Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000002

Orthogroup ID

OG0007342

Physical Location & Seq

Genomic Coordinates Forward (+)

14244431 .. 14248272

Gene Structure 3842 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug02G0159800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 735 bp

ATGGATTTGAGTAGAGGTTTGGGATCGCGAGAGATTAGGGTTCGAATTGGGGCTCGCTCTTCACTTATCCAAACCCACCTCCAATTCAAGGCTTCTCGACCTGGTGATATTGATGAGCGCGAGGTTGTTACTCCTGATGTCATGACCAAGTATTTCATAGGTGTCACACTAAAGGAAAGATCTCCAGACGGTGTTGGGACGTTAGTTGATGTGGGCTTGAGTAAGAATGTCGTCGTTGATCAAGTACTTGATCCTGGAGCAAGAGTTACAGTGGCTATGGGAGACAGTTGGAATTTGGATGCTGGTTGTATCATCATCCAAGCCAAGGGAAGAAGCAGGGATGTATTGGGGGTACAAAGTGCACTATGCTTCCAATATCACTTCGGGTGGCTATATCATTTGATTGGGACCTCAGAGCATGGTCAGATTATCAATTCCTCCGATCTCACTATACCCACTTTCAGGTATCTATTGATTGCATTTGGTGGACTTGCTGGGTTCGAAGAGAGCATTGAAGAGGATCATAACTTAAAGGCAAAGAATGTGCGGGAGGAACAGCATGAGCTTCTCCAGAAAGTAGTGAAGCCTTTGACGGGTCGTTTAGAGATCTTAGTACCCAATGGTGGCCGTAACACTCACCGTTCTTCAGACTTGCAGATATATGGGTACAGAATGGCATTGTGGGCAGAGCATTTAGGACTTGTTGAAGAATGTTTCAATCAGCCAGAGTTTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006091 GO:0006119 GO:0006123 GO:0006139 GO:0006163 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0008150 GO:0008152 GO:0009060 GO:0009117 GO:0009123 GO:0009126 GO:0009141 GO:0009144 GO:0009150 GO:0009161 GO:0009167 GO:0009199 GO:0009205 GO:0009259 GO:0009987 GO:0015980 GO:0016310 GO:0017144 GO:0019637 GO:0019646 GO:0019693 GO:0022900 GO:0022904 GO:0030234 GO:0034641 GO:0042773 GO:0042775 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0045333 GO:0046034 GO:0046483 GO:0050790 GO:0055086 GO:0055114 GO:0065007 GO:0065009 GO:0071704 GO:0072521 GO:0098772 GO:1901135 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko00190 ko01100 ko04260 ko04714 ko04932 ko05010 ko05012 ko05016 map00190 map01100 map04260 map04714 map04932 map05010 map05012 map05016

Pfam Domains

Protein Families

COX6A

Protein Analysis

244

Amino Acids

27.2

Weight (kDa)

5.91

Isoelectric Point (pI)

41.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Methyltrn_RNA_3	PF02598	49 - 195	8.1e-13	Putative RNA methyltransferase

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

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Orthologous Genes (Group: OG0007342)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G37830 AT4G37830 AT4G37830
fragaria_vesca	FvH4_1g18620
malus_domestica	MD02G1193900.v1.1 MD15G1304000.v1.1
prunus_persica	Prupe.6G213100_v2.0.a1 Prupe.6G213100_v2.0.a1
pyrus_communis	pycom02g15790 pycom15g26700
rosa_chinensis	RchiOBHm_Chr2g0109411
rosa_laevigata	RLG00000017735 RLG00000021665
rosa_multiflora	Rmu_sc0000332.1_g000013 Rmu_sc0026699.1_g000002
rosa_roxburghii	Rroxscaffold_2G00134260
rosa_rugosa	Rorug02G0159800
rosa_samantha	Rh2AG211800 Rh2BG222200 Rh2CG214000 Rh2DG217500 Rh7DG270000
rosa_wichuraiana	Rw1G027160 Rw2G026280 Rw5G026840

