Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr09

Orthogroup ID

OG0003237

Physical Location & Seq

Genomic Coordinates Reverse (-)

11501677 .. 11505065

Gene Structure 3389 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

MD09G1146800.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1194 bp

ATGTCAGGTGTTCTACTCTGGGTGGTGAGCCCCAAAGAGAATGCCAGCTCCCTACTGGGTCTGATGCCCAGAATTTGCACCCCAAGGAGGTCTAAATTCTGCCCAAAGCTGGGATTTTCAAGTAGGGTTTTGGCCTACTCGGGTGCAGTTGTAAACCCAGCAAGATCTTCAGAAGAGAAGGTGTATGAAGTGGTGCTGAAGCAGGCTGCGCTGGTGAAAGAACAGAGCACGGTAAAAAGGAAATCTCTGAATTTGGATGAACGGATTGTAACTGAAGGTTTGGACAACTGGGATTTACTGGATAAGGCTTATGATCGGTGTGGTGAAGTCTGTGCTGAGTATGCCAAAACTTTTTACCTGGGCACATTGCTCATGACACCGGAGCGGCGACGAGCTGTTTGGGCAATCTATGTGTGGTGCAGAAGGACAGATGAGCTAGTGGATGGACCTAATGCTTCATACATTACGCCCAAAGCTCTTGACAGATGGGAGAAAAGACTGACTGATCTCTTTGAAGGCCGACCTTACGATATGTATGATGCTGCTCTATCTGATACTGTCACCAAGTACCCTGTTGACATTCAGCCCTTCAGAGACATGGTAGAAGGAATGAGATTAGACTTGAGGAAGTCAAGATACCAGAACTTTGATGAACTTTACCTTTACTGCTACTATGTTGCTGGAACTGTTGGATTGATGAGTGTTCCGGTAATGGGGATATGCCCAGAATCAAGCGCCTCAACAGAAAGCGTTTACAATGCTGCATTGGCCCTTGGAATTGCTAATCAGCTCACTAACATTCTGAGAGATGTTGGAGAAGATGCTAGGAGAGGAAGAGTATATCTCCCCCAAGATGAGCTTGCCCAAGCCGGCCTATCAGACGATGACATCTTTCGCGGGAAGGTGACTGACAAGTGGCAAAGTTTCATGAAGGGACAAATAAAGAGAGCTAGGATGTTCTTTGATGAGGCTGAGAAGGGTGTCTCAGAGCTCAACTCAGCCAGTAGATGGCCAGTATGGGCATCTTTGTTGCTGTATAGGCAGATTCTAGATGCAATTGAAGCAAATGGTTATGACAATTTCACAAAAAGGGCTTATGTGGGAAAAGCAAAGAAGTTTGTATCATTGCCTGTGGCCTATGGAAGAGCCATTATAGGACCCTCTAAATTAACTAAGCAGTTGGTGCTTAGATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009507 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464

KEGG Pathways

Metabolic & Signaling

ko00906 ko01062 ko01100 ko01110 map00906 map01062 map01100 map01110

Pfam Domains

Protein Families

SQS_PSY

Protein Analysis

398

Amino Acids

44.99

Weight (kDa)

8.94

Isoelectric Point (pI)

49.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SQS_PSY	PF00494	113 - 369	2.9e-76	Squalene/phytoene synthase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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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: OG0003237)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G17230 AT5G17230 AT5G17230 AT5G17230
fragaria_vesca	FvH4_1g27480 FvH4_6g38780
malus_domestica	MD09G1146800.v1.1 MD09G1281300.v1.1 MD17G1133400.v1.1
prunus_persica	Prupe.3G013200_v2.0.a1 Prupe.3G013200_v2.0.a1 Prupe.3G178500_v2.0.a1
pyrus_communis	pycom09g06720 pycom09g18890 pycom17g12790
rosa_chinensis	RchiOBHm_Chr2g0152351 RchiOBHm_Chr3g0488531
rosa_laevigata	RLG00000020629 RLG00000022946
rosa_multiflora	Rmu_sc0005885.1_g000002 Rmu_sc0019526.1_g000003
rosa_roxburghii	Rroxscaffold_2G00095770 Rroxscaffold_6G00394200
rosa_rugosa	Rorug02G0432500 Rorug03G0238700 Rorug03G0238800 Rorug03G0238900 Rorug03G0239000
rosa_samantha	Rh2AG494000 Rh2BG506300 Rh2CG480300 Rh2DG517400 Rh3AG287700 Rh3CG321800 Rh3DG320600
rosa_wichuraiana	Rw2G040650 Rw3G025470

