Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000006

Orthogroup ID

OG0005521

Physical Location & Seq

Genomic Coordinates Forward (+)

20414879 .. 20421849

Gene Structure 6971 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug06G0143600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1239 bp

ATGGGTAGTTTGGGGGCTATGCTGAAACACCCAGATGACATTTACCCTCTTTTGAAGCTCAAGATGGCGGCCAGGAACATCGAGAAGCAGATCCCTCCCGAGCCTCATTGGGCTTTCTGCTACACCATGCTTCACAAGGTCTCCAGGAGCTTCGCTCTCGTTATTCAGCAGCTCGATACGGAGCTCCGTAATGCTGTTTGTATTTTTTATCTGGTTCTTCGAGCTCTAGACACTGTTGAGGATGATACAGCCATAGAGACAGACGTCAAACTTCCTATCCTGATAGATTTCCATCGTCACATATATGATGCCAAGTGGCATTTTGCATGTGGTACAAAGGAGTACAAAGTTCTCATGGACGAGTTTCATCATGTTTCAACTGCTTTTCTGGAACTTGGGAAGGGTTATCAGGAGGCAATTGAGGATATTACCAAAAGAATGGGGGCAGGGATGGCAAAGTTTATCTGCAAGGAGGTAGAAACAGTTGATGACTATGATGAGTACTGCCACTATGTGGCAGGACTTGTTGGTTTAGGTTTGTCCAAGCTTTTCCATGCTGCTGAATTGGAGGATTTGGCTACGGATGAACTTTCAAATTCAATGGGTTTATTTCTTCAGAAAACAAACATTATTCGAGATTATCTGGAGGATATTAATGAGATACCCAAGTCACGTATGTTTTGGCCCCGCCAGATCTGGAGTAAATATGTTAACAAACTTGAGGACTTGAAATATGAGGAAAACTCAGACAAGGCAGTGCAATGTCTGAATGACATGGTCACTAATGCTTTGATACATATGGAAGACTGCTTGAAGTATATGTCTGCTTTAAGAGATCCTGCTATATTTAAATTTTGTGCTATCCCTCAGATCATGGCAATTGGCACACTAGCACTATGCTACAACAACATTGAGGTCTTCAGAGGTGTGGTGAAAATGAGGCGTGGTCTTACAGCAAAAGTTATTGACAGAACAAGAACAATGGCTGATGTCTATGCCGCTTTCTATGATTTTTCATCCATTCTAAAGTCCAAGGTTGACAAGAAGGATCCTAATGCTACAAAAACATTGAGCAGGCTGGAATCAGTGCAGAAAACATGCAGGGACTCTGGAGCCCTTATCAACAGGAAATCATATATAGTCAAGAGTGAGCAAAGTTACAATTCAGCTTTGATTATGGTGATGTTTCTCATATTGGCCATCATTTACGCTTATGTCTCTGCCAGCCCAAGATTCTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005048 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005886 GO:0006355 GO:0006605 GO:0006810 GO:0006886 GO:0008104 GO:0008150 GO:0008289 GO:0009507 GO:0009526 GO:0009527 GO:0009536 GO:0009707 GO:0009889 GO:0009941 GO:0010468 GO:0010556 GO:0015031 GO:0015833 GO:0016020 GO:0016021 GO:0019219 GO:0019222 GO:0019867 GO:0030941 GO:0031090 GO:0031224 GO:0031300 GO:0031301 GO:0031323 GO:0031326 GO:0031350 GO:0031351 GO:0031354 GO:0031355 GO:0031358 GO:0031359 GO:0031967 GO:0031968 GO:0031969 GO:0031975 GO:0033036 GO:0033218 GO:0033365 GO:0034613 GO:0042170 GO:0042277 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044425 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0045036 GO:0045184 GO:0046907 GO:0050789 GO:0050794 GO:0051171 GO:0051179 GO:0051234 GO:0051252 GO:0051641 GO:0051649 GO:0051861 GO:0060255 GO:0065007 GO:0070727 GO:0071702 GO:0071705 GO:0071944 GO:0072594 GO:0072596 GO:0072598 GO:0080090 GO:0097367 GO:0098588 GO:0098805 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Ank_2 Ank_3 Ank_4

