Rh2DG434900

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
Reverse (-)
62900296 .. 62901101
806 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh2DG434900.1

Sequence Viewer

Length: 438 bp
ATGGCTTCTTCAACAATGACCCTCTCCTCCCCTTCTTTAGCTGGCCAAGCTGTGAAGCTCAATCCCTCTTCATCTAACCTCATTGGTGAAGGCCGAGTCACAATGCGCATAACCACATCCAAGTCCAAGACTGTCTCATCTGGTGTAGTGGAAGGCTACAGAATTGTCGGTGGACCTCTCGGTGAGGTGAGAGACCTACTATATCCAGGTGGGTGTTTTGATCCATTAGGTCTTACTGAAGATCTAGAAGCTTTTGTTGAGCTTAAGGTGAAGGAGCTCAAGAATGGAAGATTAGCTATGTTTTCCATGTTCGGATTCTTTGTCCAAGCTATCATTGCTGGGAAGGGACCAATAGAAAATTTAGCCGACCACTTAGCTGATCCTGTTAAAAACAATGCTTGGTCATATGCCACCACCAACTTTGTTCCTGGAAAGTGA
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

145

Amino Acids

15.38

Weight (kDa)

7.83

Isoelectric Point (pI)

22.05

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 43 - 111 4e-16 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)
Acc16I TGCGCA 1 cut(s) 107
AclWI GGATC 2 cut(s) 215, 374
AcoI YGGCCR 1 cut(s) 43
AcsI RAATTY 1 cut(s) 358
AcuI CTGAAG 1 cut(s) 258
AflII CTTAAG 1 cut(s) 263
AgsI TTSAA 1 cut(s) 12
AjnI CCWGG 2 cut(s) 205, 427
AluBI AGCT 9 cut(s) 41, 50, 58, 251, 262, 277, 296, 329, 377
AluI AGCT 9 cut(s) 41, 50, 58, 251, 262, 277, 296, 329, 377
Alw21I GWGCWC 1 cut(s) 279
Alw26I GTCTC 2 cut(s) 139, 186
AlwI GGATC 2 cut(s) 215, 374
AoxI GGCC 2 cut(s) 43, 91
ApoI RAATTY 1 cut(s) 358
AspLEI GCGC 1 cut(s) 108
AspS9I GGNCC 2 cut(s) 173, 347
AsuHPI GGTGA 4 cut(s) 98, 194, 199, 280
AvaII GGWCC 2 cut(s) 173, 347
BalI TGGCCA 1 cut(s) 45
BanII GRGCYC 1 cut(s) 279
Bbv12I GWGCWC 1 cut(s) 279
BciT130I CCWGG 2 cut(s) 207, 429
BcoDI GTCTC 2 cut(s) 139, 186
BfaI CTAG 1 cut(s) 245
BfmI CTRYAG 1 cut(s) 157
BfrI CTTAAG 1 cut(s) 263
BglII AGATCT 1 cut(s) 241
Bme1390I CCNGG 2 cut(s) 207, 429
Bme18I GGWCC 2 cut(s) 173, 347
BmgT120I GGNCC 2 cut(s) 173, 347
BmiI GGNNCC 1 cut(s) 348
BmrFI CCNGG 2 cut(s) 207, 429
BpuEI CTTGAG 1 cut(s) 263
BsaI GGTCTC 1 cut(s) 186
Bse3DI GCAATG 1 cut(s) 333
BseBI CCWGG 2 cut(s) 207, 429
BseGI GGATG 1 cut(s) 116
BseMI GCAATG 1 cut(s) 333
BseRI GAGGAG 1 cut(s) 16
BseYI CCCAGC 1 cut(s) 338
BshFI GGCC 2 cut(s) 45, 93
BsiHKAI GWGCWC 1 cut(s) 279
