Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr3

Orthogroup ID

OG0012754

Physical Location & Seq

Genomic Coordinates Forward (+)

44420920 .. 44424973

Gene Structure 4054 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw3G029120.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 480 bp

ATGGGCAGTGTGAAAGCAGTGGCTGTAATCAGCGGGGGAGATAAGTGCCCCCTGCTCAGAGGCGCTCTTCAATTCGTGCAGGGTCCCCAAGGGCCAACCCATGTTAGAGGAAAAATTAGTGGCCTCTCTCCTGGCCTTCATGGCTTCCATATTCACGCTCTTGGTGATACCTCCAACGGCTGCAATTCCACTGGACCTCACTTCAATCCACTGAACAAGGCCCATGGAGCTCCTTCAGACAAGGACCGTCACGCCGGTGATTTGGGTAACGTCACTGCAGGCCCAGATGGAGTTGCTGAGGTTTCTGTTGACGACTGGCAGATTCCACTAAGCGGACCTCATTCCATTCTTGGGAGGGCGGTTGTAGTGCATGCTGACCCTGATGATCTTGGCAAAGGTGGACATGAACTCAGCAAATCTACTGGGAATGCGGGAGCAAGAGTTGGATGCGGTATAATTGGCCTTCAGTCATCTGTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000302 GO:0000303 GO:0000305 GO:0001101 GO:0003674 GO:0003824 GO:0004784 GO:0005488 GO:0005507 GO:0005575 GO:0005576 GO:0005615 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005777 GO:0006801 GO:0006950 GO:0006970 GO:0006979 GO:0008150 GO:0008152 GO:0008270 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009636 GO:0009642 GO:0009644 GO:0009651 GO:0009987 GO:0010035 GO:0010193 GO:0010224 GO:0016209 GO:0016491 GO:0016721 GO:0019430 GO:0033554 GO:0034599 GO:0034614 GO:0034644 GO:0035690 GO:0042221 GO:0042493 GO:0042579 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044421 GO:0044424 GO:0044444 GO:0044464 GO:0046677 GO:0046872 GO:0046914 GO:0050896 GO:0051716 GO:0055114 GO:0070887 GO:0071214 GO:0071229 GO:0071236 GO:0071450 GO:0071451 GO:0071457 GO:0071470 GO:0071472 GO:0071478 GO:0071482 GO:0071484 GO:0071486 GO:0071493 GO:0072593 GO:0097237 GO:0098754 GO:0098869 GO:0104004 GO:1901700 GO:1901701 GO:1990748

KEGG Pathways

Metabolic & Signaling

ko04146 ko04213 ko05014 ko05016 ko05020 map04146 map04213 map05014 map05016 map05020

Pfam Domains

Protein Families

Sod_Cu

Protein Analysis

159

Amino Acids

15.95

Weight (kDa)

6.78

Isoelectric Point (pI)

17.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Cu	PF00080	20 - 153	3e-48	Copper/zinc superoxide dismutase (SODC)