Protein Analysis

412

Amino Acids

47.24

Weight (kDa)

6.43

Isoelectric Point (pI)

44.8

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
SQS_PSY	PF00494	44 - 315	9.6e-55	Squalene/phytoene synthase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005521)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g17290
malus_domestica	MD10G1146100.v1.1
prunus_persica	Prupe.8G184500_v2.0.a1
pyrus_communis	pycom05g14630
rosa_chinensis	RchiOBHm_Chr4g0427301 RchiOBHm_Chr6g0288011
rosa_laevigata	RLG00000012930 RLG00000022524
rosa_multiflora	Rmu_sc0000951.1_g000010 Rmu_sc0009000.1_g000002 Rmu_ssc0000126.1_g000041
rosa_roxburghii	Rroxscaffold_2G00096360 Rroxscaffold_6G00389110 Rroxscaffold_7G00186780 Rroxscaffold_7G00186790
rosa_rugosa	Rorug06G0143600
rosa_samantha	Rh5CG423800 Rh6AG256600 Rh6AG303600 Rh6BG051200 Rh6BG259300 Rh6BG259600 Rh6CG258700 Rh6CG300100 Rh6CG317200 Rh6DG250600 Rh6DG250800 Rh6DG302200
rosa_wichuraiana	Rw6G026250