BslFI GGGAC 1 cut(s) 360
BsmAI GTCTC 2 cut(s) 139, 186
BsmFI GGGAC 1 cut(s) 360
BsnI GGCC 2 cut(s) 45, 93
Bso31I GGTCTC 1 cut(s) 186
Bsp1286I GDGCHC 1 cut(s) 279
Bsp143I GATC 3 cut(s) 220, 241, 379
BspANI GGCC 2 cut(s) 45, 93
BspLI GGNNCC 1 cut(s) 348
BspPI GGATC 2 cut(s) 215, 374
BspTI CTTAAG 1 cut(s) 263
BspTNI GGTCTC 1 cut(s) 186
BsrDI GCAATG 1 cut(s) 333
BssMI GATC 3 cut(s) 220, 241, 379
Bst2UI CCWGG 2 cut(s) 207, 429
Bst4CI ACNGT 1 cut(s) 133
Bst6I CTCTTC 1 cut(s) 73
BstAFI CTTAAG 1 cut(s) 263
BstC8I GCNNGC 1 cut(s) 43
BstDEI CTNAG 1 cut(s) 373
BstF5I GGATG 1 cut(s) 116
BstHHI GCGC 1 cut(s) 108
BstKTI GATC 3 cut(s) 223, 244, 382
BstMAI GTCTC 2 cut(s) 139, 186
BstMBI GATC 3 cut(s) 220, 241, 379
BstMWI GCNNNNNNNGC 2 cut(s) 47, 335
BstNI CCWGG 2 cut(s) 207, 429
BstSCI CCNGG 2 cut(s) 205, 427
BstSFI CTRYAG 1 cut(s) 157
BstX2I RGATCY 1 cut(s) 241
BstYI RGATCY 1 cut(s) 241
BsuRI GGCC 2 cut(s) 45, 93
BtsCI GGATG 1 cut(s) 116
Cac8I GCNNGC 1 cut(s) 43
CfoI GCGC 1 cut(s) 108
Cfr13I GGNCC 2 cut(s) 173, 347
CspCI CAANNNNNGTGG 2 cut(s) 403, 438
CviAII CATG 1 cut(s) 307
DdeI CTNAG 1 cut(s) 373
DpnI GATC 3 cut(s) 222, 243, 381
DpnII GATC 3 cut(s) 220, 241, 379
EaeI YGGCCR 1 cut(s) 43
Eam1104I CTCTTC 1 cut(s) 73
EarI CTCTTC 1 cut(s) 73
Ecl136II GAGCTC 1 cut(s) 277
Eco24I GRGCYC 1 cut(s) 279
Eco31I GGTCTC 1 cut(s) 186
Eco47I GGWCC 2 cut(s) 173, 347
Eco53kI GAGCTC 1 cut(s) 277
Eco57I CTGAAG 1 cut(s) 258
EcoICRI GAGCTC 1 cut(s) 277
EcoRII CCWGG 2 cut(s) 205, 427
EcoT38I GRGCYC 1 cut(s) 279
FaeI CATG 1 cut(s) 310
FaiI YATR 6 cut(s) 110, 202, 299, 308, 406, 408
FaqI GGGAC 1 cut(s) 360
FatI CATG 1 cut(s) 306
FauNDI CATATG 1 cut(s) 406
FokI GGATG 1 cut(s) 103
FriOI GRGCYC 1 cut(s) 279
FspAI RTGCGCAY 1 cut(s) 107
FspBI CTAG 1 cut(s) 245
FspI TGCGCA 1 cut(s) 107
GlaI GCGC 1 cut(s) 107
GsaI CCCAGC 1 cut(s) 342
HaeIII GGCC 2 cut(s) 45, 93
HhaI GCGC 1 cut(s) 108
Hin1II CATG 1 cut(s) 310
Hin6I GCGC 1 cut(s) 106
HinP1I GCGC 1 cut(s) 106
HindIII AAGCTT 1 cut(s) 249
HinfI GANTC 2 cut(s) 96, 315
HphI GGTGA 4 cut(s) 98, 194, 199, 280
Hpy166II GTNNAC 1 cut(s) 173
Hpy188I TCNGA 1 cut(s) 314
Hpy188III TCNNGA 2 cut(s) 245, 280
Hpy8I GTNNAC 1 cut(s) 173
