RchiOBHm_Chr5g0067741

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
5
OG0019216
Physical Location & Seq
Reverse (-)
73853540 .. 73854025
486 bp
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UTR
Exon/CDS
Intron
PRQ34342

Sequence Viewer

Length: 486 bp
ATGAAGCCGACTGGAAATGAAGCAAGCGAGTCTTCTCATATTGCACAGAGTACTAAGTTCAAATTCTATTGGCTGGAAATGAGCACTTGTCTATTACACAAAAACACTCACTACAATTTCAGCATCTCTCGAATGGCTTCTTCATCAATGGCTCTCTCCTCCTCTTCTCTAGCTGGCCAAGCTGTGAAGCTCAGTTCCTCCATATCTAATCTCCTCGGTGAGGGCCGAGTCACCATGCGCAAAACCGCAGCCAAGTCCAAAACATCTGGCAGCCCATGGTACGGTGCAGACCGTGTTAAGTATTTGGGCCCATTCTTCGGTGAGGCCCCATCTTCCGTCACCGGAGAGTTTCCTGGGGATTACGGTTGCGACACTGCTGGGCTATCAGCGGATCCCGAGACTTTTGCCAAAAACCGTGAGCTTGAGGTCATCTTGGGCTGTGTTTTCCCCGAACTCCTAGCCCGCTATGGAGTCAAGTTCGGCTAG

Protein Analysis

161

Amino Acids

17.36

Weight (kDa)

8.76

Isoelectric Point (pI)

41.47

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 110 - 144 3.4e-06 Chlorophyll A-B binding protein
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0019216)

Species Orthologous Gene IDs
fragaria_vesca FvH4_3g37620
rosa_chinensis RchiOBHm_Chr5g0067741
rosa_multiflora Rmu_sc0000230.1_g000003
rosa_roxburghii Rroxscaffold_1G00013520 Rroxscaffold_2G00104610
rosa_samantha Rh3CG308600 Rh5AG445100 Rh5DG476400