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	28, 120
AciI	CCGC	1 cut(s)	547
AclWI	GGATC	3 cut(s)	31, 245, 528
AcoI	YGGCCR	1 cut(s)	625
AcsI	RAATTY	1 cut(s)	292
AcuI	CTGAAG	1 cut(s)	630
AfaI	GTAC	4 cut(s)	246, 354, 615, 668
AfiI	CCNNNNNNNGG	5 cut(s)	88, 325, 462, 593, 623
AgsI	TTSAA	4 cut(s)	88, 515, 707, 718
AjnI	CCWGG	2 cut(s)	100, 253
AluBI	AGCT	1 cut(s)	565
AluI	AGCT	1 cut(s)	565
Alw21I	GWGCWC	1 cut(s)	364
Alw26I	GTCTC	1 cut(s)	276
Alw44I	GTGCAC	1 cut(s)	360
AlwI	GGATC	3 cut(s)	31, 245, 528
AoxI	GGCC	1 cut(s)	625
ApaLI	GTGCAC	1 cut(s)	360
ApoI	RAATTY	1 cut(s)	292
AspLEI	GCGC	1 cut(s)	120
AspS9I	GGNCC	1 cut(s)	408
AsuHPI	GGTGA	2 cut(s)	116, 629
AsuII	TTCGAA	2 cut(s)	43, 501
AvaII	GGWCC	1 cut(s)	408
BaeGI	GKGCMC	1 cut(s)	364
BanII	GRGCYC	1 cut(s)	55
Bbv12I	GWGCWC	1 cut(s)	364
BceAI	ACGGC	1 cut(s)	612
BciT130I	CCWGG	2 cut(s)	102, 255
BclI	TGATCA	1 cut(s)	238
BcoDI	GTCTC	1 cut(s)	276
BglII	AGATCT	2 cut(s)	179, 606
BmcAI	AGTACT	1 cut(s)	246
Bme1390I	CCNGG	2 cut(s)	102, 255
Bme18I	GGWCC	1 cut(s)	408
BmgT120I	GGNCC	1 cut(s)	408
BmiI	GGNNCC	1 cut(s)	409
BmrFI	CCNGG	2 cut(s)	102, 255
BmsI	GCATC	1 cut(s)	289
BpmI	CTGGAG	3 cut(s)	168, 276, 554
Bpu14I	TTCGAA	2 cut(s)	43, 501
BpuEI	CTTGAG	1 cut(s)	238
BsaJI	CCNNGG	1 cut(s)	324
BsaXI	ACNNNNNCTCC	2 cut(s)	249, 279
Bsc4I	CCNNNNNNNGG	5 cut(s)	88, 325, 462, 593, 623
BseBI	CCWGG	2 cut(s)	102, 255
BseDI	CCNNGG	1 cut(s)	324
BseGI	GGATG	3 cut(s)	304, 315, 346
BseLI	CCNNNNNNNGG	5 cut(s)	88, 325, 462, 593, 623
BseMII	CTCAG	1 cut(s)	426
BseSI	GKGCMC	1 cut(s)	364
BseYI	CCCAGC	1 cut(s)	494
Bsh1236I	CGCG	2 cut(s)	28, 120
BshFI	GGCC	1 cut(s)	627
BsiHKAI	GWGCWC	1 cut(s)	364
BslFI	GGGAC	2 cut(s)	211, 421
BslI	CCNNNNNNNGG	5 cut(s)	88, 325, 462, 593, 623
BsmAI	GTCTC	1 cut(s)	276
BsmFI	GGGAC	2 cut(s)	211, 421
BsnI	GGCC	1 cut(s)	627
Bsp119I	TTCGAA	2 cut(s)	43, 501
Bsp1286I	GDGCHC	2 cut(s)	55, 364
Bsp143I	GATC	7 cut(s)	23, 179, 238, 250, 442, 520, 606
Bsp68I	TCGCGA	1 cut(s)	28
BspACI	CCGC	1 cut(s)	547
BspANI	GGCC	1 cut(s)	627
BspCNI	CTCAG	1 cut(s)	425
BspFNI	CGCG	2 cut(s)	28, 120
BspHI	TCATGA	1 cut(s)	141
BspLI	GGNNCC	1 cut(s)	409
BspPI	GGATC	3 cut(s)	31, 245, 528
BspQI	GCTCTTC	1 cut(s)	64
BspT104I	TTCGAA	2 cut(s)	43, 501
BssECI	CCNNGG	1 cut(s)	324
BssMI	GATC	7 cut(s)	23, 179, 238, 250, 442, 520, 606
BssT1I	CCWWGG	1 cut(s)	324
Bst2UI	CCWGG	2 cut(s)	102, 255