HpyAV CCTTC 5 cut(s) 42, 83, 146, 265, 337
HpyCH4III ACNGT 1 cut(s) 133
HpyF10VI GCNNNNNNNGC 2 cut(s) 47, 335
HpyF3I CTNAG 1 cut(s) 373
Hsp92II CATG 1 cut(s) 310
HspAI GCGC 1 cut(s) 106
Kzo9I GATC 3 cut(s) 220, 241, 379
LmnI GCTCC 1 cut(s) 274
LpnPI CCDG 7 cut(s) 27, 126, 192, 219, 324, 396, 414
MaeI CTAG 1 cut(s) 245
MaeIII GTNAC 1 cut(s) 97
MalI GATC 3 cut(s) 222, 243, 381
MboI GATC 3 cut(s) 220, 241, 379
MboII GAAGA 3 cut(s) 60, 251, 300
MflI RGATCY 1 cut(s) 241
MhlI GDGCHC 1 cut(s) 279
MlsI TGGCCA 1 cut(s) 45
MluCI AATT 2 cut(s) 162, 358
MluNI TGGCCA 1 cut(s) 45
MlyI GAGTC 1 cut(s) 105
MnlI CCTC 6 cut(s) 32, 37, 76, 89, 178, 186
Mox20I TGGCCA 1 cut(s) 45
MscI TGGCCA 1 cut(s) 45
MseI TTAA 2 cut(s) 264, 387
Msp20I TGGCCA 1 cut(s) 45
MspCI CTTAAG 1 cut(s) 263
MspR9I CCNGG 2 cut(s) 207, 429
MvaI CCWGG 2 cut(s) 207, 429
MwoI GCNNNNNNNGC 2 cut(s) 47, 335
NdeI CATATG 1 cut(s) 406
NdeII GATC 3 cut(s) 220, 241, 379
NlaIII CATG 1 cut(s) 310
NlaIV GGNNCC 1 cut(s) 348
NmeAIII GCCGAG 1 cut(s) 119
NmuCI GTSAC 1 cut(s) 97
NsbI TGCGCA 1 cut(s) 107
PfeI GAWTC 1 cut(s) 315
PfoI TCCNGGA 1 cut(s) 427
PleI GAGTC 1 cut(s) 104
PpsI GAGTC 1 cut(s) 104
Psp124BI GAGCTC 1 cut(s) 279
Psp6I CCWGG 2 cut(s) 205, 427
PspFI CCCAGC 1 cut(s) 338
PspGI CCWGG 2 cut(s) 205, 427
PspN4I GGNNCC 1 cut(s) 348
PspPI GGNCC 2 cut(s) 173, 347
PsuI RGATCY 1 cut(s) 241
SacI GAGCTC 1 cut(s) 279
SaqAI TTAA 2 cut(s) 264, 387
Sau3AI GATC 3 cut(s) 220, 241, 379
Sau96I GGNCC 2 cut(s) 173, 347
SchI GAGTC 1 cut(s) 105
ScrFI CCNGG 2 cut(s) 207, 429
SduI GDGCHC 1 cut(s) 279
SfcI CTRYAG 1 cut(s) 157
SinI GGWCC 2 cut(s) 173, 347
SmlI CTYRAG 2 cut(s) 263, 278
SmoI CTYRAG 2 cut(s) 263, 278
Sse9I AATT 2 cut(s) 162, 358
SspMI CTAG 1 cut(s) 245
SstI GAGCTC 1 cut(s) 279
StyD4I CCNGG 2 cut(s) 205, 427
TaaI ACNGT 1 cut(s) 133
TasI AATT 2 cut(s) 162, 358
TfiI GAWTC 1 cut(s) 315
Tru1I TTAA 2 cut(s) 264, 387
Tru9I TTAA 2 cut(s) 264, 387
TseFI GTSAC 1 cut(s) 97
Tsp45I GTSAC 1 cut(s) 97
TspDTI ATGAA 1 cut(s) 60
Vha464I CTTAAG 1 cut(s) 263
VpaK11BI GGWCC 2 cut(s) 173, 347
XapI RAATTY 1 cut(s) 358
XbaI TCTAGA 1 cut(s) 244
XspI CTAG 1 cut(s) 245
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.