Rorug06G0442500

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_rugosa
GWHBQTZ00000006
OG0014422
Physical Location & Seq
Reverse (-)
57444230 .. 57446053
1824 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug06G0442500.1

Sequence Viewer

Length: 396 bp
ATGAGCAGAAGCTTGGGAATTCCGGTGAAGCTTCTTCACGAGGCGTCAGGGCACATCGTGACGGTGGAGCTCAAAAGTGGCGAGCTTTACAGAGGAAGCATGGTCGAGTGTGAGGACAACTGGAACTGTCAGCTTGAGAGCATCACCTACACCGCCAAGGATGGGAAGGTTTCACAACTTGAGCATGTCTTCATTCGAGGGAGCAAAGTGAGGTTTATGGTCATTCCAGACATGCTGAAGAATGCTCCAATGTTTAAACGTCTAGATGCTAGAATCAAGGGTAAGGGTGCTTCACTTGGAGTTGGCCGAGGTAGAGCTGTTGCAATGCGGGCCAAAGCTCAAGCTGCTGGCCGTGGAACAGCTGGTAGAGGAGTTGTGCCACCGGTACGGAGGTAA
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

131

Amino Acids

14.26

Weight (kDa)

10.43

Isoelectric Point (pI)

22.55

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LSM PF01423 10 - 74 3.2e-18 LSM domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready
iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0014422)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G47470
fragaria_vesca FvH4_5g14770
malus_domestica MD06G1195000.v1.1 MD14G1202000.v1.1
prunus_persica Prupe.5G195100_v2.0.a1
pyrus_communis pycom06g17250 pycom14g16730
rosa_chinensis RchiOBHm_Chr7g0181611
rosa_laevigata RLG00000005179
rosa_multiflora Rmu_sc0000988.1_g000017
rosa_roxburghii Rroxscaffold_3G00271850
rosa_rugosa Rorug06G0442500
rosa_samantha Rh7AG044900 Rh7BG043900 Rh7CG045600 Rh7DG044500
rosa_wichuraiana Rw7G003730