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AatII	GACGTC	1 cut(s)	267
AccB7I	CCANNNNNTGG	1 cut(s)	514
AciI	CCGC	3 cut(s)	68, 688, 999
AclWI	GGATC	4 cut(s)	85, 830, 1043, 1056
AcoI	YGGCCR	2 cut(s)	69, 1197
AcsI	RAATTY	2 cut(s)	595, 851
AcuI	CTGAAG	2 cut(s)	599, 904
AcyI	GRCGYC	1 cut(s)	264
AdeI	CACNNNGTG	1 cut(s)	514
AfaI	GTAC	3 cut(s)	334, 344, 503
AfiI	CCNNNNNNNGG	1 cut(s)	514
AgsI	TTSAA	6 cut(s)	55, 378, 594, 600, 730, 814
AjnI	CCWGG	2 cut(s)	71, 143
AluBI	AGCT	7 cut(s)	58, 150, 172, 184, 224, 547, 1169
AluI	AGCT	7 cut(s)	58, 150, 172, 184, 224, 547, 1169
Alw21I	GWGCWC	2 cut(s)	186, 226
Alw26I	GTCTC	3 cut(s)	145, 251, 1222
AlwI	GGATC	4 cut(s)	85, 830, 1043, 1056
Ama87I	CYCGRG	1 cut(s)	98
AoxI	GGCC	3 cut(s)	69, 683, 1197
ApeKI	GCWGC	2 cut(s)	169, 557
ApoI	RAATTY	2 cut(s)	595, 851
AseI	ATTAAT	1 cut(s)	654
AspS9I	GGNCC	1 cut(s)	684
AsuHPI	GGTGA	2 cut(s)	943, 1192
AvaI	CYCGRG	1 cut(s)	98
BaeI	ACNNNNGTAYC	2 cut(s)	653, 686
BalI	TGGCCA	1 cut(s)	1199
BamHI	GGATCC	1 cut(s)	1048
BanII	GRGCYC	3 cut(s)	186, 226, 1117
BbsI	GAAGAC	2 cut(s)	810, 910
Bbv12I	GWGCWC	2 cut(s)	186, 226
BbvI	GCAGC	2 cut(s)	181, 544
BccI	CCATC	4 cut(s)	58, 300, 445, 1208
BciT130I	CCWGG	2 cut(s)	73, 145
BcoDI	GTCTC	3 cut(s)	145, 251, 1222
BfaI	CTAG	2 cut(s)	227, 890
BglII	AGATCT	1 cut(s)	693
BisI	GCNGC	4 cut(s)	69, 170, 558, 999
BlsI	GCNGC	4 cut(s)	70, 171, 559, 1000
BmcAI	AGTACT	1 cut(s)	503
Bme1390I	CCNGG	2 cut(s)	73, 145
BmeT110I	CYCGRG	1 cut(s)	98
BmgT120I	GGNCC	1 cut(s)	684
BmiI	GGNNCC	3 cut(s)	686, 1050, 1114
BmrFI	CCNGG	2 cut(s)	73, 145
BmsI	GCATC	1 cut(s)	298
BoxI	GACNNNNGTC	1 cut(s)	263
BpiI	GAAGAC	2 cut(s)	810, 910
BplI	GAGNNNNNCTC	4 cut(s)	139, 171, 728, 760
BpmI	CTGGAG	4 cut(s)	127, 665, 718, 1131
BpuEI	CTTGAG	2 cut(s)	44, 740
BsaAI	YACGTR	1 cut(s)	674
BsaBI	GATNNNNATC	1 cut(s)	291
BsaHI	GRCGYC	1 cut(s)	264
BsaI	GGTCTC	1 cut(s)	145
BsaJI	CCNNGG	1 cut(s)	1032
BsaXI	ACNNNNNCTCC	2 cut(s)	125, 155
Bsc4I	CCNNNNNNNGG	1 cut(s)	514
Bse3DI	GCAATG	1 cut(s)	767
Bse8I	GATNNNNATC	1 cut(s)	291
BseBI	CCWGG	2 cut(s)	73, 145
BseDI	CCNNGG	1 cut(s)	1032
BseGI	GGATG	4 cut(s)	247, 456, 589, 1016
BseJI	GATNNNNATC	1 cut(s)	291
BseLI	CCNNNNNNNGG	1 cut(s)	514
BseMI	GCAATG	1 cut(s)	767
BseMII	CTCAG	2 cut(s)	759, 881
BseXI	GCAGC	2 cut(s)	181, 544
BsgI	GTGCAG	1 cut(s)	1109
