RchiOBHm_Chr2g0140671

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_chinensis
2
OG0000275
Physical Location & Seq
Forward (+)
58211072 .. 58211753
682 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ51108

Sequence Viewer

Length: 579 bp
ATGGTGAAGGCCGAGTCACAATGCGCAAAACTGCAACCAAGTCAAAGACGGTCTCATCTATCTGGCAACCCGTGGTACGGGCCCGACCGTGTCAAGTACTTGGGTCCATTCTCCGGCGAGGCACCGTCTTACCTCACCGGAGAATTCCCCGGTGACTTTGGTTGGGACACCGCTGGCCTCTCAGCCGATCCGGAGACTTTTGTCAAGAACCGTGAGCTCGAAGTCATCCATTCAAGATGGGCCATGCTCGGTGCCCTACGCTGTGTTTTCCCCGAACTCTTGGCTCGTAGTGGAGACACGGAGTCAAGTTCGGCGAAGCTGTTTGGTTATCTTGATGGAATGATGGGTGCAGTGGAAGGCTACAGAATTGCCGGTGGACCTCTCGGTGAGGTGATAGACCCACTTTATCCGGGTGGGAGTTTCGATCCATTAGGCCTTGCAGAAGACCCAGAGGCTTTTGCCGAGCTTAAGGTGAAGGAGCTCAAGAATGGGAGATTAGCCATGTTTTCAATGTTCGGGTTTTTCGTACAAGCCATTGTTACCGGAAAGGGACCTATAGAGAATTTGGCTTTAGCTTGA
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

192

Amino Acids

20.76

Weight (kDa)

5.0

Isoelectric Point (pI)

