Rh4AG298200

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
Chr4A
OG0013316
Physical Location & Seq
Reverse (-)
61133568 .. 61134134
567 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh4AG298200.1

Sequence Viewer

Length: 465 bp
ATGTTGGGCGCCGCCGGGATCTTCATCCCAGAATTCTTGACAAAGATTGGCATCCTAAACACTCCTTCATGGTACACAGCAGGAGAACAAGAGTACTTCACTGACACTACCACCCTTTTCATTGTTGAGCTGATTTTCATCGGGTGGGCCGAGGGGAGGAGATGGGCTGACATCCTCAAGCCTGGGTCTGTTAACACCGACCCAATCTTCCCCAACAACAAGCTCACCGGGACAGACGTAGGATACCCAGGCGGGCTCTGGTTCGACCCACTTGGATGGGGAAGTGGCTCACCCGAGAAGATCAAGGAGTTGAGGACAAAGGAGATCAAGAATGGGAGATTAGCTATGTTGGCTGTGATGGGTGCTTGGTTTCAACACATCTACACCGGTACCGGCCCCATTGACAACCTCTTTGCTCACCTTGCTGATCCCGGCCACGCCACTGTTTTTGCAGCTTTCAAGTGA

Protein Analysis

154

Amino Acids

16.94

Weight (kDa)

5.54

Isoelectric Point (pI)

21.92

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Chloroa_b-bind PF00504 1 - 126 1.9e-30 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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Orthologous Genes (Group: OG0013316)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G61470
fragaria_vesca FvH4_4g23750 FvH4_4g23750
malus_domestica MD13G1119100.v1.1 MD16G1119500.v1.1
prunus_persica Prupe.1G225700_v2.0.a1
pyrus_communis pycom13g10390 pycom16g10220
rosa_chinensis RchiOBHm_Chr4g0430241
rosa_laevigata RLG00000006992
rosa_multiflora Rmu_sc0001089.1_g000008
rosa_roxburghii Rroxscaffold_5G00372030
rosa_rugosa Rorug04G0241800
rosa_samantha Rh4AG298200 Rh4BG304800 Rh4CG320100 Rh4DG302100
rosa_wichuraiana Rw4G025870