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: OG0012754)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18100 AT5G18100
fragaria_vesca	FvH4_1g28280
malus_domestica	MD12G1004800.v1.1 MD14G1003300.v1.1
prunus_persica	Prupe.7G005300_v2.0.a1 Prupe.7G005300_v2.0.a1 Prupe.7G005300_v2.0.a1
pyrus_communis	pycom12g00390 pycom14g00120
rosa_chinensis	RchiOBHm_Chr3g0496871
rosa_multiflora	Rmu_sc0001438.1_g000032
rosa_roxburghii	Rroxscaffold_6G00388610
rosa_samantha	Rh3AG332200 Rh3BG368900 Rh3CG365300 Rh3DG368200
rosa_wichuraiana	Rw3G029120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	5 cut(s)	33, 333, 359, 431, 450
AcuI	CTGAAG	2 cut(s)	219, 449
AfiI	CCNNNNNNNGG	2 cut(s)	332, 351
AgsI	TTSAA	2 cut(s)	71, 205
AjnI	CCWGG	1 cut(s)	130
AleI	CACNNNNGTG	1 cut(s)	255
AluBI	AGCT	1 cut(s)	230
AluI	AGCT	1 cut(s)	230
Alw21I	GWGCWC	1 cut(s)	232
AlwNI	CAGNNNCTG	1 cut(s)	23
AoxI	GGCC	6 cut(s)	92, 121, 133, 219, 280, 460
ApeKI	GCWGC	1 cut(s)	180
AspLEI	GCGC	1 cut(s)	65
AspS9I	GGNCC	7 cut(s)	83, 92, 194, 220, 244, 281, 335
AsuHPI	GGTGA	2 cut(s)	176, 269
AvaII	GGWCC	4 cut(s)	83, 194, 244, 335
BaeGI	GKGCMC	1 cut(s)	50
BanII	GRGCYC	1 cut(s)	232
Bbv12I	GWGCWC	1 cut(s)	232
BbvCI	CCTCAGC	1 cut(s)	297
BbvI	GCAGC	1 cut(s)	167
BccI	CCATC	1 cut(s)	281
BceAI	ACGGC	1 cut(s)	193
BciT130I	CCWGG	1 cut(s)	132
BfmI	CTRYAG	1 cut(s)	276
BfoI	RGCGCY	1 cut(s)	66
BglI	GCCNNNNNGGC	1 cut(s)	141
BisI	GCNGC	1 cut(s)	181
BlsI	GCNGC	1 cut(s)	182
Bme1390I	CCNGG	1 cut(s)	132
Bme18I	GGWCC	4 cut(s)	83, 194, 244, 335
BmgT120I	GGNCC	7 cut(s)	83, 92, 194, 220, 244, 281, 335
BmiI	GGNNCC	2 cut(s)	84, 85
BmrFI	CCNGG	1 cut(s)	132
BmrI	ACTGGG	1 cut(s)	432
BmsI	GCATC	1 cut(s)	437
BmuI	ACTGGG	1 cut(s)	432
Bpu10I	CCTNAGC	1 cut(s)	297
BsaJI	CCNNGG	2 cut(s)	88, 223
BsaXI	ACNNNNNCTCC	2 cut(s)	426, 456
Bsc4I	CCNNNNNNNGG	2 cut(s)	332, 351
Bse118I	RCCGGY	1 cut(s)	254
Bse1I	ACTGG	3 cut(s)	196, 320, 427
BseBI	CCWGG	1 cut(s)	132
BseDI	CCNNGG	2 cut(s)	88, 223
BseGI	GGATG	1 cut(s)	452
BseLI	CCNNNNNNNGG	2 cut(s)	332, 351
BseMII	CTCAG	3 cut(s)	70, 288, 424
BseNI	ACTGG	3 cut(s)	196, 320, 427
BseSI	GKGCMC	1 cut(s)	50
BseXI	GCAGC	1 cut(s)	167
BsgI	GTGCAG	1 cut(s)	98
BshFI	GGCC	6 cut(s)	94, 123, 135, 221, 282, 462
BsiHKAI	GWGCWC	1 cut(s)	232
BsiSI	CCGG	1 cut(s)	255
BslFI	GGGAC	1 cut(s)	69
