Rroxscaffold_1G00013870

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_roxburghii
GWHEROQ00000001
OG0000275
Physical Location & Seq
Reverse (-)
17084994 .. 17085797
804 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00013870.1

Sequence Viewer

Length: 528 bp
ATGGCTTCTTCAGCAATGGCTCTCTCCTCCCCTTCTCTAGCTGGCCAAGTTGTGAAGCTCAGTCCCTCCACATCTAATCTCCTTGCCCGCAATGGAGTCAAGTTCGGCGAAGCTGTTTGGTTCAAGGCTGGAGCCCAGATATTTAGCGAGGGTGGGTTAGATTACTTGGGAAACCCGAGCTTAGTCCATGCCCAAAGCATTTTGGCAATTTGGGCCACACAGGTCATCTTGATGGGTGCTGTTGAAGGCTATAGAACTGCCGGTGGGCCTCTCGGTGAGGTGGTAGACCCATTGTACCCTGGTGGGAGCTTTGATCCATTAGGACTCGCTGAAGATCCAGCGGCATTTGCAGAACTTAAGGTGAAGGAGCTAAAGAATGGGAGATTAGCCATGTTTTCTATGTTCGGGTTTTTCGTGCAAGCCATTGTCACCGGAAAGGGACCAATCGAAAACCTCGCCGACCACTTGGCTGACCCTGTTAACAACAATGCTTGGTCATATGCAACAAACTTTGTTCCCGAAAAGTGA
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

175

Amino Acids

18.37

Weight (kDa)

5.08

Isoelectric Point (pI)