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 389
AccB1I GGYRCC 2 cut(s) 8, 389
AciI CCGC 2 cut(s) 12, 252
AclWI GGATC 2 cut(s) 26, 422
AcoI YGGCCR 1 cut(s) 433
AcsI RAATTY 1 cut(s) 32
AcyI GRCGYC 1 cut(s) 9
AfaI GTAC 3 cut(s) 74, 95, 391
AfiI CCNNNNNNNGG 1 cut(s) 156
AgeI ACCGGT 1 cut(s) 386
AgsI TTSAA 2 cut(s) 374, 460
AjnI CCWGG 2 cut(s) 181, 247
AluBI AGCT 4 cut(s) 130, 223, 344, 455
AluI AGCT 4 cut(s) 130, 223, 344, 455
AlwI GGATC 2 cut(s) 26, 422
Ama87I CYCGRG 1 cut(s) 293
AoxI GGCC 3 cut(s) 147, 394, 433
ApeKI GCWGC 1 cut(s) 452
ApoI RAATTY 1 cut(s) 32
ArsI GACNNNNNNTTYG 2 cut(s) 395, 427
AsiGI ACCGGT 1 cut(s) 386
Asp718I GGTACC 1 cut(s) 389
AspLEI GCGC 1 cut(s) 11
AspS9I GGNCC 2 cut(s) 147, 395
AsuC2I CCSGG 3 cut(s) 16, 229, 432
AsuHPI GGTGA 3 cut(s) 217, 282, 410
AvaI CYCGRG 1 cut(s) 293
BaeI ACNNNNGTAYC 2 cut(s) 373, 406
BanI GGYRCC 2 cut(s) 8, 389
BanII GRGCYC 1 cut(s) 258
BccI CCATC 3 cut(s) 156, 270, 352
BciT130I CCWGG 2 cut(s) 183, 249
BciVI GTATCC 1 cut(s) 236
BcnI CCSGG 3 cut(s) 16, 229, 432
BfoI RGCGCY 1 cut(s) 12
BfuI GTATCC 1 cut(s) 236
BisI GCNGC 2 cut(s) 12, 453
BlsI GCNGC 2 cut(s) 13, 454
BmcAI AGTACT 1 cut(s) 95
Bme1390I CCNGG 5 cut(s) 16, 183, 229, 249, 432
BmeT110I CYCGRG 1 cut(s) 293
BmgT120I GGNCC 2 cut(s) 147, 395
BmiI GGNNCC 3 cut(s) 10, 391, 397
BmrFI CCNGG 5 cut(s) 16, 183, 229, 249, 432
BmsI GCATC 1 cut(s) 60
BpuEI CTTGAG 1 cut(s) 161
BpuMI CCSGG 3 cut(s) 16, 229, 432
BsaBI GATNNNNATC 3 cut(s) 23, 50, 137
BsaHI GRCGYC 1 cut(s) 9
BsaJI CCNNGG 3 cut(s) 150, 182, 247
BsaWI WCCGGW 1 cut(s) 386
Bsc4I CCNNNNNNNGG 1 cut(s) 156
Bse118I RCCGGY 2 cut(s) 386, 392
Bse8I GATNNNNATC 3 cut(s) 23, 50, 137
BseBI CCWGG 2 cut(s) 183, 249
BseDI CCNNGG 3 cut(s) 150, 182, 247
BseGI GGATG 4 cut(s) 24, 51, 171, 281
BseJI GATNNNNATC 3 cut(s) 23, 50, 137
BseLI CCNNNNNNNGG 1 cut(s) 156
BseRI GAGGAG 1 cut(s) 172
BshFI GGCC 3 cut(s) 149, 396, 435
BshNI GGYRCC 2 cut(s) 8, 389
BshTI ACCGGT 1 cut(s) 386
BsiHKCI CYCGRG 1 cut(s) 293
BsiSI CCGG 5 cut(s) 15, 228, 387, 393, 432
BslFI GGGAC 1 cut(s) 244
BslI CCNNNNNNNGG 1 cut(s) 156
BsmFI GGGAC 1 cut(s) 244
BsnI GGCC 3 cut(s) 149, 396, 435
BsoBI CYCGRG 1 cut(s) 293
Bsp1286I GDGCHC 1 cut(s) 258
Bsp143I GATC 4 cut(s) 18, 300, 324, 427
BspACI CCGC 2 cut(s) 12, 252
BspANI GGCC 3 cut(s) 149, 396, 435