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	1008
AccBSI	CCGCTC	1 cut(s)	385
AccII	CGCG	1 cut(s)	897
AciI	CCGC	2 cut(s)	385, 897
AcoI	YGGCCR	1 cut(s)	1010
AcsI	RAATTY	3 cut(s)	72, 95, 250
AcuI	CTGAAG	4 cut(s)	153, 218, 294, 574
AfaI	GTAC	1 cut(s)	569
AfiI	CCNNNNNNNGG	5 cut(s)	87, 109, 110, 713, 1008
AgsI	TTSAA	3 cut(s)	120, 515, 1061
AjnI	CCWGG	1 cut(s)	357
AluBI	AGCT	9 cut(s)	48, 109, 395, 436, 476, 790, 859, 950, 991
AluI	AGCT	9 cut(s)	48, 109, 395, 436, 476, 790, 859, 950, 991
Alw21I	GWGCWC	2 cut(s)	230, 993
Alw26I	GTCTC	2 cut(s)	588, 988
Ama87I	CYCGRG	1 cut(s)	139
AoxI	GGCC	6 cut(s)	132, 517, 768, 871, 1010, 1134
ApeKI	GCWGC	3 cut(s)	206, 542, 761
ApoI	RAATTY	3 cut(s)	72, 95, 250
ArsI	GACNNNNNNTTYG	2 cut(s)	381, 413
AspLEI	GCGC	2 cut(s)	211, 737
AspS9I	GGNCC	3 cut(s)	446, 769, 1157
AsuHPI	GGTGA	5 cut(s)	37, 226, 335, 553, 916
AvaI	CYCGRG	1 cut(s)	139
AvaII	GGWCC	2 cut(s)	446, 1157
BaeGI	GKGCMC	1 cut(s)	365
BalI	TGGCCA	1 cut(s)	1012
BanII	GRGCYC	2 cut(s)	32, 993
BarI	GAAGNNNNNNTAC	2 cut(s)	620, 652
Bbv12I	GWGCWC	2 cut(s)	230, 993
BbvI	GCAGC	3 cut(s)	193, 529, 748
BccI	CCATC	3 cut(s)	437, 480, 1002
BciT130I	CCWGG	1 cut(s)	359
BcoDI	GTCTC	2 cut(s)	588, 988
BfaI	CTAG	4 cut(s)	437, 825, 951, 1049
BfoI	RGCGCY	1 cut(s)	738
BglII	AGATCT	1 cut(s)	164
BisI	GCNGC	4 cut(s)	207, 386, 543, 762
BlsI	GCNGC	4 cut(s)	208, 387, 544, 763
Bme1390I	CCNGG	1 cut(s)	359
Bme18I	GGWCC	2 cut(s)	446, 1157
BmeT110I	CYCGRG	1 cut(s)	139
BmgT120I	GGNCC	3 cut(s)	446, 769, 1157
BmiI	GGNNCC	1 cut(s)	1159
BmrFI	CCNGG	1 cut(s)	359
BmrI	ACTGGG	2 cut(s)	65, 298
BmsI	GCATC	5 cut(s)	54, 529, 811, 1031, 1042
BmuI	ACTGGG	2 cut(s)	65, 298
BplI	GAGNNNNNCTC	4 cut(s)	828, 860, 980, 1012
BpuEI	CTTGAG	1 cut(s)	643
BsaJI	CCNNGG	3 cut(s)	83, 358, 772
BsaWI	WCCGGW	2 cut(s)	379, 706
Bsc4I	CCNNNNNNNGG	5 cut(s)	87, 109, 110, 713, 1008
Bse118I	RCCGGY	1 cut(s)	869
Bse1I	ACTGG	5 cut(s)	60, 293, 303, 1002, 1013
Bse3DI	GCAATG	2 cut(s)	365, 1124
BseBI	CCWGG	1 cut(s)	359
BseDI	CCNNGG	3 cut(s)	83, 358, 772
BseGI	GGATG	3 cut(s)	262, 448, 960
BseLI	CCNNNNNNNGG	5 cut(s)	87, 109, 110, 713, 1008
BseMI	GCAATG	2 cut(s)	365, 1124
BseMII	CTCAG	5 cut(s)	327, 794, 963, 999, 1011
BseNI	ACTGG	5 cut(s)	60, 293, 303, 1002, 1013
BseSI	GKGCMC	1 cut(s)	365
BseXI	GCAGC	3 cut(s)	193, 529, 748
BseYI	CCCAGC	2 cut(s)	109, 157
BsgI	GTGCAG	2 cut(s)	165, 439