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc16I TGCGCA 1 cut(s) 239
AciI CCGC 3 cut(s) 246, 389, 463
AclWI GGATC 2 cut(s) 386, 399
AcoI YGGCCR 1 cut(s) 175
AcsI RAATTY 1 cut(s) 62
AfaI GTAC 2 cut(s) 52, 281
AfiI CCNNNNNNNGG 3 cut(s) 220, 281, 317
AgsI TTSAA 1 cut(s) 61
AjnI CCWGG 1 cut(s) 352
AluBI AGCT 4 cut(s) 173, 182, 190, 421
AluI AGCT 4 cut(s) 173, 182, 190, 421
Alw21I GWGCWC 1 cut(s) 86
Alw26I GTCTC 1 cut(s) 392
AlwI GGATC 2 cut(s) 386, 399
Ama87I CYCGRG 1 cut(s) 395
AoxI GGCC 4 cut(s) 175, 223, 307, 324
ApaI GGGCCC 1 cut(s) 311
ApeKI GCWGC 2 cut(s) 248, 270
ApoI RAATTY 1 cut(s) 62
Asp700I GAANNNNTTC 1 cut(s) 136
AspLEI GCGC 1 cut(s) 240
AspS9I GGNCC 4 cut(s) 223, 307, 308, 325
AsuHPI GGTGA 4 cut(s) 223, 230, 331, 332
AvaI CYCGRG 1 cut(s) 395
BaeGI GKGCMC 1 cut(s) 311
BalI TGGCCA 1 cut(s) 177
BamHI GGATCC 1 cut(s) 391
BanII GRGCYC 1 cut(s) 311
BbsI GAAGAC 1 cut(s) 24
Bbv12I GWGCWC 1 cut(s) 86
BbvI GCAGC 2 cut(s) 260, 282
BccI CCATC 1 cut(s) 337
BcgI CGANNNNNNTGC 2 cut(s) 386, 420
BciT130I CCWGG 1 cut(s) 354
BcoDI GTCTC 1 cut(s) 392
BfaI CTAG 3 cut(s) 170, 458, 484
BisI GCNGC 2 cut(s) 249, 271
BlsI GCNGC 2 cut(s) 250, 272
BmcAI AGTACT 1 cut(s) 52
Bme1390I CCNGG 1 cut(s) 354
BmeT110I CYCGRG 1 cut(s) 395
BmgT120I GGNCC 4 cut(s) 223, 307, 308, 325
BmiI GGNNCC 3 cut(s) 309, 327, 393
BmrFI CCNGG 1 cut(s) 354
BmsI GCATC 1 cut(s) 132
BpiI GAAGAC 1 cut(s) 24
BpuEI CTTGAG 1 cut(s) 443
BsaJI CCNNGG 3 cut(s) 214, 275, 353
BsaWI WCCGGW 1 cut(s) 341
Bsc4I CCNNNNNNNGG 3 cut(s) 220, 281, 317
Bse1I ACTGG 1 cut(s) 16
BseBI CCWGG 1 cut(s) 354
BseDI CCNNGG 3 cut(s) 214, 275, 353
BseLI CCNNNNNNNGG 3 cut(s) 220, 281, 317
BseMII CTCAG 1 cut(s) 205
BseNI ACTGG 1 cut(s) 16
BseRI GAGGAG 3 cut(s) 148, 151, 203
BseSI GKGCMC 1 cut(s) 311
BseXI GCAGC 2 cut(s) 260, 282
BseYI CCCAGC 1 cut(s) 377
BsgI GTGCAG 1 cut(s) 306
BshFI GGCC 4 cut(s) 177, 225, 309, 326
BsiHKAI GWGCWC 1 cut(s) 86
BsiHKCI CYCGRG 1 cut(s) 395
BsiSI CCGG 1 cut(s) 342
BslI CCNNNNNNNGG 3 cut(s) 220, 281, 317
BsmAI GTCTC 1 cut(s) 392
BsnI GGCC 4 cut(s) 177, 225, 309, 326
BsoBI CYCGRG 1 cut(s) 395
Bsp120I GGGCCC 1 cut(s) 307
Bsp1286I GDGCHC 2 cut(s) 86, 311
Bsp143I GATC 1 cut(s) 391
Bsp19I CCATGG 1 cut(s) 275
BspACI CCGC 3 cut(s) 246, 389, 463
BspANI GGCC 4 cut(s) 177, 225, 309, 326
BspCNI CTCAG 1 cut(s) 204
BspLI GGNNCC 3 cut(s) 309, 327, 393