BshFI	GGCC	3 cut(s)	71, 685, 1199
BsiHKAI	GWGCWC	2 cut(s)	186, 226
BsiHKCI	CYCGRG	1 cut(s)	98
BslFI	GGGAC	1 cut(s)	1118
BslI	CCNNNNNNNGG	1 cut(s)	514
BsmAI	GTCTC	3 cut(s)	145, 251, 1222
BsmFI	GGGAC	1 cut(s)	1118
BsnI	GGCC	3 cut(s)	71, 685, 1199
Bso31I	GGTCTC	1 cut(s)	145
BsoBI	CYCGRG	1 cut(s)	98
Bsp1286I	GDGCHC	3 cut(s)	186, 226, 1117
Bsp143I	GATC	5 cut(s)	90, 693, 835, 870, 1048
BspACI	CCGC	3 cut(s)	68, 688, 999
BspANI	GGCC	3 cut(s)	71, 685, 1199
BspCNI	CTCAG	2 cut(s)	758, 880
BspLI	GGNNCC	3 cut(s)	686, 1050, 1114
BspPI	GGATC	4 cut(s)	85, 830, 1043, 1056
BspTNI	GGTCTC	1 cut(s)	145
BsrDI	GCAATG	1 cut(s)	767
BssECI	CCNNGG	1 cut(s)	1032
BssMI	GATC	5 cut(s)	90, 693, 835, 870, 1048
BssNI	GRCGYC	1 cut(s)	264
BssT1I	CCWWGG	1 cut(s)	1032
Bst2UI	CCWGG	2 cut(s)	73, 145
Bst4CI	ACNGT	2 cut(s)	235, 484
BstACI	GRCGYC	1 cut(s)	264
BstBAI	YACGTR	1 cut(s)	674
BstC8I	GCNNGC	2 cut(s)	1076, 1225
BstDEI	CTNAG	2 cut(s)	745, 867
BstF5I	GGATG	4 cut(s)	247, 456, 589, 1016
BstKTI	GATC	5 cut(s)	93, 696, 838, 873, 1051
BstMAI	GTCTC	3 cut(s)	145, 251, 1222
BstMBI	GATC	5 cut(s)	90, 693, 835, 870, 1048
BstMWI	GCNNNNNNNGC	1 cut(s)	452
BstNI	CCWGG	2 cut(s)	73, 145
BstNSI	RCATGY	2 cut(s)	330, 1101
BstPAI	GACNNNNGTC	1 cut(s)	263
BstSCI	CCNGG	2 cut(s)	71, 143
BstV1I	GCAGC	2 cut(s)	181, 544
BstV2I	GAAGAC	2 cut(s)	810, 910
BstX2I	RGATCY	4 cut(s)	90, 693, 835, 1048
BstXI	CCANNNNNNTGG	1 cut(s)	439
BstYI	RGATCY	4 cut(s)	90, 693, 835, 1048
BsuRI	GGCC	3 cut(s)	71, 685, 1199
BtsCI	GGATG	4 cut(s)	247, 456, 589, 1016
BtsI	GCAGTG	1 cut(s)	762
BtsIMutI	CAGTG	3 cut(s)	231, 762, 1092
Cac8I	GCNNGC	2 cut(s)	1076, 1225
Cfr13I	GGNCC	1 cut(s)	684
Csp6I	GTAC	3 cut(s)	333, 343, 502
CviAII	CATG	8 cut(s)	127, 327, 355, 371, 554, 775, 874, 1098
CviQI	GTAC	3 cut(s)	333, 343, 502
DdeI	CTNAG	2 cut(s)	745, 867
DpnI	GATC	5 cut(s)	92, 695, 837, 872, 1050
DpnII	GATC	5 cut(s)	90, 693, 835, 870, 1048
DraI	TTTAAA	1 cut(s)	850
DraIII	CACNNNGTG	1 cut(s)	514
EaeI	YGGCCR	2 cut(s)	69, 1197
Ecl136II	GAGCTC	2 cut(s)	184, 224
Eco130I	CCWWGG	1 cut(s)	1032
Eco24I	GRGCYC	3 cut(s)	186, 226, 1117
Eco31I	GGTCTC	1 cut(s)	145
Eco53kI	GAGCTC	2 cut(s)	184, 224
Eco57I	CTGAAG	2 cut(s)	599, 904
Eco88I	CYCGRG	1 cut(s)	98
EcoICRI	GAGCTC	2 cut(s)	184, 224
EcoRII	CCWGG	2 cut(s)	71, 143
EcoT14I	CCWWGG	1 cut(s)	1032