Bsh1236I	CGCG	1 cut(s)	897
BshFI	GGCC	6 cut(s)	134, 519, 770, 873, 1012, 1136
BsiHKAI	GWGCWC	2 cut(s)	230, 993
BsiHKCI	CYCGRG	1 cut(s)	139
BsiSI	CCGG	3 cut(s)	380, 707, 870
BslFI	GGGAC	1 cut(s)	948
BslI	CCNNNNNNNGG	5 cut(s)	87, 109, 110, 713, 1008
BsmAI	GTCTC	2 cut(s)	588, 988
BsmFI	GGGAC	1 cut(s)	948
BsmI	GAATGC	1 cut(s)	46
BsnI	GGCC	6 cut(s)	134, 519, 770, 873, 1012, 1136
BsoBI	CYCGRG	1 cut(s)	139
Bsp1286I	GDGCHC	4 cut(s)	32, 230, 365, 993
Bsp143I	GATC	3 cut(s)	164, 313, 505
BspACI	CCGC	2 cut(s)	385, 897
BspANI	GGCC	6 cut(s)	134, 519, 770, 873, 1012, 1136
BspCNI	CTCAG	5 cut(s)	328, 795, 964, 998, 1010
BspFNI	CGCG	1 cut(s)	897
BspHI	TCATGA	2 cut(s)	372, 927
BspLI	GGNNCC	1 cut(s)	1159
BspQI	GCTCTTC	1 cut(s)	1138
BsrBI	CCGCTC	1 cut(s)	385
BsrDI	GCAATG	2 cut(s)	365, 1124
BsrFI	RCCGGY	1 cut(s)	869
BsrI	ACTGG	5 cut(s)	60, 293, 303, 1002, 1013
BssAI	RCCGGY	1 cut(s)	869
BssECI	CCNNGG	3 cut(s)	83, 358, 772
BssMI	GATC	3 cut(s)	164, 313, 505
BssT1I	CCWWGG	2 cut(s)	83, 772
Bst2UI	CCWGG	1 cut(s)	359
Bst4CI	ACNGT	3 cut(s)	232, 559, 688
Bst6I	CTCTTC	3 cut(s)	168, 829, 1138
BstAPI	GCANNNNNTGC	1 cut(s)	1183
BstC8I	GCNNGC	4 cut(s)	46, 204, 861, 871
BstDEI	CTNAG	7 cut(s)	336, 803, 972, 985, 997, 1173, 1187
BstF5I	GGATG	3 cut(s)	262, 448, 960
BstFNI	CGCG	1 cut(s)	897
BstH2I	RGCGCY	1 cut(s)	738
BstHHI	GCGC	2 cut(s)	211, 737
BstKTI	GATC	3 cut(s)	167, 316, 508
BstMAI	GTCTC	2 cut(s)	588, 988
BstMBI	GATC	3 cut(s)	164, 313, 505
BstMWI	GCNNNNNNNGC	7 cut(s)	208, 341, 401, 767, 1039, 1061, 1183
BstNI	CCWGG	1 cut(s)	359
BstSCI	CCNGG	1 cut(s)	357
BstSLI	GKGCMC	1 cut(s)	365
BstUI	CGCG	1 cut(s)	897
BstV1I	GCAGC	3 cut(s)	193, 529, 748
BstX2I	RGATCY	1 cut(s)	164
BstYI	RGATCY	1 cut(s)	164
BsuRI	GGCC	6 cut(s)	134, 519, 770, 873, 1012, 1136
BtsCI	GGATG	3 cut(s)	262, 448, 960
Cac8I	GCNNGC	4 cut(s)	46, 204, 861, 871
CciI	TCATGA	2 cut(s)	372, 927
CfoI	GCGC	2 cut(s)	211, 737
Cfr10I	RCCGGY	1 cut(s)	869
Cfr13I	GGNCC	3 cut(s)	446, 769, 1157
Csp6I	GTAC	1 cut(s)	568
CviAII	CATG	3 cut(s)	373, 598, 928
CviQI	GTAC	1 cut(s)	568
DdeI	CTNAG	7 cut(s)	336, 803, 972, 985, 997, 1173, 1187
DpnI	GATC	3 cut(s)	166, 315, 507
DpnII	GATC	3 cut(s)	164, 313, 505
EaeI	YGGCCR	1 cut(s)	1010
Eam1104I	CTCTTC	3 cut(s)	168, 829, 1138
EarI	CTCTTC	3 cut(s)	168, 829, 1138
Ecl136II	GAGCTC	1 cut(s)	991
Eco130I	CCWWGG	2 cut(s)	83, 772
Eco24I	GRGCYC	2 cut(s)	32, 993