BspPI GGATC 2 cut(s) 386, 399
BsrI ACTGG 1 cut(s) 16
BssECI CCNNGG 3 cut(s) 214, 275, 353
BssMI GATC 1 cut(s) 391
BssT1I CCWWGG 1 cut(s) 275
Bst2UI CCWGG 1 cut(s) 354
Bst4CI ACNGT 4 cut(s) 284, 293, 365, 416
Bst6I CTCTTC 1 cut(s) 169
BstC8I GCNNGC 3 cut(s) 25, 175, 463
BstDEI CTNAG 2 cut(s) 54, 191
BstDSI CCRYGG 1 cut(s) 275
BstENI CCTNNNNNAGG 1 cut(s) 218
BstHHI GCGC 1 cut(s) 240
BstKTI GATC 1 cut(s) 394
BstMAI GTCTC 1 cut(s) 392
BstMBI GATC 1 cut(s) 391
BstMWI GCNNNNNNNGC 1 cut(s) 179
BstNI CCWGG 1 cut(s) 354
BstSCI CCNGG 1 cut(s) 352
BstSLI GKGCMC 1 cut(s) 311
BstV1I GCAGC 2 cut(s) 260, 282
BstV2I GAAGAC 1 cut(s) 24
BstX2I RGATCY 1 cut(s) 391
BstYI RGATCY 1 cut(s) 391
BsuRI GGCC 4 cut(s) 177, 225, 309, 326
BtgI CCRYGG 1 cut(s) 275
BtsI GCAGTG 1 cut(s) 372
BtsIMutI CAGTG 1 cut(s) 372
Cac8I GCNNGC 3 cut(s) 25, 175, 463
CfoI GCGC 1 cut(s) 240
Cfr13I GGNCC 4 cut(s) 223, 307, 308, 325
Csp6I GTAC 2 cut(s) 51, 280
CviAII CATG 2 cut(s) 235, 276
CviQI GTAC 2 cut(s) 51, 280
DdeI CTNAG 2 cut(s) 54, 191
DpnI GATC 1 cut(s) 393
DpnII GATC 1 cut(s) 391
EaeI YGGCCR 1 cut(s) 175
Eam1104I CTCTTC 1 cut(s) 169
EarI CTCTTC 1 cut(s) 169
Eco130I CCWWGG 1 cut(s) 275
Eco24I GRGCYC 1 cut(s) 311
Eco88I CYCGRG 1 cut(s) 395
EcoNI CCTNNNNNAGG 1 cut(s) 218
EcoO109I RGGNCCY 1 cut(s) 325
EcoRII CCWGG 1 cut(s) 352
EcoT14I CCWWGG 1 cut(s) 275
EcoT38I GRGCYC 1 cut(s) 311
ErhI CCWWGG 1 cut(s) 275
FaeI CATG 2 cut(s) 238, 279
FaiI YATR 5 cut(s) 39, 203, 236, 277, 468
FalI AAGNNNNNCTT 2 cut(s) 16, 48
FatI CATG 2 cut(s) 234, 275
FauI CCCGC 1 cut(s) 470
Fnu4HI GCNGC 2 cut(s) 249, 271
FriOI GRGCYC 1 cut(s) 311
Fsp4HI GCNGC 2 cut(s) 249, 271
FspBI CTAG 3 cut(s) 170, 458, 484
FspI TGCGCA 1 cut(s) 239
GlaI GCGC 1 cut(s) 239
GluI GCNGC 2 cut(s) 249, 271
GsaI CCCAGC 1 cut(s) 381
HaeIII GGCC 4 cut(s) 177, 225, 309, 326
HapII CCGG 1 cut(s) 342
HhaI GCGC 1 cut(s) 240
Hin1II CATG 2 cut(s) 238, 279
Hin6I GCGC 1 cut(s) 238
HinP1I GCGC 1 cut(s) 238
HinfI GANTC 3 cut(s) 29, 228, 471
HpaII CCGG 1 cut(s) 342
HphI GGTGA 4 cut(s) 223, 230, 331, 332
Hpy188III TCNNGA 2 cut(s) 129, 395
HpyCH4III ACNGT 4 cut(s) 284, 293, 365, 416
HpyCH4V TGCA 2 cut(s) 44, 287
HpyF10VI GCNNNNNNNGC 1 cut(s) 179
HpyF3I CTNAG 2 cut(s) 54, 191
Hsp92II CATG 2 cut(s) 238, 279
HspAI GCGC 1 cut(s) 238
Kzo9I GATC 1 cut(s) 391
LpnPI CCDG 7 cut(s) 59, 159, 252, 339, 355, 363, 366
