCAAATCTTTTCAGAGGGCGGCCTTGACTATCTTGGCAACCCAAACCTTGTCCATGCCCAGAGCATTTTAGCAATCTGGGCTGTCCAAGTTGTCCTCATGGGAGTTGTTGAGGGATACAGAGTCGGTGGAGGACCACTTGGCGAAGGTCTGGATCCACTTTACCCTGGAGGATCATTTGACCCACTTGGACTTGCTGATGATCCTGAAGCCTTTGCTGAACTGAAGGTGAAGGAACTCAAAAATGGGCGGCTGGCAATGACCTCAATGTTTGGATTCTTTGTTCAGGCTATTGTCACTGGAAAGGGTCCTGTTGAGAACCTCTATGACCATGTTGCTGATCCAGTGGCTAACAATGCATGGGCTTATGCCACAAACTTCGTCCCTGGAAAGTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
GO:0001101 GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005774 GO:0006091 GO:0006950 GO:0008150 GO:0008152 GO:0009266 GO:0009269 GO:0009314 GO:0009409 GO:0009414 GO:0009415 GO:0009416 GO:0009503 GO:0009507 GO:0009517 GO:0009521 GO:0009522 GO:0009523 GO:0009526 GO:0009532 GO:0009534 GO:0009535 GO:0009536 GO:0009570 GO:0009579 GO:0009628 GO:0009637 GO:0009639 GO:0009642 GO:0009644 GO:0009645 GO:0009719 GO:0009725 GO:0009737 GO:0009765 GO:0009768 GO:0009769 GO:0009889 GO:0009891 GO:0009893 GO:0009941 GO:0009987 GO:0010033 GO:0010035 GO:0010114 GO:0010119 GO:0010218 GO:0010287 GO:0015979 GO:0016020 GO:0016168 GO:0019222 GO:0019684 GO:0019904 GO:0030076 GO:0030104 GO:0031090 GO:0031323 GO:0031325 GO:0031409 GO:0031967 GO:0031975 GO:0031976 GO:0031984 GO:0032870 GO:0032991 GO:0033993 GO:0034357 GO:0042221 GO:0042592 GO:0042651 GO:0043167 GO:0043168 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044422 GO:0044424 GO:0044425 GO:0044434 GO:0044435 GO:0044436 GO:0044437 GO:0044444 GO:0044446 GO:0044464 GO:0046906 GO:0048037 GO:0048518 GO:0048522 GO:0048878 GO:0050789 GO:0050794 GO:0050896 GO:0051716 GO:0055035 GO:0065007 GO:0065008 GO:0070887 GO:0071215 GO:0071229 GO:0071310 GO:0071396 GO:0071495 GO:0090333 GO:0097159 GO:0097305 GO:0097306 GO:0098588 GO:0098796 GO:0098805 GO:0098807 GO:1901363 GO:1901700 GO:1901701 GO:1903426 GO:1903428 GO:2000377 GO:2000379
KEGG Pathways
Metabolic & Signaling
ko00196 ko01100 map00196 map01100
Pfam Domains
Protein Families
Chloroa_b-bind

Protein Analysis

265

Amino Acids

28.44

Weight (kDa)

5.16

Isoelectric Point (pI)