Eco47I	GGWCC	2 cut(s)	446, 1157
Eco53kI	GAGCTC	1 cut(s)	991
Eco57I	CTGAAG	4 cut(s)	153, 218, 294, 574
Eco88I	CYCGRG	1 cut(s)	139
EcoICRI	GAGCTC	1 cut(s)	991
EcoO109I	RGGNCCY	1 cut(s)	1157
EcoRII	CCWGG	1 cut(s)	357
EcoT14I	CCWWGG	2 cut(s)	83, 772
EcoT38I	GRGCYC	2 cut(s)	32, 993
ErhI	CCWWGG	2 cut(s)	83, 772
FaeI	CATG	3 cut(s)	376, 601, 931
FalI	AAGNNNNNCTT	2 cut(s)	843, 875
FaqI	GGGAC	1 cut(s)	948
FatI	CATG	3 cut(s)	372, 597, 927
FauI	CCCGC	1 cut(s)	890
Fnu4HI	GCNGC	4 cut(s)	207, 386, 543, 762
FokI	GGATG	3 cut(s)	269, 455, 967
FriOI	GRGCYC	2 cut(s)	32, 993
Fsp4HI	GCNGC	4 cut(s)	207, 386, 543, 762
FspBI	CTAG	4 cut(s)	437, 825, 951, 1049
GlaI	GCGC	2 cut(s)	210, 736
GluI	GCNGC	4 cut(s)	207, 386, 543, 762
GsaI	CCCAGC	2 cut(s)	113, 161
HaeII	RGCGCY	1 cut(s)	738
HaeIII	GGCC	6 cut(s)	134, 519, 770, 873, 1012, 1136
HapII	CCGG	3 cut(s)	380, 707, 870
HhaI	GCGC	2 cut(s)	211, 737
Hin1II	CATG	3 cut(s)	376, 601, 931
Hin6I	GCGC	2 cut(s)	209, 735
HinP1I	GCGC	2 cut(s)	209, 735
HincII	GTYRAC	1 cut(s)	577
HindII	GTYRAC	1 cut(s)	577
HinfI	GANTC	2 cut(s)	728, 1045
HpaII	CCGG	3 cut(s)	380, 707, 870
HphI	GGTGA	5 cut(s)	37, 226, 335, 553, 916
Hpy166II	GTNNAC	3 cut(s)	154, 577, 754
Hpy188I	TCNGA	8 cut(s)	63, 172, 249, 553, 593, 804, 880, 988
Hpy188III	TCNNGA	5 cut(s)	373, 479, 633, 928, 1049
Hpy8I	GTNNAC	3 cut(s)	154, 577, 754
Hpy99I	CGWCG	1 cut(s)	393
HpyAV	CCTTC	9 cut(s)	172, 269, 417, 509, 598, 599, 895, 925, 970
HpyCH4III	ACNGT	3 cut(s)	232, 559, 688
HpyCH4V	TGCA	5 cut(s)	78, 146, 420, 764, 1055
HpyF10VI	GCNNNNNNNGC	7 cut(s)	208, 341, 401, 767, 1039, 1061, 1183
HpyF3I	CTNAG	7 cut(s)	336, 803, 972, 985, 997, 1173, 1187
Hsp92II	CATG	3 cut(s)	376, 601, 931
HspAI	GCGC	2 cut(s)	209, 735
KroI	GCCGGC	1 cut(s)	869
KroNI	GCCGGC	1 cut(s)	871
Kzo9I	GATC	3 cut(s)	164, 313, 505
LguI	GCTCTTC	1 cut(s)	1138
LmnI	GCTCC	2 cut(s)	53, 382
Lsp1109I	GCAGC	3 cut(s)	193, 529, 748
LweI	GCATC	5 cut(s)	54, 529, 811, 1031, 1042
MaeI	CTAG	4 cut(s)	437, 825, 951, 1049
MaeIII	GTNAC	3 cut(s)	268, 559, 904
MalI	GATC	3 cut(s)	166, 315, 507
MbiI	CCGCTC	1 cut(s)	385
MboI	GATC	3 cut(s)	164, 313, 505
MboII	GAAGA	5 cut(s)	159, 185, 830, 846, 1155
MfeI	CAATTG	1 cut(s)	1056
MflI	RGATCY	1 cut(s)	164
MhlI	GDGCHC	4 cut(s)	32, 230, 365, 993
MlsI	TGGCCA	1 cut(s)	1012
MluCI	AATT	7 cut(s)	72, 95, 250, 777, 1056, 1078, 1166
MluNI	TGGCCA	1 cut(s)	1012
MmeI	TCCRAC	2 cut(s)	670, 793