32.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 41 - 179 1.7e-41 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) 25
AccB1I GGYRCC 2 cut(s) 121, 251
AccIII TCCGGA 1 cut(s) 190
AciI CCGC 1 cut(s) 171
AclWI GGATC 2 cut(s) 182, 419
AcsI RAATTY 2 cut(s) 143, 562
AfaI GTAC 3 cut(s) 77, 98, 528
AfiI CCNNNNNNNGG 2 cut(s) 77, 113
AflII CTTAAG 1 cut(s) 467
AgsI TTSAA 2 cut(s) 234, 510
AhdI GACNNNNNGTC 1 cut(s) 301
AluBI AGCT 5 cut(s) 217, 319, 466, 481, 575
AluI AGCT 5 cut(s) 217, 319, 466, 481, 575
Alw21I GWGCWC 2 cut(s) 219, 483
Alw26I GTCTC 3 cut(s) 57, 188, 288
AlwI GGATC 2 cut(s) 182, 419
Aor13HI TCCGGA 1 cut(s) 190
AoxI GGCC 5 cut(s) 9, 80, 175, 240, 433
ApaI GGGCCC 1 cut(s) 84
ApoI RAATTY 2 cut(s) 143, 562
AspLEI GCGC 1 cut(s) 26
AspS9I GGNCC 6 cut(s) 80, 81, 104, 240, 377, 551
AsuC2I CCSGG 2 cut(s) 150, 411
AsuHPI GGTGA 6 cut(s) 16, 127, 164, 398, 403, 484
AvaII GGWCC 3 cut(s) 104, 377, 551
BaeGI GKGCMC 2 cut(s) 84, 256
BanI GGYRCC 2 cut(s) 121, 251
BanII GRGCYC 3 cut(s) 84, 219, 483
BbsI GAAGAC 1 cut(s) 450
Bbv12I GWGCWC 2 cut(s) 219, 483
BccI CCATC 3 cut(s) 231, 329, 337
BcnI CCSGG 2 cut(s) 150, 411
BcoDI GTCTC 3 cut(s) 57, 188, 288
BfmI CTRYAG 2 cut(s) 361, 555
BfrI CTTAAG 1 cut(s) 467
BmcAI AGTACT 1 cut(s) 98
Bme1390I CCNGG 2 cut(s) 150, 411
Bme18I GGWCC 3 cut(s) 104, 377, 551
BmeRI GACNNNNNGTC 1 cut(s) 301
BmgT120I GGNCC 6 cut(s) 80, 81, 104, 240, 377, 551
BmiI GGNNCC 5 cut(s) 82, 105, 123, 253, 552
BmrFI CCNGG 2 cut(s) 150, 411
BoxI GACNNNNGTC 1 cut(s) 200
BpiI GAAGAC 1 cut(s) 450
BpuEI CTTGAG 1 cut(s) 467
BpuMI CCSGG 2 cut(s) 150, 411
BsaI GGTCTC 1 cut(s) 57
BsaJI CCNNGG 2 cut(s) 71, 148
BsaWI WCCGGW 3 cut(s) 137, 190, 542
Bsc4I CCNNNNNNNGG 2 cut(s) 77, 113
Bse118I RCCGGY 1 cut(s) 371
BseAI TCCGGA 1 cut(s) 190
BseDI CCNNGG 2 cut(s) 71, 148
BseGI GGATG 1 cut(s) 225
BseLI CCNNNNNNNGG 2 cut(s) 77, 113
BseMII CTCAG 1 cut(s) 195
BseSI GKGCMC 2 cut(s) 84, 256
BsgI GTGCAG 1 cut(s) 369
Bsh1285I CGRYCG 1 cut(s) 88
BshFI GGCC 5 cut(s) 11, 82, 177, 242, 435
BshNI GGYRCC 2 cut(s) 121, 251
BsiEI CGRYCG 1 cut(s) 88
BsiHKAI GWGCWC 2 cut(s) 219, 483
BsiSI CCGG 7 cut(s) 114, 138, 150, 191, 372, 410, 543
BslFI GGGAC 2 cut(s) 179, 564
BslI CCNNNNNNNGG 2 cut(s) 77, 113
BsmAI GTCTC 3 cut(s) 57, 188, 288
BsmFI GGGAC 2 cut(s) 179, 564
BsnI GGCC 5 cut(s) 11, 82, 177, 242, 435
Bso31I GGTCTC 1 cut(s) 57
Bsp120I GGGCCC 1 cut(s) 80
Bsp1286I GDGCHC 4 cut(s) 84, 219, 256, 483
Bsp13I TCCGGA 1 cut(s) 190