24.11

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 36 - 142 2.8e-23 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
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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)
AccI GTMKAC 1 cut(s) 285
AciI CCGC 2 cut(s) 88, 341
AclWI GGATC 2 cut(s) 308, 329
AcoI YGGCCR 1 cut(s) 43
AcuI CTGAAG 1 cut(s) 351
AfaI GTAC 1 cut(s) 296
AflII CTTAAG 1 cut(s) 356
AgsI TTSAA 2 cut(s) 124, 245
AjnI CCWGG 1 cut(s) 298
AluBI AGCT 6 cut(s) 41, 58, 113, 180, 309, 370
AluI AGCT 6 cut(s) 41, 58, 113, 180, 309, 370
AlwI GGATC 2 cut(s) 308, 329
Ama87I CYCGRG 1 cut(s) 175
AoxI GGCC 3 cut(s) 43, 213, 266
AspS9I GGNCC 3 cut(s) 213, 266, 440
AsuHPI GGTGA 3 cut(s) 287, 373, 421
AvaI CYCGRG 1 cut(s) 175
AvaII GGWCC 1 cut(s) 440
BalI TGGCCA 1 cut(s) 45
BanII GRGCYC 1 cut(s) 136
BccI CCATC 1 cut(s) 226
BciT130I CCWGG 1 cut(s) 300
BfaI CTAG 1 cut(s) 38
BfmI CTRYAG 1 cut(s) 250
BfrI CTTAAG 1 cut(s) 356
BisI GCNGC 1 cut(s) 342
BlsI GCNGC 1 cut(s) 343
Bme1390I CCNGG 1 cut(s) 300
Bme18I GGWCC 1 cut(s) 440
BmeT110I CYCGRG 1 cut(s) 175
BmgT120I GGNCC 3 cut(s) 213, 266, 440
BmiI GGNNCC 2 cut(s) 133, 441
BmrFI CCNGG 1 cut(s) 300
BpmI CTGGAG 1 cut(s) 150
BsaJI CCNNGG 1 cut(s) 298
BsaWI WCCGGW 1 cut(s) 431
Bse118I RCCGGY 1 cut(s) 260
Bse3DI GCAATG 2 cut(s) 21, 97
BseBI CCWGG 1 cut(s) 300
BseDI CCNNGG 1 cut(s) 298
BseMI GCAATG 2 cut(s) 21, 97
BseMII CTCAG 1 cut(s) 73
BseRI GAGGAG 1 cut(s) 16
BshFI GGCC 3 cut(s) 45, 215, 268
BsiHKCI CYCGRG 1 cut(s) 175
BsiSI CCGG 2 cut(s) 261, 432
BslFI GGGAC 2 cut(s) 48, 453
BsmFI GGGAC 2 cut(s) 48, 453
BsnI GGCC 3 cut(s) 45, 215, 268
BsoBI CYCGRG 1 cut(s) 175
Bsp1286I GDGCHC 1 cut(s) 136
Bsp143I GATC 2 cut(s) 313, 334
BspACI CCGC 2 cut(s) 88, 341
BspANI GGCC 3 cut(s) 45, 215, 268
BspCNI CTCAG 1 cut(s) 72
BspLI GGNNCC 2 cut(s) 133, 441
BspPI GGATC 2 cut(s) 308, 329
BspTI CTTAAG 1 cut(s) 356
BsrDI GCAATG 2 cut(s) 21, 97
BsrFI RCCGGY 1 cut(s) 260
BssAI RCCGGY 1 cut(s) 260
BssECI CCNNGG 1 cut(s) 298
BssMI GATC 2 cut(s) 313, 334
Bst2UI CCWGG 1 cut(s) 300
BstAFI CTTAAG 1 cut(s) 356
BstC8I GCNNGC 3 cut(s) 43, 88, 420
BstDEI CTNAG 2 cut(s) 59, 181
BstKTI GATC 2 cut(s) 316, 337
BstMBI GATC 2 cut(s) 313, 334
BstMWI GCNNNNNNNGC 3 cut(s) 11, 212, 347
BstNI CCWGG 1 cut(s) 300
BstSCI CCNGG 1 cut(s) 298
BstSFI CTRYAG 1 cut(s) 250
BstX2I RGATCY 1 cut(s) 334
BstYI RGATCY 1 cut(s) 334
BsuRI GGCC 3 cut(s) 45, 215, 268
Cac8I GCNNGC 3 cut(s) 43, 88, 420
Cfr10I RCCGGY 1 cut(s) 260
Cfr13I GGNCC 3 cut(s) 213, 266, 440
Csp6I GTAC 1 cut(s) 295
CviAII CATG 2 cut(s) 188, 391
CviQI GTAC 1 cut(s) 295
DdeI CTNAG 2 cut(s) 59, 181
DpnI GATC 2 cut(s) 315, 336
DpnII GATC 2 cut(s) 313, 334
EaeI YGGCCR 1 cut(s) 43
Eco24I GRGCYC 1 cut(s) 136
Eco47I GGWCC 1 cut(s) 440
Eco57I CTGAAG 1 cut(s) 351
Eco88I CYCGRG 1 cut(s) 175
EcoRII CCWGG 1 cut(s) 298
EcoT38I GRGCYC 1 cut(s) 136