28.41

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 66 - 232 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: 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)
AciI CCGC 4 cut(s) 45, 100, 423, 652
AclWI GGATC 6 cut(s) 292, 551, 564, 583, 599, 737
AcoI YGGCCR 2 cut(s) 37, 97
AcsI RAATTY 1 cut(s) 215
AcuI CTGAAG 2 cut(s) 630, 647
AgsI TTSAA 2 cut(s) 52, 394
AjnI CCWGG 3 cut(s) 220, 568, 787
AloI GAACNNNNNNTCC 2 cut(s) 669, 701
AluBI AGCT 2 cut(s) 67, 289
AluI AGCT 2 cut(s) 67, 289
Alw21I GWGCWC 1 cut(s) 69
Alw26I GTCTC 1 cut(s) 260
AlwI GGATC 6 cut(s) 292, 551, 564, 583, 599, 737
Ama87I CYCGRG 1 cut(s) 263
AoxI GGCC 6 cut(s) 37, 85, 97, 151, 396, 424
ApeKI GCWGC 1 cut(s) 333
ApoI RAATTY 1 cut(s) 215
AspLEI GCGC 1 cut(s) 117
AspS9I GGNCC 5 cut(s) 152, 176, 402, 536, 710
AsuC2I CCSGG 1 cut(s) 400
AsuHPI GGTGA 4 cut(s) 224, 307, 389, 643
AvaI CYCGRG 1 cut(s) 263
AvaII GGWCC 4 cut(s) 176, 402, 536, 710
BaeGI GKGCMC 1 cut(s) 133
BamHI GGATCC 1 cut(s) 556
BanII GRGCYC 1 cut(s) 69
BbsI GAAGAC 1 cut(s) 331
Bbv12I GWGCWC 1 cut(s) 69
BbvI GCAGC 1 cut(s) 320
BccI CCATC 2 cut(s) 228, 303
BcgI CGANNNNNNTGC 2 cut(s) 254, 288
BciT130I CCWGG 3 cut(s) 222, 570, 789
BciVI GTATCC 1 cut(s) 512
BcnI CCSGG 1 cut(s) 400
BcoDI GTCTC 1 cut(s) 260
BfmI CTRYAG 1 cut(s) 255
BfuI GTATCC 1 cut(s) 512
BisI GCNGC 4 cut(s) 100, 334, 424, 653
BlsI GCNGC 4 cut(s) 101, 335, 425, 654
Bme1390I CCNGG 4 cut(s) 222, 400, 570, 789
Bme18I GGWCC 4 cut(s) 176, 402, 536, 710
BmeT110I CYCGRG 1 cut(s) 263
BmgT120I GGNCC 5 cut(s) 152, 176, 402, 536, 710
BmiI GGNNCC 5 cut(s) 177, 403, 404, 558, 711
BmrFI CCNGG 4 cut(s) 222, 400, 570, 789
BmsI GCATC 1 cut(s) 111
BpiI GAAGAC 1 cut(s) 331
BpmI CTGGAG 1 cut(s) 591
BpuEI CTTGAG 1 cut(s) 311
BpuMI CCSGG 1 cut(s) 400
BsaI GGTCTC 1 cut(s) 260
BsaJI CCNNGG 4 cut(s) 88, 220, 568, 787
Bse118I RCCGGY 1 cut(s) 35
Bse1I ACTGG 3 cut(s) 214, 706, 746
Bse3DI GCAATG 2 cut(s) 321, 666
BseBI CCWGG 3 cut(s) 222, 570, 789
BseDI CCNNGG 4 cut(s) 88, 220, 568, 787
BseGI GGATG 2 cut(s) 69, 239
BseMI GCAATG 2 cut(s) 321, 666
BseNI ACTGG 3 cut(s) 214, 706, 746
BseSI GKGCMC 1 cut(s) 133
BseXI GCAGC 1 cut(s) 320
BshFI GGCC 6 cut(s) 39, 87, 99, 153, 398, 426
BsiHKAI GWGCWC 1 cut(s) 69
BsiHKCI CYCGRG 1 cut(s) 263
BsiSI CCGG 2 cut(s) 36, 399
BslFI GGGAC 4 cut(s) 189, 251, 388, 770
BsmAI GTCTC 1 cut(s) 260
BsmFI GGGAC 4 cut(s) 189, 251, 388, 770
BsnI GGCC 6 cut(s) 39, 87, 99, 153, 398, 426
Bso31I GGTCTC 1 cut(s) 260
BsoBI CYCGRG 1 cut(s) 263
Bsp1286I GDGCHC 2 cut(s) 69, 133
Bsp143I GATC 5 cut(s) 297, 556, 575, 604, 742
BspACI CCGC 4 cut(s) 45, 100, 423, 652
BspANI GGCC 6 cut(s) 39, 87, 99, 153, 398, 426
BspLI GGNNCC 5 cut(s) 177, 403, 404, 558, 711
BspMAI CTGCAG 1 cut(s) 259