EcoT38I	GRGCYC	3 cut(s)	186, 226, 1117
ErhI	CCWWGG	1 cut(s)	1032
FaeI	CATG	8 cut(s)	130, 330, 358, 374, 557, 778, 877, 1101
FaqI	GGGAC	1 cut(s)	1118
FatI	CATG	8 cut(s)	126, 326, 354, 370, 553, 774, 873, 1097
FauI	CCCGC	1 cut(s)	695
FauNDI	CATATG	1 cut(s)	798
Fnu4HI	GCNGC	4 cut(s)	69, 170, 558, 999
FokI	GGATG	4 cut(s)	254, 463, 596, 1003
FriOI	GRGCYC	3 cut(s)	186, 226, 1117
Fsp4HI	GCNGC	4 cut(s)	69, 170, 558, 999
FspBI	CTAG	2 cut(s)	227, 890
GluI	GCNGC	4 cut(s)	69, 170, 558, 999
GsuI	CTGGAG	4 cut(s)	127, 665, 718, 1131
HaeIII	GGCC	3 cut(s)	71, 685, 1199
Hin1I	GRCGYC	1 cut(s)	264
Hin1II	CATG	8 cut(s)	130, 330, 358, 374, 557, 778, 877, 1101
HincII	GTYRAC	2 cut(s)	712, 1039
HindII	GTYRAC	2 cut(s)	712, 1039
HindIII	AAGCTT	1 cut(s)	545
HinfI	GANTC	3 cut(s)	1082, 1106, 1233
HpaI	GTTAAC	1 cut(s)	712
HphI	GGTGA	2 cut(s)	943, 1192
Hpy166II	GTNNAC	2 cut(s)	712, 1039
Hpy188I	TCNGA	5 cut(s)	618, 748, 768, 870, 923
Hpy8I	GTNNAC	2 cut(s)	712, 1039
HpyAV	CCTTC	2 cut(s)	394, 1039
HpyCH4III	ACNGT	2 cut(s)	235, 484
HpyCH4IV	ACGT	2 cut(s)	264, 673
HpyCH4V	TGCA	5 cut(s)	326, 468, 760, 1090, 1101
HpyF10VI	GCNNNNNNNGC	1 cut(s)	452
HpyF3I	CTNAG	2 cut(s)	745, 867
HpySE526I	ACGT	2 cut(s)	264, 673
Hsp92I	GRCGYC	1 cut(s)	264
Hsp92II	CATG	8 cut(s)	130, 330, 358, 374, 557, 778, 877, 1101
KspAI	GTTAAC	1 cut(s)	712
Kzo9I	GATC	5 cut(s)	90, 693, 835, 870, 1048
LmnI	GCTCC	4 cut(s)	147, 181, 189, 1112
Lsp1109I	GCAGC	2 cut(s)	181, 544
LweI	GCATC	1 cut(s)	298
MaeI	CTAG	2 cut(s)	227, 890
MaeII	ACGT	2 cut(s)	264, 673
MaeIII	GTNAC	4 cut(s)	296, 669, 778, 1157
MalI	GATC	5 cut(s)	92, 695, 837, 872, 1050
MboI	GATC	5 cut(s)	90, 693, 835, 870, 1048
MboII	GAAGA	4 cut(s)	209, 605, 815, 910
MfeI	CAATTG	2 cut(s)	417, 879
MflI	RGATCY	4 cut(s)	90, 693, 835, 1048
MhlI	GDGCHC	3 cut(s)	186, 226, 1117
MlsI	TGGCCA	1 cut(s)	1199
MluCI	AATT	6 cut(s)	417, 563, 595, 851, 879, 1162
MluNI	TGGCCA	1 cut(s)	1199
MlyI	GAGTC	1 cut(s)	1100
Mox20I	TGGCCA	1 cut(s)	1199
MscI	TGGCCA	1 cut(s)	1199
MseI	TTAA	4 cut(s)	654, 711, 830, 849
MslI	CAYNNNNRTG	2 cut(s)	33, 303
Msp20I	TGGCCA	1 cut(s)	1199
MspR9I	CCNGG	2 cut(s)	73, 145
MunI	CAATTG	2 cut(s)	417, 879
MvaI	CCWGG	2 cut(s)	73, 145
MwoI	GCNNNNNNNGC	1 cut(s)	452
NdeI	CATATG	1 cut(s)	798
NdeII	GATC	5 cut(s)	90, 693, 835, 870, 1048
NlaIII	CATG	8 cut(s)	130, 330, 358, 374, 557, 778, 877, 1101