FaeI CATG 2 cut(s) 191, 394
FaiI YATR 6 cut(s) 189, 252, 392, 401, 499, 501
FaqI GGGAC 2 cut(s) 48, 453
FatI CATG 2 cut(s) 187, 390
FauI CCCGC 1 cut(s) 95
FauNDI CATATG 1 cut(s) 499
FblI GTMKAC 1 cut(s) 285
Fnu4HI GCNGC 1 cut(s) 342
FriOI GRGCYC 1 cut(s) 136
Fsp4HI GCNGC 1 cut(s) 342
FspBI CTAG 1 cut(s) 38
GluI GCNGC 1 cut(s) 342
GsuI CTGGAG 1 cut(s) 150
HaeIII GGCC 3 cut(s) 45, 215, 268
HapII CCGG 2 cut(s) 261, 432
Hin1II CATG 2 cut(s) 191, 394
HincII GTYRAC 1 cut(s) 481
HindII GTYRAC 1 cut(s) 481
HinfI GANTC 2 cut(s) 96, 324
HpaI GTTAAC 1 cut(s) 481
HpaII CCGG 2 cut(s) 261, 432
HphI GGTGA 3 cut(s) 287, 373, 421
Hpy166II GTNNAC 2 cut(s) 286, 481
Hpy188III TCNNGA 2 cut(s) 229, 518
Hpy8I GTNNAC 2 cut(s) 286, 481
HpyAV CCTTC 3 cut(s) 42, 239, 358
HpyCH4V TGCA 3 cut(s) 350, 418, 503
HpyF10VI GCNNNNNNNGC 3 cut(s) 11, 212, 347
HpyF3I CTNAG 2 cut(s) 59, 181
Hsp92II CATG 2 cut(s) 191, 394
KspAI GTTAAC 1 cut(s) 481
Kzo9I GATC 2 cut(s) 313, 334
LmnI GCTCC 3 cut(s) 131, 306, 367
MaeI CTAG 1 cut(s) 38
MaeIII GTNAC 1 cut(s) 427
MalI GATC 2 cut(s) 315, 336
MboI GATC 2 cut(s) 313, 334
MboII GAAGA 1 cut(s) 344
MflI RGATCY 1 cut(s) 334
MhlI GDGCHC 1 cut(s) 136
MlsI TGGCCA 1 cut(s) 45
MluCI AATT 1 cut(s) 207
MluNI TGGCCA 1 cut(s) 45
MlyI GAGTC 2 cut(s) 105, 318
MnlI CCTC 6 cut(s) 37, 76, 142, 271, 279, 464
Mox20I TGGCCA 1 cut(s) 45
MscI TGGCCA 1 cut(s) 45
MseI TTAA 2 cut(s) 357, 480
MslI CAYNNNNRTG 1 cut(s) 230
Msp20I TGGCCA 1 cut(s) 45
MspA1I CMGCKG 1 cut(s) 341
MspCI CTTAAG 1 cut(s) 356
MspI CCGG 2 cut(s) 261, 432
MspR9I CCNGG 1 cut(s) 300
MvaI CCWGG 1 cut(s) 300
MwoI GCNNNNNNNGC 3 cut(s) 11, 212, 347
NdeI CATATG 1 cut(s) 499
NdeII GATC 2 cut(s) 313, 334
NlaIII CATG 2 cut(s) 191, 394
NlaIV GGNNCC 2 cut(s) 133, 441
NmuCI GTSAC 1 cut(s) 427
PcsI WCGNNNNNNNCGW 1 cut(s) 411
PkrI GCNGC 1 cut(s) 343
PleI GAGTC 2 cut(s) 104, 318
PpsI GAGTC 2 cut(s) 104, 318
Psp6I CCWGG 1 cut(s) 298
PspGI CCWGG 1 cut(s) 298
PspN4I GGNNCC 2 cut(s) 133, 441
PspPI GGNCC 3 cut(s) 213, 266, 440
PsuI RGATCY 1 cut(s) 334
RsaI GTAC 1 cut(s) 296
RsaNI GTAC 1 cut(s) 295
RseI CAYNNNNRTG 1 cut(s) 230
SaqAI TTAA 2 cut(s) 357, 480
SatI GCNGC 1 cut(s) 342
Sau3AI GATC 2 cut(s) 313, 334
Sau96I GGNCC 3 cut(s) 213, 266, 440
SchI GAGTC 2 cut(s) 105, 318
ScrFI CCNGG 1 cut(s) 300
SduI GDGCHC 1 cut(s) 136
SfcI CTRYAG 1 cut(s) 250
SinI GGWCC 1 cut(s) 440
SmiMI CAYNNNNRTG 1 cut(s) 230
SmlI CTYRAG 1 cut(s) 356
SmoI CTYRAG 1 cut(s) 356
Sse9I AATT 1 cut(s) 207
SsiI CCGC 2 cut(s) 88, 341
SspMI CTAG 1 cut(s) 38
StyD4I CCNGG 1 cut(s) 298
TaqI TCGA 1 cut(s) 447
TasI AATT 1 cut(s) 207
TauI GCSGC 1 cut(s) 344
Tru1I TTAA 2 cut(s) 357, 480
Tru9I TTAA 2 cut(s) 357, 480
TseFI GTSAC 1 cut(s) 427
Tsp45I GTSAC 1 cut(s) 427
Vha464I CTTAAG 1 cut(s) 356
VpaK11BI GGWCC 1 cut(s) 440
XmiI GTMKAC 1 cut(s) 285
XspI CTAG 1 cut(s) 38
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.