Lsp1109I GCAGC 2 cut(s) 260, 282
LweI GCATC 1 cut(s) 132
MaeI CTAG 3 cut(s) 170, 458, 484
MaeIII GTNAC 2 cut(s) 229, 337
MalI GATC 1 cut(s) 393
MboI GATC 1 cut(s) 391
MboII GAAGA 5 cut(s) 24, 132, 156, 307, 324
MflI RGATCY 1 cut(s) 391
MhlI GDGCHC 2 cut(s) 86, 311
MlsI TGGCCA 1 cut(s) 177
MluCI AATT 2 cut(s) 62, 115
MluNI TGGCCA 1 cut(s) 177
MlyI GAGTC 3 cut(s) 38, 237, 480
MnlI CCTC 7 cut(s) 169, 172, 208, 214, 224, 316, 418
Mox20I TGGCCA 1 cut(s) 177
MroXI GAANNNNTTC 1 cut(s) 136
MscI TGGCCA 1 cut(s) 177
MseI TTAA 1 cut(s) 297
Msp20I TGGCCA 1 cut(s) 177
MspA1I CMGCKG 1 cut(s) 389
MspI CCGG 1 cut(s) 342
MspR9I CCNGG 1 cut(s) 354
MvaI CCWGG 1 cut(s) 354
MwoI GCNNNNNNNGC 1 cut(s) 179
NcoI CCATGG 1 cut(s) 275
NdeII GATC 1 cut(s) 391
NlaIII CATG 2 cut(s) 238, 279
NlaIV GGNNCC 3 cut(s) 309, 327, 393
NmeAIII GCCGAG 1 cut(s) 251
NmuCI GTSAC 2 cut(s) 229, 337
NsbI TGCGCA 1 cut(s) 239
PdmI GAANNNNTTC 1 cut(s) 136
PkrI GCNGC 2 cut(s) 250, 272
PleI GAGTC 3 cut(s) 37, 236, 479
PpsI GAGTC 3 cut(s) 37, 236, 479
Psp6I CCWGG 1 cut(s) 352
PspFI CCCAGC 1 cut(s) 377
PspGI CCWGG 1 cut(s) 352
PspN4I GGNNCC 3 cut(s) 309, 327, 393
PspOMI GGGCCC 1 cut(s) 307
PspPI GGNCC 4 cut(s) 223, 307, 308, 325
PsuI RGATCY 1 cut(s) 391
RsaI GTAC 2 cut(s) 52, 281
RsaNI GTAC 2 cut(s) 51, 280
SaqAI TTAA 1 cut(s) 297
SatI GCNGC 2 cut(s) 249, 271
Sau3AI GATC 1 cut(s) 391
Sau96I GGNCC 4 cut(s) 223, 307, 308, 325
ScaI AGTACT 1 cut(s) 52
SchI GAGTC 3 cut(s) 38, 237, 480
ScrFI CCNGG 1 cut(s) 354
SduI GDGCHC 2 cut(s) 86, 311
SetI ASST 5 cut(s) 175, 184, 192, 423, 429
SfaNI GCATC 1 cut(s) 132
SmlI CTYRAG 1 cut(s) 422
SmoI CTYRAG 1 cut(s) 422
Sse9I AATT 2 cut(s) 62, 115
SsiI CCGC 3 cut(s) 246, 389, 463
SspMI CTAG 3 cut(s) 170, 458, 484
StyD4I CCNGG 1 cut(s) 352
StyI CCWWGG 1 cut(s) 275
TaaI ACNGT 4 cut(s) 284, 293, 365, 416
TaqI TCGA 1 cut(s) 130
TasI AATT 2 cut(s) 62, 115
TatI WGTACW 1 cut(s) 50
Tru1I TTAA 1 cut(s) 297
Tru9I TTAA 1 cut(s) 297
TscAI CASTG 1 cut(s) 379
TseFI GTSAC 2 cut(s) 229, 337
TseI GCWGC 2 cut(s) 248, 270
Tsp45I GTSAC 2 cut(s) 229, 337
TspDTI ATGAA 3 cut(s) 17, 33, 132
TspGWI ACGGA 1 cut(s) 325
TspRI CASTG 1 cut(s) 379
XagI CCTNNNNNAGG 1 cut(s) 218
XapI RAATTY 1 cut(s) 62
XmnI GAANNNNTTC 1 cut(s) 136
XspI CTAG 3 cut(s) 170, 458, 484
ZrmI AGTACT 1 cut(s) 52
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.