Bst4CI	ACNGT	4 cut(s)	191, 271, 287, 641
Bst6I	CTCTTC	3 cut(s)	64, 498, 510
BstBI	TTCGAA	2 cut(s)	43, 501
BstC8I	GCNNGC	1 cut(s)	55
BstDEI	CTNAG	2 cut(s)	412, 610
BstF5I	GGATG	3 cut(s)	304, 315, 346
BstFNI	CGCG	2 cut(s)	28, 120
BstHHI	GCGC	1 cut(s)	120
BstKTI	GATC	7 cut(s)	26, 182, 241, 253, 445, 523, 609
BstMAI	GTCTC	1 cut(s)	276
BstMBI	GATC	7 cut(s)	23, 179, 238, 250, 442, 520, 606
BstMWI	GCNNNNNNNGC	1 cut(s)	683
BstNI	CCWGG	2 cut(s)	102, 255
BstSCI	CCNGG	2 cut(s)	100, 253
BstSLI	GKGCMC	1 cut(s)	364
BstUI	CGCG	2 cut(s)	28, 120
BstX2I	RGATCY	2 cut(s)	179, 606
BstYI	RGATCY	2 cut(s)	179, 606
BsuRI	GGCC	1 cut(s)	627
BtsCI	GGATG	3 cut(s)	304, 315, 346
BtsIMutI	CAGTG	1 cut(s)	276
BtuMI	TCGCGA	1 cut(s)	28
Cac8I	GCNNGC	1 cut(s)	55
CciI	TCATGA	1 cut(s)	141
CfoI	GCGC	1 cut(s)	120
Cfr13I	GGNCC	1 cut(s)	408
CsiI	ACCWGGT	1 cut(s)	100
Csp6I	GTAC	4 cut(s)	245, 353, 614, 667
CviAII	CATG	3 cut(s)	142, 419, 560
CviQI	GTAC	4 cut(s)	245, 353, 614, 667
DdeI	CTNAG	2 cut(s)	412, 610
DpnI	GATC	7 cut(s)	25, 181, 240, 252, 444, 522, 608
DpnII	GATC	7 cut(s)	23, 179, 238, 250, 442, 520, 606
EaeI	YGGCCR	1 cut(s)	625
Eam1104I	CTCTTC	3 cut(s)	64, 498, 510
EarI	CTCTTC	3 cut(s)	64, 498, 510
Eco130I	CCWWGG	1 cut(s)	324
Eco24I	GRGCYC	1 cut(s)	55
Eco47I	GGWCC	1 cut(s)	408
Eco57I	CTGAAG	1 cut(s)	630
EcoO109I	RGGNCCY	1 cut(s)	408
EcoRII	CCWGG	2 cut(s)	100, 253
EcoT14I	CCWWGG	1 cut(s)	324
EcoT38I	GRGCYC	1 cut(s)	55
ErhI	CCWWGG	1 cut(s)	324
FaeI	CATG	3 cut(s)	145, 422, 563
FaqI	GGGAC	2 cut(s)	211, 421
FatI	CATG	3 cut(s)	141, 418, 559
FauI	CCCGC	1 cut(s)	540
FbaI	TGATCA	1 cut(s)	238
FokI	GGATG	3 cut(s)	302, 311, 353
FriOI	GRGCYC	1 cut(s)	55
GlaI	GCGC	1 cut(s)	119
GsaI	CCCAGC	1 cut(s)	498
GsuI	CTGGAG	3 cut(s)	168, 276, 554
HaeIII	GGCC	1 cut(s)	627
HhaI	GCGC	1 cut(s)	120
Hin1II	CATG	3 cut(s)	145, 422, 563
Hin6I	GCGC	1 cut(s)	118
HinP1I	GCGC	1 cut(s)	118
HphI	GGTGA	2 cut(s)	116, 629
Hpy166II	GTNNAC	2 cut(s)	362, 488
Hpy188I	TCNGA	4 cut(s)	415, 426, 442, 649
Hpy188III	TCNNGA	6 cut(s)	27, 96, 134, 142, 185, 571
Hpy8I	GTNNAC	2 cut(s)	362, 488
Hpy99I	CGWCG	1 cut(s)	236
HpyCH4III	ACNGT	4 cut(s)	191, 271, 287, 641
HpyCH4IV	ACGT	1 cut(s)	200
HpyCH4V	TGCA	3 cut(s)	362, 479, 655
HpyF10VI	GCNNNNNNNGC	1 cut(s)	683
HpyF3I	CTNAG	2 cut(s)	412, 610
HpySE526I	ACGT	1 cut(s)	200
Hsp92II	CATG	3 cut(s)	145, 422, 563
HspAI	GCGC	1 cut(s)	118
Ksp22I	TGATCA	1 cut(s)	238