BspLI GGNNCC 3 cut(s) 10, 391, 397
BspPI GGATC 2 cut(s) 26, 422
BspT107I GGYRCC 2 cut(s) 8, 389
BsrFI RCCGGY 2 cut(s) 386, 392
BssAI RCCGGY 2 cut(s) 386, 392
BssECI CCNNGG 3 cut(s) 150, 182, 247
BssMI GATC 4 cut(s) 18, 300, 324, 427
BssNI GRCGYC 1 cut(s) 9
Bst2UI CCWGG 2 cut(s) 183, 249
Bst4CI ACNGT 1 cut(s) 445
BstACI GRCGYC 1 cut(s) 9
BstC8I GCNNGC 1 cut(s) 254
BstF5I GGATG 4 cut(s) 24, 51, 171, 281
BstH2I RGCGCY 1 cut(s) 12
BstHHI GCGC 1 cut(s) 11
BstKTI GATC 4 cut(s) 21, 303, 327, 430
BstMBI GATC 4 cut(s) 18, 300, 324, 427
BstMWI GCNNNNNNNGC 2 cut(s) 350, 422
BstNI CCWGG 2 cut(s) 183, 249
BstSCI CCNGG 5 cut(s) 14, 181, 227, 247, 430
BstX2I RGATCY 1 cut(s) 18
BstXI CCANNNNNNTGG 1 cut(s) 276
BstYI RGATCY 1 cut(s) 18
BsuI GTATCC 1 cut(s) 236
BsuRI GGCC 3 cut(s) 149, 396, 435
BtsCI GGATG 4 cut(s) 24, 51, 171, 281
BtsIMutI CAGTG 2 cut(s) 99, 441
Cac8I GCNNGC 1 cut(s) 254
CfoI GCGC 1 cut(s) 11
Cfr10I RCCGGY 2 cut(s) 386, 392
Cfr13I GGNCC 2 cut(s) 147, 395
Csp6I GTAC 3 cut(s) 73, 94, 390
CspAI ACCGGT 1 cut(s) 386
CspCI CAANNNNNGTGG 2 cut(s) 430, 465
CviAII CATG 1 cut(s) 69
CviQI GTAC 3 cut(s) 73, 94, 390
DinI GGCGCC 1 cut(s) 10
DpnI GATC 4 cut(s) 20, 302, 326, 429
DpnII GATC 4 cut(s) 18, 300, 324, 427
EaeI YGGCCR 1 cut(s) 433
Eco24I GRGCYC 1 cut(s) 258
Eco88I CYCGRG 1 cut(s) 293
EcoRI GAATTC 1 cut(s) 32
EcoRII CCWGG 2 cut(s) 181, 247
EcoT38I GRGCYC 1 cut(s) 258
EgeI GGCGCC 1 cut(s) 10
EheI GGCGCC 1 cut(s) 10
FaeI CATG 1 cut(s) 72
FaiI YATR 2 cut(s) 70, 347
FaqI GGGAC 1 cut(s) 244
FatI CATG 1 cut(s) 68
FauI CCCGC 1 cut(s) 245
Fnu4HI GCNGC 2 cut(s) 12, 453
FokI GGATG 4 cut(s) 11, 38, 158, 288
FriOI GRGCYC 1 cut(s) 258
Fsp4HI GCNGC 2 cut(s) 12, 453
GlaI GCGC 1 cut(s) 10
GluI GCNGC 2 cut(s) 12, 453
HaeII RGCGCY 1 cut(s) 12
HaeIII GGCC 3 cut(s) 149, 396, 435
HapII CCGG 5 cut(s) 15, 228, 387, 393, 432
HhaI GCGC 1 cut(s) 11
Hin1I GRCGYC 1 cut(s) 9
Hin1II CATG 1 cut(s) 72
Hin6I GCGC 1 cut(s) 9
HinP1I GCGC 1 cut(s) 9
HincII GTYRAC 1 cut(s) 193
HindII GTYRAC 1 cut(s) 193
HpaI GTTAAC 1 cut(s) 193
HpaII CCGG 5 cut(s) 15, 228, 387, 393, 432
HphI GGTGA 3 cut(s) 217, 282, 410
Hpy166II GTNNAC 2 cut(s) 75, 193
Hpy188III TCNNGA 2 cut(s) 37, 328
Hpy8I GTNNAC 2 cut(s) 75, 193
HpyAV CCTTC 1 cut(s) 75
HpyCH4III ACNGT 1 cut(s) 445
HpyCH4IV ACGT 1 cut(s) 237