BslI	CCNNNNNNNGG	2 cut(s)	332, 351
BsmFI	GGGAC	1 cut(s)	69
BsmI	GAATGC	1 cut(s)	433
BsnI	GGCC	6 cut(s)	94, 123, 135, 221, 282, 462
Bsp1286I	GDGCHC	2 cut(s)	50, 232
Bsp143I	GATC	1 cut(s)	385
Bsp19I	CCATGG	1 cut(s)	223
BspACI	CCGC	5 cut(s)	33, 333, 359, 431, 450
BspANI	GGCC	6 cut(s)	94, 123, 135, 221, 282, 462
BspCNI	CTCAG	3 cut(s)	69, 289, 423
BspLI	GGNNCC	2 cut(s)	84, 85
BspMAI	CTGCAG	1 cut(s)	280
BspQI	GCTCTTC	1 cut(s)	72
BsrFI	RCCGGY	1 cut(s)	254
BsrI	ACTGG	3 cut(s)	196, 320, 427
BssAI	RCCGGY	1 cut(s)	254
BssECI	CCNNGG	2 cut(s)	88, 223
BssMI	GATC	1 cut(s)	385
BssT1I	CCWWGG	2 cut(s)	88, 223
Bst2UI	CCWGG	1 cut(s)	132
Bst4CI	ACNGT	1 cut(s)	248
Bst6I	CTCTTC	1 cut(s)	72
BstC8I	GCNNGC	2 cut(s)	280, 372
BstDEI	CTNAG	4 cut(s)	56, 297, 329, 410
BstDSI	CCRYGG	1 cut(s)	223
BstF5I	GGATG	1 cut(s)	452
BstH2I	RGCGCY	1 cut(s)	66
BstHHI	GCGC	1 cut(s)	65
BstKTI	GATC	1 cut(s)	388
BstMBI	GATC	1 cut(s)	385
BstMWI	GCNNNNNNNGC	2 cut(s)	141, 227
BstNI	CCWGG	1 cut(s)	132
BstNSI	RCATGY	1 cut(s)	374
BstSCI	CCNGG	1 cut(s)	130
BstSFI	CTRYAG	1 cut(s)	276
BstSLI	GKGCMC	1 cut(s)	50
BstV1I	GCAGC	1 cut(s)	167
BsuRI	GGCC	6 cut(s)	94, 123, 135, 221, 282, 462
BtgI	CCRYGG	1 cut(s)	223
BtsCI	GGATG	1 cut(s)	452
BtsI	GCAGTG	3 cut(s)	13, 24, 273
BtsIMutI	CAGTG	5 cut(s)	13, 24, 189, 209, 273
Cac8I	GCNNGC	2 cut(s)	280, 372
CaiI	CAGNNNCTG	1 cut(s)	23
CfoI	GCGC	1 cut(s)	65
Cfr10I	RCCGGY	1 cut(s)	254
Cfr13I	GGNCC	7 cut(s)	83, 92, 194, 220, 244, 281, 335
CviAII	CATG	5 cut(s)	101, 140, 224, 371, 404
DdeI	CTNAG	4 cut(s)	56, 297, 329, 410
DpnI	GATC	1 cut(s)	387
DpnII	GATC	1 cut(s)	385
Eam1104I	CTCTTC	1 cut(s)	72
EarI	CTCTTC	1 cut(s)	72
Ecl136II	GAGCTC	1 cut(s)	230
Eco130I	CCWWGG	2 cut(s)	88, 223
Eco24I	GRGCYC	1 cut(s)	232
Eco47I	GGWCC	4 cut(s)	83, 194, 244, 335
Eco53kI	GAGCTC	1 cut(s)	230
Eco57I	CTGAAG	2 cut(s)	219, 449
EcoICRI	GAGCTC	1 cut(s)	230
EcoO109I	RGGNCCY	1 cut(s)	83
EcoRII	CCWGG	1 cut(s)	130
EcoT14I	CCWWGG	2 cut(s)	88, 223
EcoT38I	GRGCYC	1 cut(s)	232
ErhI	CCWWGG	2 cut(s)	88, 223
FaeI	CATG	5 cut(s)	104, 143, 227, 374, 407
FaiI	YATR	7 cut(s)	102, 141, 150, 225, 372, 405, 455
FaqI	GGGAC	1 cut(s)	69
FatI	CATG	5 cut(s)	100, 139, 223, 370, 403
FauI	CCCGC	2 cut(s)	26, 424
Fnu4HI	GCNGC	1 cut(s)	181
FokI	GGATG	1 cut(s)	459
FriOI	GRGCYC	1 cut(s)	232
Fsp4HI	GCNGC	1 cut(s)	181