Kzo9I	GATC	7 cut(s)	23, 179, 238, 250, 442, 520, 606
LguI	GCTCTTC	1 cut(s)	64
LmnI	GCTCC	1 cut(s)	257
LweI	GCATC	1 cut(s)	289
MabI	ACCWGGT	1 cut(s)	100
MaeII	ACGT	1 cut(s)	200
MaeIII	GTNAC	4 cut(s)	127, 163, 265, 629
MalI	GATC	7 cut(s)	25, 181, 240, 252, 444, 522, 608
MboI	GATC	7 cut(s)	23, 179, 238, 250, 442, 520, 606
MboII	GAAGA	6 cut(s)	51, 342, 515, 527, 636, 719
MflI	RGATCY	2 cut(s)	179, 606
MhlI	GDGCHC	2 cut(s)	55, 364
MluCI	AATT	4 cut(s)	45, 83, 292, 433
MmeI	TCCRAC	1 cut(s)	269
MnlI	CCTC	7 cut(s)	8, 89, 115, 421, 448, 511, 544
MseI	TTAA	1 cut(s)	530
MspR9I	CCNGG	2 cut(s)	102, 255
MvaI	CCWGG	2 cut(s)	102, 255
MvnI	CGCG	2 cut(s)	28, 120
MwoI	GCNNNNNNNGC	1 cut(s)	683
NdeII	GATC	7 cut(s)	23, 179, 238, 250, 442, 520, 606
NlaIII	CATG	3 cut(s)	145, 422, 563
NlaIV	GGNNCC	1 cut(s)	409
NmuCI	GTSAC	1 cut(s)	163
NruI	TCGCGA	1 cut(s)	28
NspV	TTCGAA	2 cut(s)	43, 501
PagI	TCATGA	1 cut(s)	141
PciSI	GCTCTTC	1 cut(s)	64
PfoI	TCCNGGA	1 cut(s)	253
PpuMI	RGGWCCY	1 cut(s)	408
Psp5II	RGGWCCY	1 cut(s)	408
Psp6I	CCWGG	2 cut(s)	100, 253
PspFI	CCCAGC	1 cut(s)	494
PspGI	CCWGG	2 cut(s)	100, 253
PspN4I	GGNNCC	1 cut(s)	409
PspPI	GGNCC	1 cut(s)	408
PspPPI	RGGWCCY	1 cut(s)	408
PsuI	RGATCY	2 cut(s)	179, 606
RruI	TCGCGA	1 cut(s)	28
RsaI	GTAC	4 cut(s)	246, 354, 615, 668
RsaNI	GTAC	4 cut(s)	245, 353, 614, 667
SapI	GCTCTTC	1 cut(s)	64
SaqAI	TTAA	1 cut(s)	530
Sau3AI	GATC	7 cut(s)	23, 179, 238, 250, 442, 520, 606
Sau96I	GGNCC	1 cut(s)	408
ScaI	AGTACT	1 cut(s)	246
ScrFI	CCNGG	2 cut(s)	102, 255
SduI	GDGCHC	2 cut(s)	55, 364
SetI	ASST	9 cut(s)	19, 81, 103, 126, 163, 203, 413, 467, 567
SexAI	ACCWGGT	1 cut(s)	100
SfaNI	GCATC	1 cut(s)	289
SfuI	TTCGAA	2 cut(s)	43, 501
SinI	GGWCC	1 cut(s)	408
SmlI	CTYRAG	1 cut(s)	217
SmoI	CTYRAG	1 cut(s)	217
Sse9I	AATT	4 cut(s)	45, 83, 292, 433
SsiI	CCGC	1 cut(s)	547
StyD4I	CCNGG	2 cut(s)	100, 253
StyI	CCWWGG	1 cut(s)	324
TaaI	ACNGT	4 cut(s)	191, 271, 287, 641
TaiI	ACGT	1 cut(s)	203
TaqI	TCGA	3 cut(s)	43, 97, 501
TasI	AATT	4 cut(s)	45, 83, 292, 433
TatI	WGTACW	1 cut(s)	244
Tru1I	TTAA	1 cut(s)	530
Tru9I	TTAA	1 cut(s)	530
TscAI	CASTG	1 cut(s)	276
TseFI	GTSAC	1 cut(s)	163
Tsp45I	GTSAC	1 cut(s)	163
TspDTI	ATGAA	1 cut(s)	145
TspRI	CASTG	1 cut(s)	276
VneI	GTGCAC	1 cut(s)	360
VpaK11BI	GGWCC	1 cut(s)	408
XapI	RAATTY	1 cut(s)	292
ZrmI	AGTACT	1 cut(s)	246

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