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 153, 328
AcoI YGGCCR 2 cut(s) 304, 349
AcsI RAATTY 1 cut(s) 18
AcuI CTGAAG 1 cut(s) 257
AcyI GRCGYC 1 cut(s) 44
AdeI CACNNNGTG 1 cut(s) 58
AfaI GTAC 1 cut(s) 387
AfiI CCNNNNNNNGG 1 cut(s) 162
AgeI ACCGGT 1 cut(s) 382
AluBI AGCT 9 cut(s) 12, 31, 70, 85, 133, 317, 338, 344, 362
AluI AGCT 9 cut(s) 12, 31, 70, 85, 133, 317, 338, 344, 362
Alw21I GWGCWC 1 cut(s) 72
AoxI GGCC 3 cut(s) 304, 330, 349
ApeKI GCWGC 1 cut(s) 344
ApoI RAATTY 1 cut(s) 18
AsiGI ACCGGT 1 cut(s) 382
AspS9I GGNCC 1 cut(s) 330
AsuHPI GGTGA 2 cut(s) 37, 136
BaeGI GKGCMC 1 cut(s) 54
BaeI ACNNNNGTAYC 1 cut(s) 377
BanII GRGCYC 1 cut(s) 72
BarI GAAGNNNNNNTAC 2 cut(s) 274, 306
BauI CACGAG 1 cut(s) 38
BbsI GAAGAC 1 cut(s) 181
Bbv12I GWGCWC 1 cut(s) 72
BbvI GCAGC 1 cut(s) 331
BccI CCATC 1 cut(s) 155
BceAI ACGGC 1 cut(s) 336
BfaI CTAG 2 cut(s) 263, 270
BisI GCNGC 1 cut(s) 345
BlsI GCNGC 1 cut(s) 346
BmgT120I GGNCC 1 cut(s) 330
BmsI GCATC 2 cut(s) 150, 256
BpiI GAAGAC 1 cut(s) 181
BpuEI CTTGAG 3 cut(s) 155, 200, 324
BsaHI GRCGYC 1 cut(s) 44
BsaJI CCNNGG 3 cut(s) 156, 307, 352
BsaWI WCCGGW 2 cut(s) 22, 382
Bsc4I CCNNNNNNNGG 1 cut(s) 162
Bse118I RCCGGY 1 cut(s) 382
Bse1I ACTGG 1 cut(s) 125
Bse3DI GCAATG 1 cut(s) 330
BseDI CCNNGG 3 cut(s) 156, 307, 352
BseGI GGATG 1 cut(s) 166
BseLI CCNNNNNNNGG 1 cut(s) 162
BseMI GCAATG 1 cut(s) 330
BseNI ACTGG 1 cut(s) 125
BseRI GAGGAG 1 cut(s) 384
BseSI GKGCMC 1 cut(s) 54
BseXI GCAGC 1 cut(s) 331
BshFI GGCC 3 cut(s) 306, 332, 351
BshTI ACCGGT 1 cut(s) 382
BsiHKAI GWGCWC 1 cut(s) 72
BsiSI CCGG 2 cut(s) 23, 383
BslI CCNNNNNNNGG 1 cut(s) 162
BsmI GAATGC 1 cut(s) 247
BsnI GGCC 3 cut(s) 306, 332, 351
Bsp1286I GDGCHC 2 cut(s) 54, 72
BspACI CCGC 2 cut(s) 153, 328
BspANI GGCC 3 cut(s) 306, 332, 351
BsrDI GCAATG 1 cut(s) 330
BsrFI RCCGGY 1 cut(s) 382
BsrI ACTGG 1 cut(s) 125
BssAI RCCGGY 1 cut(s) 382
BssECI CCNNGG 3 cut(s) 156, 307, 352
BssNI GRCGYC 1 cut(s) 44
BssSI CACGAG 1 cut(s) 38
BssT1I CCWWGG 1 cut(s) 156
Bst2BI CACGAG 1 cut(s) 38
Bst4CI ACNGT 2 cut(s) 64, 128
BstACI GRCGYC 1 cut(s) 44
BstC8I GCNNGC 3 cut(s) 83, 330, 349
BstDSI CCRYGG 1 cut(s) 352
BstF5I GGATG 1 cut(s) 166
BstMWI GCNNNNNNNGC 2 cut(s) 329, 344
BstNSI RCATGY 2 cut(s) 188, 235
BstSLI GKGCMC 1 cut(s) 54
BstV1I GCAGC 1 cut(s) 331
BstV2I GAAGAC 1 cut(s) 181
BsuRI GGCC 3 cut(s) 306, 332, 351
BtgI CCRYGG 1 cut(s) 352
BtsCI GGATG 1 cut(s) 166
Cac8I GCNNGC 3 cut(s) 83, 330, 349
Cfr10I RCCGGY 1 cut(s) 382
Cfr13I GGNCC 1 cut(s) 330
CseI GACGC 1 cut(s) 33
Csp6I GTAC 1 cut(s) 386
CspAI ACCGGT 1 cut(s) 382
CviAII CATG 3 cut(s) 100, 185, 232
CviQI GTAC 1 cut(s) 386
DraI TTTAAA 1 cut(s) 256
DraIII CACNNNGTG 1 cut(s) 58
EaeI YGGCCR 2 cut(s) 304, 349
Ecl136II GAGCTC 1 cut(s) 70
Eco130I CCWWGG 1 cut(s) 156
