Rroxscaffold_2G00096230

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
GWHEROQ00000002
OG0000275
Physical Location & Seq
Forward (+)
17469843 .. 17470586
744 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00096230.1

Sequence Viewer

Length: 339 bp
ATGGCTTCCTCAACAATGGCTCTCTCCTCCCCTTCTCTAGCTGGCCAAGCTGTGAAGCTCGGTTCCTCCTCTACATCTAACCTCCTCGCTGTTTGGTTCAAGGCTGGAGCTCAAATCTTCAGTGAGGGTGGATTAGACTACTTGGGAAACCCGAGCTTGGTCCATGCCCAAAGCATTCTGGCAATTTGGGCAACACAGGGCTTGCAGACGATCCCCGAGGCTTTTGCTGAGCTCAAGGTGAAGGAGCTCAAGAATGGAAGACTGGCCATGTTCTCGATGTTCGGGTTTTTTGTGCAAGCTATTGTTACAGGAAAGGGACCGATTGAGAACCCTAGCTGA
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

112

Amino Acids

11.73

Weight (kDa)

8.09

Isoelectric Point (pI)

30.6

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 67 - 101 3.4e-10 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)
AclWI GGATC 1 cut(s) 205
AcoI YGGCCR 2 cut(s) 43, 264
AcuI CTGAAG 1 cut(s) 103
AfiI CCNNNNNNNGG 1 cut(s) 157
AgsI TTSAA 1 cut(s) 100
AluBI AGCT 9 cut(s) 41, 50, 58, 110, 156, 232, 247, 299, 336
AluI AGCT 9 cut(s) 41, 50, 58, 110, 156, 232, 247, 299, 336
Alw21I GWGCWC 3 cut(s) 112, 234, 249
AlwI GGATC 1 cut(s) 205
Ama87I CYCGRG 2 cut(s) 151, 215
AoxI GGCC 2 cut(s) 43, 264
AspS9I GGNCC 2 cut(s) 160, 317
AsuHPI GGTGA 1 cut(s) 250
AvaI CYCGRG 2 cut(s) 151, 215
AvaII GGWCC 2 cut(s) 160, 317
BalI TGGCCA 2 cut(s) 45, 266
BanII GRGCYC 3 cut(s) 112, 234, 249
BbsI GAAGAC 1 cut(s) 265
Bbv12I GWGCWC 3 cut(s) 112, 234, 249
BcgI CGANNNNNNTGC 2 cut(s) 206, 240
BfaI CTAG 2 cut(s) 38, 333
BlpI GCTNAGC 1 cut(s) 228
Bme18I GGWCC 2 cut(s) 160, 317
BmeT110I CYCGRG 2 cut(s) 151, 215
BmgT120I GGNCC 2 cut(s) 160, 317
BmiI GGNNCC 2 cut(s) 64, 318
BpiI GAAGAC 1 cut(s) 265
BpmI CTGGAG 1 cut(s) 126
Bpu1102I GCTNAGC 1 cut(s) 228
BpuEI CTTGAG 2 cut(s) 218, 233
BsaJI CCNNGG 1 cut(s) 216
Bsc4I CCNNNNNNNGG 1 cut(s) 157
Bse1I ACTGG 1 cut(s) 267
BseDI CCNNGG 1 cut(s) 216
BseLI CCNNNNNNNGG 1 cut(s) 157
BseMII CTCAG 1 cut(s) 219
BseNI ACTGG 1 cut(s) 267
BseRI GAGGAG 3 cut(s) 16, 58, 74
BshFI GGCC 2 cut(s) 45, 266
BsiHKAI GWGCWC 3 cut(s) 112, 234, 249
BsiHKCI CYCGRG 2 cut(s) 151, 215
BslFI GGGAC 1 cut(s) 330
BslI CCNNNNNNNGG 1 cut(s) 157
BsmFI GGGAC 1 cut(s) 330
BsmI GAATGC 1 cut(s) 174
BsnI GGCC 2 cut(s) 45, 266
BsoBI CYCGRG 2 cut(s) 151, 215
Bsp1286I GDGCHC 3 cut(s) 112, 234, 249
Bsp143I GATC 1 cut(s) 210
Bsp1720I GCTNAGC 1 cut(s) 228
BspANI GGCC 2 cut(s) 45, 266
BspCNI CTCAG 1 cut(s) 220
BspLI GGNNCC 2 cut(s) 64, 318
BspPI GGATC 1 cut(s) 205
BsrI ACTGG 1 cut(s) 267