Bsp143I GATC 2 cut(s) 187, 424
BspACI CCGC 1 cut(s) 171
BspANI GGCC 5 cut(s) 11, 82, 177, 242, 435
BspCNI CTCAG 1 cut(s) 194
BspEI TCCGGA 1 cut(s) 190
BspLI GGNNCC 5 cut(s) 82, 105, 123, 253, 552
BspPI GGATC 2 cut(s) 182, 419
BspT107I GGYRCC 2 cut(s) 121, 251
BspTI CTTAAG 1 cut(s) 467
BspTNI GGTCTC 1 cut(s) 57
BsrFI RCCGGY 1 cut(s) 371
BssAI RCCGGY 1 cut(s) 371
BssECI CCNNGG 2 cut(s) 71, 148
BssMI GATC 2 cut(s) 187, 424
Bst4CI ACNGT 4 cut(s) 51, 89, 126, 212
BstAFI CTTAAG 1 cut(s) 467
BstC8I GCNNGC 1 cut(s) 175
BstDEI CTNAG 1 cut(s) 181
BstDSI CCRYGG 1 cut(s) 71
BstF5I GGATG 1 cut(s) 225
BstHHI GCGC 1 cut(s) 26
BstKTI GATC 2 cut(s) 190, 427
BstMAI GTCTC 3 cut(s) 57, 188, 288
BstMBI GATC 2 cut(s) 187, 424
BstMCI CGRYCG 1 cut(s) 88
BstPAI GACNNNNGTC 1 cut(s) 200
BstSCI CCNGG 2 cut(s) 148, 409
BstSFI CTRYAG 2 cut(s) 361, 555
BstSLI GKGCMC 2 cut(s) 84, 256
BstV2I GAAGAC 1 cut(s) 450
BsuRI GGCC 5 cut(s) 11, 82, 177, 242, 435
BtgI CCRYGG 1 cut(s) 71
BtsCI GGATG 1 cut(s) 225
BtsI GCAGTG 1 cut(s) 357
BtsIMutI CAGTG 1 cut(s) 357
Cac8I GCNNGC 1 cut(s) 175
CfoI GCGC 1 cut(s) 26
Cfr10I RCCGGY 1 cut(s) 371
Cfr13I GGNCC 6 cut(s) 80, 81, 104, 240, 377, 551
Csp6I GTAC 3 cut(s) 76, 97, 527
CviAII CATG 2 cut(s) 244, 502
CviQI GTAC 3 cut(s) 76, 97, 527
DdeI CTNAG 1 cut(s) 181
DpnI GATC 2 cut(s) 189, 426
DpnII GATC 2 cut(s) 187, 424
DriI GACNNNNNGTC 1 cut(s) 301
Eam1105I GACNNNNNGTC 1 cut(s) 301
Ecl136II GAGCTC 2 cut(s) 217, 481
Eco147I AGGCCT 1 cut(s) 435
Eco24I GRGCYC 3 cut(s) 84, 219, 483
Eco31I GGTCTC 1 cut(s) 57
Eco47I GGWCC 3 cut(s) 104, 377, 551
Eco53kI GAGCTC 2 cut(s) 217, 481
EcoICRI GAGCTC 2 cut(s) 217, 481
EcoO109I RGGNCCY 1 cut(s) 551
EcoRI GAATTC 1 cut(s) 143
EcoT38I GRGCYC 3 cut(s) 84, 219, 483
FaeI CATG 2 cut(s) 247, 505
FaiI YATR 3 cut(s) 245, 503, 557
FaqI GGGAC 2 cut(s) 179, 564
FatI CATG 2 cut(s) 243, 501
FokI GGATG 1 cut(s) 212
FriOI GRGCYC 3 cut(s) 84, 219, 483
FspI TGCGCA 1 cut(s) 25
GlaI GCGC 1 cut(s) 25
HaeIII GGCC 5 cut(s) 11, 82, 177, 242, 435
HapII CCGG 7 cut(s) 114, 138, 150, 191, 372, 410, 543
HhaI GCGC 1 cut(s) 26
Hin1II CATG 2 cut(s) 247, 505
Hin6I GCGC 1 cut(s) 24
HinP1I GCGC 1 cut(s) 24
HinfI GANTC 2 cut(s) 14, 302
HpaII CCGG 7 cut(s) 114, 138, 150, 191, 372, 410, 543
HphI GGTGA 6 cut(s) 16, 127, 164, 398, 403, 484
Hpy166II GTNNAC 1 cut(s) 377
Hpy188III TCNNGA 5 cut(s) 191, 205, 234, 332, 484
Hpy8I GTNNAC 1 cut(s) 377
HpyAV CCTTC 2 cut(s) 350, 469
HpyCH4III ACNGT 4 cut(s) 51, 89, 126, 212