BspPI GGATC 6 cut(s) 292, 551, 564, 583, 599, 737
BspTNI GGTCTC 1 cut(s) 260
BsrDI GCAATG 2 cut(s) 321, 666
BsrFI RCCGGY 1 cut(s) 35
BsrI ACTGG 3 cut(s) 214, 706, 746
BssAI RCCGGY 1 cut(s) 35
BssECI CCNNGG 4 cut(s) 88, 220, 568, 787
BssMI GATC 5 cut(s) 297, 556, 575, 604, 742
BssT1I CCWWGG 1 cut(s) 88
Bst2UI CCWGG 3 cut(s) 222, 570, 789
Bst4CI ACNGT 3 cut(s) 121, 161, 284
BstC8I GCNNGC 2 cut(s) 37, 657
BstF5I GGATG 2 cut(s) 69, 239
BstHHI GCGC 1 cut(s) 117
BstKTI GATC 5 cut(s) 300, 559, 578, 607, 745
BstMAI GTCTC 1 cut(s) 260
BstMBI GATC 5 cut(s) 297, 556, 575, 604, 742
BstMWI GCNNNNNNNGC 2 cut(s) 482, 758
BstNI CCWGG 3 cut(s) 222, 570, 789
BstSCI CCNGG 4 cut(s) 220, 398, 568, 787
BstSFI CTRYAG 1 cut(s) 255
BstSLI GKGCMC 1 cut(s) 133
BstV1I GCAGC 1 cut(s) 320
BstV2I GAAGAC 1 cut(s) 331
BstX2I RGATCY 1 cut(s) 556
BstXI CCANNNNNNTGG 1 cut(s) 80
BstYI RGATCY 1 cut(s) 556
BsuI GTATCC 1 cut(s) 512
BsuRI GGCC 6 cut(s) 39, 87, 99, 153, 398, 426
BtsCI GGATG 2 cut(s) 69, 239
BtsI GCAGTG 1 cut(s) 240
BtsIMutI CAGTG 4 cut(s) 117, 240, 699, 753
Cac8I GCNNGC 2 cut(s) 37, 657
CfoI GCGC 1 cut(s) 117
Cfr10I RCCGGY 1 cut(s) 35
Cfr13I GGNCC 5 cut(s) 152, 176, 402, 536, 710
CseI GACGC 1 cut(s) 325
CviAII CATG 4 cut(s) 458, 502, 734, 762
DpnI GATC 5 cut(s) 299, 558, 577, 606, 744
DpnII GATC 5 cut(s) 297, 556, 575, 604, 742
EaeI YGGCCR 2 cut(s) 37, 97
Ecl136II GAGCTC 1 cut(s) 67
Eco130I CCWWGG 1 cut(s) 88
Eco147I AGGCCT 1 cut(s) 87
Eco24I GRGCYC 1 cut(s) 69
Eco31I GGTCTC 1 cut(s) 260
Eco47I GGWCC 4 cut(s) 176, 402, 536, 710
Eco53kI GAGCTC 1 cut(s) 67
Eco57I CTGAAG 2 cut(s) 630, 647
Eco88I CYCGRG 1 cut(s) 263
EcoICRI GAGCTC 1 cut(s) 67
EcoO109I RGGNCCY 2 cut(s) 402, 710
EcoRI GAATTC 1 cut(s) 215
EcoRII CCWGG 3 cut(s) 220, 568, 787
EcoT14I CCWWGG 1 cut(s) 88
EcoT22I ATGCAT 1 cut(s) 763
EcoT38I GRGCYC 1 cut(s) 69
ErhI CCWWGG 1 cut(s) 88
FaeI CATG 4 cut(s) 461, 505, 737, 765
FaiI YATR 9 cut(s) 143, 145, 150, 459, 503, 729, 735, 763, 771
FaqI GGGAC 4 cut(s) 189, 251, 388, 770
FatI CATG 4 cut(s) 457, 501, 733, 761
FauNDI CATATG 1 cut(s) 143
Fnu4HI GCNGC 4 cut(s) 100, 334, 424, 653
FokI GGATG 2 cut(s) 56, 246
FriOI GRGCYC 1 cut(s) 69
Fsp4HI GCNGC 4 cut(s) 100, 334, 424, 653
GlaI GCGC 1 cut(s) 116
GluI GCNGC 4 cut(s) 100, 334, 424, 653
GsuI CTGGAG 1 cut(s) 591
HaeIII GGCC 6 cut(s) 39, 87, 99, 153, 398, 426
HapII CCGG 2 cut(s) 36, 399
HgaI GACGC 1 cut(s) 325
HhaI GCGC 1 cut(s) 117
Hin1II CATG 4 cut(s) 461, 505, 737, 765
Hin6I GCGC 1 cut(s) 115
HinP1I GCGC 1 cut(s) 115
HinfI GANTC 2 cut(s) 525, 678
HpaII CCGG 2 cut(s) 36, 399
HphI GGTGA 4 cut(s) 224, 307, 389, 643
Hpy188I TCNGA 2 cut(s) 187, 418
Hpy188III TCNNGA 3 cut(s) 106, 554, 608
HpyAV CCTTC 3 cut(s) 542, 622, 628
HpyCH4III ACNGT 3 cut(s) 121, 161, 284