Eco24I GRGCYC 1 cut(s) 72
Eco53kI GAGCTC 1 cut(s) 70
Eco57I CTGAAG 1 cut(s) 257
EcoICRI GAGCTC 1 cut(s) 70
EcoRI GAATTC 1 cut(s) 18
EcoT14I CCWWGG 1 cut(s) 156
EcoT38I GRGCYC 1 cut(s) 72
ErhI CCWWGG 1 cut(s) 156
FaeI CATG 3 cut(s) 103, 188, 235
FaiI YATR 4 cut(s) 101, 186, 218, 233
FatI CATG 3 cut(s) 99, 184, 231
FauI CCCGC 1 cut(s) 321
Fnu4HI GCNGC 1 cut(s) 345
FokI GGATG 1 cut(s) 173
FriOI GRGCYC 1 cut(s) 72
Fsp4HI GCNGC 1 cut(s) 345
FspBI CTAG 2 cut(s) 263, 270
GluI GCNGC 1 cut(s) 345
HaeIII GGCC 3 cut(s) 306, 332, 351
HapII CCGG 2 cut(s) 23, 383
HgaI GACGC 1 cut(s) 33
Hin1I GRCGYC 1 cut(s) 44
Hin1II CATG 3 cut(s) 103, 188, 235
HindIII AAGCTT 2 cut(s) 10, 29
HinfI GANTC 1 cut(s) 273
HpaII CCGG 2 cut(s) 23, 383
HphI GGTGA 2 cut(s) 37, 136
Hpy188III TCNNGA 4 cut(s) 38, 58, 227, 263
HpyAV CCTTC 1 cut(s) 160
HpyCH4III ACNGT 2 cut(s) 64, 128
HpyCH4IV ACGT 1 cut(s) 259
HpyCH4V TGCA 1 cut(s) 323
HpyF10VI GCNNNNNNNGC 2 cut(s) 329, 344
HpySE526I ACGT 1 cut(s) 259
Hsp92I GRCGYC 1 cut(s) 44
Hsp92II CATG 3 cut(s) 103, 188, 235
LmnI GCTCC 3 cut(s) 67, 201, 250
LpnPI CCDG 6 cut(s) 33, 36, 106, 240, 333, 348
Lsp1109I GCAGC 1 cut(s) 331
LweI GCATC 2 cut(s) 150, 256
MaeI CTAG 2 cut(s) 263, 270
MaeII ACGT 1 cut(s) 259
MaeIII GTNAC 1 cut(s) 58
MboII GAAGA 3 cut(s) 26, 181, 250
MhlI GDGCHC 2 cut(s) 54, 72
MluCI AATT 1 cut(s) 18
MnlI CCTC 8 cut(s) 34, 86, 106, 191, 204, 302, 362, 384
MseI TTAA 1 cut(s) 255
MspA1I CMGCKG 1 cut(s) 362
MspI CCGG 2 cut(s) 23, 383
MssI GTTTAAAC 1 cut(s) 256
Mva1269I GAATGC 1 cut(s) 247
MwoI GCNNNNNNNGC 2 cut(s) 329, 344
NlaIII CATG 3 cut(s) 103, 188, 235
NmeAIII GCCGAG 1 cut(s) 332
NmuCI GTSAC 1 cut(s) 58
NspI RCATGY 2 cut(s) 188, 235
PctI GAATGC 1 cut(s) 247
PfeI GAWTC 1 cut(s) 273
PinAI ACCGGT 1 cut(s) 382
PkrI GCNGC 1 cut(s) 346
PmeI GTTTAAAC 1 cut(s) 256
Psp124BI GAGCTC 1 cut(s) 72
PspPI GGNCC 1 cut(s) 330
PvuII CAGCTG 1 cut(s) 362
RsaI GTAC 1 cut(s) 387
RsaNI GTAC 1 cut(s) 386
SacI GAGCTC 1 cut(s) 72
SaqAI TTAA 1 cut(s) 255
SatI GCNGC 1 cut(s) 345
Sau96I GGNCC 1 cut(s) 330
SduI GDGCHC 2 cut(s) 54, 72
SfaNI GCATC 2 cut(s) 150, 256
SmlI CTYRAG 3 cut(s) 134, 179, 339
SmoI CTYRAG 3 cut(s) 134, 179, 339
Sse9I AATT 1 cut(s) 18
SsiI CCGC 2 cut(s) 153, 328
SspMI CTAG 2 cut(s) 263, 270
SstI GAGCTC 1 cut(s) 72
StyI CCWWGG 1 cut(s) 156
TaaI ACNGT 2 cut(s) 64, 128
TaiI ACGT 1 cut(s) 262
TaqI TCGA 2 cut(s) 105, 196
TasI AATT 1 cut(s) 18
TfiI GAWTC 1 cut(s) 273
Tru1I TTAA 1 cut(s) 255
Tru9I TTAA 1 cut(s) 255
TseFI GTSAC 1 cut(s) 58
TseI GCWGC 1 cut(s) 344
Tsp45I GTSAC 1 cut(s) 58
TspDTI ATGAA 1 cut(s) 181
XapI RAATTY 1 cut(s) 18
XbaI TCTAGA 1 cut(s) 262
XceI RCATGY 2 cut(s) 188, 235
XspI CTAG 2 cut(s) 263, 270
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.