MnlI	CCTC	6 cut(s)	81, 618, 748, 824, 961, 1171
Mox20I	TGGCCA	1 cut(s)	1012
MroNI	GCCGGC	1 cut(s)	869
MscI	TGGCCA	1 cut(s)	1012
MseI	TTAA	1 cut(s)	1169
Msp20I	TGGCCA	1 cut(s)	1012
MspI	CCGG	3 cut(s)	380, 707, 870
MspR9I	CCNGG	1 cut(s)	359
MunI	CAATTG	1 cut(s)	1056
Mva1269I	GAATGC	1 cut(s)	46
MvaI	CCWGG	1 cut(s)	359
MvnI	CGCG	1 cut(s)	897
MwoI	GCNNNNNNNGC	7 cut(s)	208, 341, 401, 767, 1039, 1061, 1183
NaeI	GCCGGC	1 cut(s)	871
NdeII	GATC	3 cut(s)	164, 313, 505
NgoMIV	GCCGGC	1 cut(s)	869
NlaIII	CATG	3 cut(s)	376, 601, 931
NlaIV	GGNNCC	1 cut(s)	1159
NmuCI	GTSAC	2 cut(s)	559, 904
PagI	TCATGA	2 cut(s)	372, 927
PciSI	GCTCTTC	1 cut(s)	1138
PctI	GAATGC	1 cut(s)	46
PdiI	GCCGGC	1 cut(s)	871
PfeI	GAWTC	2 cut(s)	728, 1045
PflMI	CCANNNNNTGG	1 cut(s)	1008
PkrI	GCNGC	4 cut(s)	208, 387, 544, 763
PpuMI	RGGWCCY	1 cut(s)	1157
Psp124BI	GAGCTC	1 cut(s)	993
Psp5II	RGGWCCY	1 cut(s)	1157
Psp6I	CCWGG	1 cut(s)	357
PspFI	CCCAGC	2 cut(s)	109, 157
PspGI	CCWGG	1 cut(s)	357
PspN4I	GGNNCC	1 cut(s)	1159
PspPI	GGNCC	3 cut(s)	446, 769, 1157
PspPPI	RGGWCCY	1 cut(s)	1157
PsuI	RGATCY	1 cut(s)	164
RsaI	GTAC	1 cut(s)	569
RsaNI	GTAC	1 cut(s)	568
SacI	GAGCTC	1 cut(s)	993
SapI	GCTCTTC	1 cut(s)	1138
SaqAI	TTAA	1 cut(s)	1169
SatI	GCNGC	4 cut(s)	207, 386, 543, 762
Sau3AI	GATC	3 cut(s)	164, 313, 505
Sau96I	GGNCC	3 cut(s)	446, 769, 1157
ScrFI	CCNGG	1 cut(s)	359
SduI	GDGCHC	4 cut(s)	32, 230, 365, 993
SfaNI	GCATC	5 cut(s)	54, 529, 811, 1031, 1042
SinI	GGWCC	2 cut(s)	446, 1157
SmlI	CTYRAG	1 cut(s)	622
SmoI	CTYRAG	1 cut(s)	622
Sse9I	AATT	7 cut(s)	72, 95, 250, 777, 1056, 1078, 1166
SsiI	CCGC	2 cut(s)	385, 897
SspMI	CTAG	4 cut(s)	437, 825, 951, 1049
SstI	GAGCTC	1 cut(s)	993
StyD4I	CCNGG	1 cut(s)	357
StyI	CCWWGG	2 cut(s)	83, 772
TaaI	ACNGT	3 cut(s)	232, 559, 688
TasI	AATT	7 cut(s)	72, 95, 250, 777, 1056, 1078, 1166
TauI	GCSGC	1 cut(s)	388
TfiI	GAWTC	2 cut(s)	728, 1045
Tru1I	TTAA	1 cut(s)	1169
Tru9I	TTAA	1 cut(s)	1169
TseFI	GTSAC	2 cut(s)	559, 904
TseI	GCWGC	3 cut(s)	206, 542, 761
Tsp45I	GTSAC	2 cut(s)	559, 904
TspDTI	ATGAA	6 cut(s)	201, 273, 447, 666, 916, 944
TspGWI	ACGGA	1 cut(s)	277
Van91I	CCANNNNNTGG	1 cut(s)	1008
VpaK11BI	GGWCC	2 cut(s)	446, 1157
XapI	RAATTY	3 cut(s)	72, 95, 250
XbaI	TCTAGA	1 cut(s)	1048
XcmI	CCANNNNNNNNNTGG	1 cut(s)	52
XspI	CTAG	4 cut(s)	437, 825, 951, 1049

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.