HpyCH4V TGCA 1 cut(s) 452
HpyF10VI GCNNNNNNNGC 2 cut(s) 350, 422
HpySE526I ACGT 1 cut(s) 237
Hsp92I GRCGYC 1 cut(s) 9
Hsp92II CATG 1 cut(s) 72
HspAI GCGC 1 cut(s) 9
KasI GGCGCC 1 cut(s) 8
KpnI GGTACC 1 cut(s) 393
KspAI GTTAAC 1 cut(s) 193
Kzo9I GATC 4 cut(s) 18, 300, 324, 427
LweI GCATC 1 cut(s) 60
MaeII ACGT 1 cut(s) 237
MalI GATC 4 cut(s) 20, 302, 326, 429
MboI GATC 4 cut(s) 18, 300, 324, 427
MboII GAAGA 3 cut(s) 13, 199, 310
MflI RGATCY 1 cut(s) 18
MhlI GDGCHC 1 cut(s) 258
MluCI AATT 1 cut(s) 32
Mly113I GGCGCC 1 cut(s) 9
MnlI CCTC 5 cut(s) 145, 150, 185, 306, 419
MseI TTAA 1 cut(s) 192
MslI CAYNNNNRTG 1 cut(s) 274
MspI CCGG 5 cut(s) 15, 228, 387, 393, 432
MspR9I CCNGG 5 cut(s) 16, 183, 229, 249, 432
MvaI CCWGG 2 cut(s) 183, 249
MwoI GCNNNNNNNGC 2 cut(s) 350, 422
NarI GGCGCC 1 cut(s) 9
NciI CCSGG 3 cut(s) 16, 229, 432
NdeII GATC 4 cut(s) 18, 300, 324, 427
NlaIII CATG 1 cut(s) 72
NlaIV GGNNCC 3 cut(s) 10, 391, 397
NmeAIII GCCGAG 1 cut(s) 175
PcsI WCGNNNNNNNCGW 1 cut(s) 147
PinAI ACCGGT 1 cut(s) 386
PkrI GCNGC 2 cut(s) 13, 454
PluTI GGCGCC 1 cut(s) 12
Psp6I CCWGG 2 cut(s) 181, 247
PspGI CCWGG 2 cut(s) 181, 247
PspN4I GGNNCC 3 cut(s) 10, 391, 397
PspPI GGNCC 2 cut(s) 147, 395
PsuI RGATCY 1 cut(s) 18
RsaI GTAC 3 cut(s) 74, 95, 391
RsaNI GTAC 3 cut(s) 73, 94, 390
RseI CAYNNNNRTG 1 cut(s) 274
SaqAI TTAA 1 cut(s) 192
SatI GCNGC 2 cut(s) 12, 453
Sau3AI GATC 4 cut(s) 18, 300, 324, 427
Sau96I GGNCC 2 cut(s) 147, 395
ScaI AGTACT 1 cut(s) 95
ScrFI CCNGG 5 cut(s) 16, 183, 229, 249, 432
SduI GDGCHC 1 cut(s) 258
SetI ASST 7 cut(s) 132, 225, 240, 346, 411, 423, 457
SfaNI GCATC 1 cut(s) 60
SfoI GGCGCC 1 cut(s) 10
SmiMI CAYNNNNRTG 1 cut(s) 274
SmlI CTYRAG 1 cut(s) 176
SmoI CTYRAG 1 cut(s) 176
Sse9I AATT 1 cut(s) 32
SsiI CCGC 2 cut(s) 12, 252
SspDI GGCGCC 1 cut(s) 8
StyD4I CCNGG 5 cut(s) 14, 181, 227, 247, 430
TaaI ACNGT 1 cut(s) 445
TaiI ACGT 1 cut(s) 240
TaqI TCGA 1 cut(s) 264
TasI AATT 1 cut(s) 32
TatI WGTACW 1 cut(s) 93
TauI GCSGC 1 cut(s) 14
Tru1I TTAA 1 cut(s) 192
Tru9I TTAA 1 cut(s) 192
TscAI CASTG 2 cut(s) 106, 448
TseI GCWGC 1 cut(s) 452
TspDTI ATGAA 4 cut(s) 13, 57, 109, 127
TspRI CASTG 2 cut(s) 106, 448
XapI RAATTY 1 cut(s) 32
XcmI CCANNNNNNNNNTGG 1 cut(s) 255
ZrmI AGTACT 1 cut(s) 95
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.