BssECI CCNNGG 1 cut(s) 216
BssMI GATC 1 cut(s) 210
BstC8I GCNNGC 3 cut(s) 43, 203, 297
BstDEI CTNAG 1 cut(s) 228
BstKTI GATC 1 cut(s) 213
BstMBI GATC 1 cut(s) 210
BstMWI GCNNNNNNNGC 2 cut(s) 47, 188
BstV2I GAAGAC 1 cut(s) 265
BsuRI GGCC 2 cut(s) 45, 266
BtsIMutI CAGTG 1 cut(s) 127
Cac8I GCNNGC 3 cut(s) 43, 203, 297
Cfr13I GGNCC 2 cut(s) 160, 317
CviAII CATG 2 cut(s) 164, 268
DdeI CTNAG 1 cut(s) 228
DpnI GATC 1 cut(s) 212
DpnII GATC 1 cut(s) 210
EaeI YGGCCR 2 cut(s) 43, 264
Ecl136II GAGCTC 3 cut(s) 110, 232, 247
Eco24I GRGCYC 3 cut(s) 112, 234, 249
Eco47I GGWCC 2 cut(s) 160, 317
Eco53kI GAGCTC 3 cut(s) 110, 232, 247
Eco57I CTGAAG 1 cut(s) 103
Eco88I CYCGRG 2 cut(s) 151, 215
EcoICRI GAGCTC 3 cut(s) 110, 232, 247
EcoT38I GRGCYC 3 cut(s) 112, 234, 249
FaeI CATG 2 cut(s) 167, 271
FaiI YATR 2 cut(s) 165, 269
FaqI GGGAC 1 cut(s) 330
FatI CATG 2 cut(s) 163, 267
FriOI GRGCYC 3 cut(s) 112, 234, 249
FspBI CTAG 2 cut(s) 38, 333
GsuI CTGGAG 1 cut(s) 126
HaeIII GGCC 2 cut(s) 45, 266
Hin1II CATG 2 cut(s) 167, 271
HphI GGTGA 1 cut(s) 250
Hpy188III TCNNGA 2 cut(s) 250, 274
HpyAV CCTTC 2 cut(s) 42, 235
HpyCH4V TGCA 2 cut(s) 205, 295
HpyF10VI GCNNNNNNNGC 2 cut(s) 47, 188
HpyF3I CTNAG 1 cut(s) 228
Hsp92II CATG 2 cut(s) 167, 271
Kzo9I GATC 1 cut(s) 210
LmnI GCTCC 2 cut(s) 107, 244
LpnPI CCDG 6 cut(s) 27, 90, 164, 182, 248, 294
MaeI CTAG 2 cut(s) 38, 333
MaeIII GTNAC 1 cut(s) 304
MalI GATC 1 cut(s) 212
MboI GATC 1 cut(s) 210
MboII GAAGA 2 cut(s) 109, 270
MhlI GDGCHC 3 cut(s) 112, 234, 249
MlsI TGGCCA 2 cut(s) 45, 266
MluCI AATT 1 cut(s) 183
MluNI TGGCCA 2 cut(s) 45, 266
MnlI CCTC 8 cut(s) 19, 37, 76, 79, 92, 95, 118, 211
Mox20I TGGCCA 2 cut(s) 45, 266
MscI TGGCCA 2 cut(s) 45, 266
Msp20I TGGCCA 2 cut(s) 45, 266
Mva1269I GAATGC 1 cut(s) 174
MwoI GCNNNNNNNGC 2 cut(s) 47, 188
NdeII GATC 1 cut(s) 210
NlaIII CATG 2 cut(s) 167, 271
NlaIV GGNNCC 2 cut(s) 64, 318
PctI GAATGC 1 cut(s) 174
Psp124BI GAGCTC 3 cut(s) 112, 234, 249
PspN4I GGNNCC 2 cut(s) 64, 318
PspPI GGNCC 2 cut(s) 160, 317
SacI GAGCTC 3 cut(s) 112, 234, 249
Sau3AI GATC 1 cut(s) 210
Sau96I GGNCC 2 cut(s) 160, 317
SduI GDGCHC 3 cut(s) 112, 234, 249
SinI GGWCC 2 cut(s) 160, 317
SmlI CTYRAG 2 cut(s) 233, 248
SmoI CTYRAG 2 cut(s) 233, 248
Sse9I AATT 1 cut(s) 183
SspMI CTAG 2 cut(s) 38, 333
SstI GAGCTC 3 cut(s) 112, 234, 249
TaqI TCGA 1 cut(s) 275
TaqII GACCGA 1 cut(s) 334
TasI AATT 1 cut(s) 183
TscAI CASTG 1 cut(s) 127
TspRI CASTG 1 cut(s) 127
VpaK11BI GGWCC 2 cut(s) 160, 317
XspI CTAG 2 cut(s) 38, 333
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.