HpyCH4V TGCA 3 cut(s) 34, 350, 440
HpyF3I CTNAG 1 cut(s) 181
Hsp92II CATG 2 cut(s) 247, 505
HspAI GCGC 1 cut(s) 24
Kpn2I TCCGGA 1 cut(s) 190
Kzo9I GATC 2 cut(s) 187, 424
LmnI GCTCC 1 cut(s) 478
MaeIII GTNAC 3 cut(s) 15, 152, 538
MalI GATC 2 cut(s) 189, 426
MboI GATC 2 cut(s) 187, 424
MboII GAAGA 1 cut(s) 455
MhlI GDGCHC 4 cut(s) 84, 219, 256, 483
MluCI AATT 3 cut(s) 143, 366, 562
MlyI GAGTC 2 cut(s) 23, 311
MnlI CCTC 6 cut(s) 112, 143, 188, 382, 390, 445
MroI TCCGGA 1 cut(s) 190
MseI TTAA 1 cut(s) 468
MspA1I CMGCKG 1 cut(s) 173
MspCI CTTAAG 1 cut(s) 467
MspI CCGG 7 cut(s) 114, 138, 150, 191, 372, 410, 543
MspR9I CCNGG 2 cut(s) 150, 411
NciI CCSGG 2 cut(s) 150, 411
NdeII GATC 2 cut(s) 187, 424
NlaIII CATG 2 cut(s) 247, 505
NlaIV GGNNCC 5 cut(s) 82, 105, 123, 253, 552
NmeAIII GCCGAG 2 cut(s) 37, 487
NmuCI GTSAC 2 cut(s) 15, 152
NsbI TGCGCA 1 cut(s) 25
PceI AGGCCT 1 cut(s) 435
PcsI WCGNNNNNNNCGW 1 cut(s) 522
PflFI GACNNNGTC 1 cut(s) 89
PleI GAGTC 2 cut(s) 22, 310
PpsI GAGTC 2 cut(s) 22, 310
PpuMI RGGWCCY 1 cut(s) 551
PshAI GACNNNNGTC 1 cut(s) 200
Psp124BI GAGCTC 2 cut(s) 219, 483
Psp5II RGGWCCY 1 cut(s) 551
PspN4I GGNNCC 5 cut(s) 82, 105, 123, 253, 552
PspOMI GGGCCC 1 cut(s) 80
PspPI GGNCC 6 cut(s) 80, 81, 104, 240, 377, 551
PspPPI RGGWCCY 1 cut(s) 551
PsyI GACNNNGTC 1 cut(s) 89
RsaI GTAC 3 cut(s) 77, 98, 528
RsaNI GTAC 3 cut(s) 76, 97, 527
SacI GAGCTC 2 cut(s) 219, 483
SaqAI TTAA 1 cut(s) 468
Sau3AI GATC 2 cut(s) 187, 424
Sau96I GGNCC 6 cut(s) 80, 81, 104, 240, 377, 551
ScaI AGTACT 1 cut(s) 98
SchI GAGTC 2 cut(s) 23, 311
ScrFI CCNGG 2 cut(s) 150, 411
SduI GDGCHC 4 cut(s) 84, 219, 256, 483
SfcI CTRYAG 2 cut(s) 361, 555
SinI GGWCC 3 cut(s) 104, 377, 551
SmlI CTYRAG 2 cut(s) 467, 482
SmoI CTYRAG 2 cut(s) 467, 482
Sse9I AATT 3 cut(s) 143, 366, 562
SseBI AGGCCT 1 cut(s) 435
SsiI CCGC 1 cut(s) 171
SstI GAGCTC 2 cut(s) 219, 483
StuI AGGCCT 1 cut(s) 435
StyD4I CCNGG 2 cut(s) 148, 409
TaaI ACNGT 4 cut(s) 51, 89, 126, 212
TaqI TCGA 2 cut(s) 219, 423
TasI AATT 3 cut(s) 143, 366, 562
TatI WGTACW 1 cut(s) 96
Tru1I TTAA 1 cut(s) 468
Tru9I TTAA 1 cut(s) 468
TscAI CASTG 1 cut(s) 357
TseFI GTSAC 2 cut(s) 15, 152
Tsp45I GTSAC 2 cut(s) 15, 152
TspGWI ACGGA 1 cut(s) 314
TspRI CASTG 1 cut(s) 357
Tth111I GACNNNGTC 1 cut(s) 89
Vha464I CTTAAG 1 cut(s) 467
VpaK11BI GGWCC 3 cut(s) 104, 377, 551
XapI RAATTY 2 cut(s) 143, 562
ZrmI AGTACT 1 cut(s) 98
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.