NlaIV	GGNNCC	3 cut(s)	686, 1050, 1114
NmuCI	GTSAC	3 cut(s)	296, 669, 778
NspI	RCATGY	2 cut(s)	330, 1101
PfeI	GAWTC	2 cut(s)	1082, 1233
PflFI	GACNNNGTC	1 cut(s)	776
PflMI	CCANNNNNTGG	1 cut(s)	514
PfoI	TCCNGGA	1 cut(s)	143
PkrI	GCNGC	4 cut(s)	70, 171, 559, 1000
PleI	GAGTC	1 cut(s)	1100
PpsI	GAGTC	1 cut(s)	1100
Ppu21I	YACGTR	1 cut(s)	674
PshAI	GACNNNNGTC	1 cut(s)	263
PshBI	ATTAAT	1 cut(s)	654
Psp124BI	GAGCTC	2 cut(s)	186, 226
Psp6I	CCWGG	2 cut(s)	71, 143
PspGI	CCWGG	2 cut(s)	71, 143
PspN4I	GGNNCC	3 cut(s)	686, 1050, 1114
PspPI	GGNCC	1 cut(s)	684
PsuI	RGATCY	4 cut(s)	90, 693, 835, 1048
PsyI	GACNNNGTC	1 cut(s)	776
RsaI	GTAC	3 cut(s)	334, 344, 503
RsaNI	GTAC	3 cut(s)	333, 343, 502
RseI	CAYNNNNRTG	2 cut(s)	33, 303
SacI	GAGCTC	2 cut(s)	186, 226
SaqAI	TTAA	4 cut(s)	654, 711, 830, 849
SatI	GCNGC	4 cut(s)	69, 170, 558, 999
Sau3AI	GATC	5 cut(s)	90, 693, 835, 870, 1048
Sau96I	GGNCC	1 cut(s)	684
ScaI	AGTACT	1 cut(s)	503
SchI	GAGTC	1 cut(s)	1100
ScrFI	CCNGG	2 cut(s)	73, 145
SduI	GDGCHC	3 cut(s)	186, 226, 1117
SfaNI	GCATC	1 cut(s)	298
SmiI	ATTTAAAT	1 cut(s)	850
SmiMI	CAYNNNNRTG	2 cut(s)	33, 303
SmlI	CTYRAG	2 cut(s)	59, 719
SmoI	CTYRAG	2 cut(s)	59, 719
Sse9I	AATT	6 cut(s)	417, 563, 595, 851, 879, 1162
SsiI	CCGC	3 cut(s)	68, 688, 999
SspMI	CTAG	2 cut(s)	227, 890
SstI	GAGCTC	2 cut(s)	186, 226
StyD4I	CCNGG	2 cut(s)	71, 143
StyI	CCWWGG	1 cut(s)	1032
SwaI	ATTTAAAT	1 cut(s)	850
TaaI	ACNGT	2 cut(s)	235, 484
TaiI	ACGT	2 cut(s)	267, 676
TaqI	TCGA	4 cut(s)	81, 174, 220, 634
TasI	AATT	6 cut(s)	417, 563, 595, 851, 879, 1162
TatI	WGTACW	2 cut(s)	342, 501
TauI	GCSGC	2 cut(s)	71, 1001
TfiI	GAWTC	2 cut(s)	1082, 1233
Tru1I	TTAA	4 cut(s)	654, 711, 830, 849
Tru9I	TTAA	4 cut(s)	654, 711, 830, 849
TscAI	CASTG	3 cut(s)	238, 762, 1092
TseFI	GTSAC	3 cut(s)	296, 669, 778
TseI	GCWGC	2 cut(s)	169, 557
Tsp45I	GTSAC	3 cut(s)	296, 669, 778
TspDTI	ATGAA	3 cut(s)	356, 600, 1005
TspGWI	ACGGA	3 cut(s)	176, 194, 596
TspRI	CASTG	3 cut(s)	238, 762, 1092
Tth111I	GACNNNGTC	1 cut(s)	776
Van91I	CCANNNNNTGG	1 cut(s)	514
VspI	ATTAAT	1 cut(s)	654
XapI	RAATTY	2 cut(s)	595, 851
XbaI	TCTAGA	1 cut(s)	226
XceI	RCATGY	2 cut(s)	330, 1101
XspI	CTAG	2 cut(s)	227, 890
ZraI	GACGTC	1 cut(s)	265
ZrmI	AGTACT	1 cut(s)	503

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