HpyCH4V TGCA 3 cut(s) 257, 326, 761
HpyF10VI GCNNNNNNNGC 2 cut(s) 482, 758
Hsp92II CATG 4 cut(s) 461, 505, 737, 765
HspAI GCGC 1 cut(s) 115
KflI GGGWCCC 1 cut(s) 402
KroI GCCGGC 1 cut(s) 35
KroNI GCCGGC 1 cut(s) 37
Kzo9I GATC 5 cut(s) 297, 556, 575, 604, 742
Lsp1109I GCAGC 1 cut(s) 320
LweI GCATC 1 cut(s) 111
MaeIII GTNAC 1 cut(s) 697
MalI GATC 5 cut(s) 299, 558, 577, 606, 744
MboI GATC 5 cut(s) 297, 556, 575, 604, 742
MboII GAAGA 1 cut(s) 331
MflI RGATCY 1 cut(s) 556
MhlI GDGCHC 2 cut(s) 69, 133
MluCI AATT 1 cut(s) 215
MlyI GAGTC 1 cut(s) 534
Mph1103I ATGCAT 1 cut(s) 763
MroNI GCCGGC 1 cut(s) 35
MseI TTAA 1 cut(s) 123
MslI CAYNNNNRTG 1 cut(s) 107
MspI CCGG 2 cut(s) 36, 399
MspR9I CCNGG 4 cut(s) 222, 400, 570, 789
MvaI CCWGG 3 cut(s) 222, 570, 789
MwoI GCNNNNNNNGC 2 cut(s) 482, 758
NaeI GCCGGC 1 cut(s) 37
NciI CCSGG 1 cut(s) 400
NdeI CATATG 1 cut(s) 143
NdeII GATC 5 cut(s) 297, 556, 575, 604, 742
NgoMIV GCCGGC 1 cut(s) 35
NlaIII CATG 4 cut(s) 461, 505, 737, 765
NlaIV GGNNCC 5 cut(s) 177, 403, 404, 558, 711
NmuCI GTSAC 1 cut(s) 697
NsiI ATGCAT 1 cut(s) 763
PceI AGGCCT 1 cut(s) 87
PdiI GCCGGC 1 cut(s) 37
PfeI GAWTC 1 cut(s) 678
PkrI GCNGC 4 cut(s) 101, 335, 425, 654
PleI GAGTC 1 cut(s) 533
PpsI GAGTC 1 cut(s) 533
PpuMI RGGWCCY 2 cut(s) 402, 710
Psp124BI GAGCTC 1 cut(s) 69
Psp5II RGGWCCY 2 cut(s) 402, 710
Psp6I CCWGG 3 cut(s) 220, 568, 787
PspGI CCWGG 3 cut(s) 220, 568, 787
PspN4I GGNNCC 5 cut(s) 177, 403, 404, 558, 711
PspPI GGNCC 5 cut(s) 152, 176, 402, 536, 710
PspPPI RGGWCCY 2 cut(s) 402, 710
PstI CTGCAG 1 cut(s) 259
PsuI RGATCY 1 cut(s) 556
RseI CAYNNNNRTG 1 cut(s) 107
SacI GAGCTC 1 cut(s) 69
SaqAI TTAA 1 cut(s) 123
SatI GCNGC 4 cut(s) 100, 334, 424, 653
Sau3AI GATC 5 cut(s) 297, 556, 575, 604, 742
Sau96I GGNCC 5 cut(s) 152, 176, 402, 536, 710
SchI GAGTC 1 cut(s) 534
ScrFI CCNGG 4 cut(s) 222, 400, 570, 789
SduI GDGCHC 2 cut(s) 69, 133
SfaNI GCATC 1 cut(s) 111
SfcI CTRYAG 1 cut(s) 255
SinI GGWCC 4 cut(s) 176, 402, 536, 710
SmiMI CAYNNNNRTG 1 cut(s) 107
SmlI CTYRAG 1 cut(s) 290
SmoI CTYRAG 1 cut(s) 290
Sse9I AATT 1 cut(s) 215
SseBI AGGCCT 1 cut(s) 87
SsiI CCGC 4 cut(s) 45, 100, 423, 652
SstI GAGCTC 1 cut(s) 69
StuI AGGCCT 1 cut(s) 87
StyD4I CCNGG 4 cut(s) 220, 398, 568, 787
StyI CCWWGG 1 cut(s) 88
TaaI ACNGT 3 cut(s) 121, 161, 284
TasI AATT 1 cut(s) 215
TauI GCSGC 3 cut(s) 102, 426, 655
TfiI GAWTC 1 cut(s) 678
Tru1I TTAA 1 cut(s) 123
Tru9I TTAA 1 cut(s) 123
TscAI CASTG 4 cut(s) 124, 247, 706, 753
TseFI GTSAC 1 cut(s) 697
TseI GCWGC 1 cut(s) 333
Tsp45I GTSAC 1 cut(s) 697
TspGWI ACGGA 2 cut(s) 186, 246
TspRI CASTG 4 cut(s) 124, 247, 706, 753
VpaK11BI GGWCC 4 cut(s) 176, 402, 536, 710
XapI RAATTY 1 cut(s) 215
Zsp2I ATGCAT 1 cut(s) 763
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.