GlaI	GCGC	1 cut(s)	64
GluI	GCNGC	1 cut(s)	181
HaeII	RGCGCY	1 cut(s)	66
HaeIII	GGCC	6 cut(s)	94, 123, 135, 221, 282, 462
HapII	CCGG	1 cut(s)	255
HhaI	GCGC	1 cut(s)	65
Hin1II	CATG	5 cut(s)	104, 143, 227, 374, 407
Hin6I	GCGC	1 cut(s)	63
HinP1I	GCGC	1 cut(s)	63
HincII	GTYRAC	1 cut(s)	310
HindII	GTYRAC	1 cut(s)	310
HinfI	GANTC	1 cut(s)	322
HpaII	CCGG	1 cut(s)	255
HphI	GGTGA	2 cut(s)	176, 269
Hpy166II	GTNNAC	2 cut(s)	310, 401
Hpy188I	TCNGA	2 cut(s)	59, 238
Hpy8I	GTNNAC	2 cut(s)	310, 401
HpyAV	CCTTC	3 cut(s)	146, 243, 473
HpyCH4III	ACNGT	1 cut(s)	248
HpyCH4IV	ACGT	1 cut(s)	270
HpyCH4V	TGCA	4 cut(s)	79, 183, 278, 370
HpyF10VI	GCNNNNNNNGC	2 cut(s)	141, 227
HpyF3I	CTNAG	4 cut(s)	56, 297, 329, 410
HpySE526I	ACGT	1 cut(s)	270
Hsp92II	CATG	5 cut(s)	104, 143, 227, 374, 407
HspAI	GCGC	1 cut(s)	63
KflI	GGGWCCC	1 cut(s)	83
Kzo9I	GATC	1 cut(s)	385
LguI	GCTCTTC	1 cut(s)	72
LmnI	GCTCC	3 cut(s)	227, 235, 434
Lsp1109I	GCAGC	1 cut(s)	167
LweI	GCATC	1 cut(s)	437
MaeII	ACGT	1 cut(s)	270
MaeIII	GTNAC	3 cut(s)	248, 266, 271
MalI	GATC	1 cut(s)	387
MboI	GATC	1 cut(s)	385
MboII	GAAGA	1 cut(s)	59
MhlI	GDGCHC	2 cut(s)	50, 232
MluCI	AATT	4 cut(s)	71, 114, 184, 456
MmeI	TCCRAC	2 cut(s)	198, 424
MnlI	CCTC	8 cut(s)	53, 101, 134, 181, 207, 292, 348, 348
MseI	TTAA	1 cut(s)	478
MslI	CAYNNNNRTG	1 cut(s)	255
MspA1I	CMGCKG	1 cut(s)	33
MspI	CCGG	1 cut(s)	255
MspR9I	CCNGG	1 cut(s)	132
Mva1269I	GAATGC	1 cut(s)	433
MvaI	CCWGG	1 cut(s)	132
MwoI	GCNNNNNNNGC	2 cut(s)	141, 227
NcoI	CCATGG	1 cut(s)	223
NdeII	GATC	1 cut(s)	385
NlaIII	CATG	5 cut(s)	104, 143, 227, 374, 407
NlaIV	GGNNCC	2 cut(s)	84, 85
NmuCI	GTSAC	2 cut(s)	248, 271
NspI	RCATGY	1 cut(s)	374
OliI	CACNNNNGTG	1 cut(s)	255
PaeI	GCATGC	1 cut(s)	374
PciSI	GCTCTTC	1 cut(s)	72
PctI	GAATGC	1 cut(s)	433
PfeI	GAWTC	1 cut(s)	322
PkrI	GCNGC	1 cut(s)	182
PpuMI	RGGWCCY	1 cut(s)	83
Psp124BI	GAGCTC	1 cut(s)	232
Psp5II	RGGWCCY	1 cut(s)	83
Psp6I	CCWGG	1 cut(s)	130
PspGI	CCWGG	1 cut(s)	130
PspN4I	GGNNCC	2 cut(s)	84, 85
PspPI	GGNCC	7 cut(s)	83, 92, 194, 220, 244, 281, 335
PspPPI	RGGWCCY	1 cut(s)	83
PstI	CTGCAG	1 cut(s)	280
PstNI	CAGNNNCTG	1 cut(s)	23
RseI	CAYNNNNRTG	1 cut(s)	255
SacI	GAGCTC	1 cut(s)	232
SapI	GCTCTTC	1 cut(s)	72
SaqAI	TTAA	1 cut(s)	478
SatI	GCNGC	1 cut(s)	181
Sau3AI	GATC	1 cut(s)	385
Sau96I	GGNCC	7 cut(s)	83, 92, 194, 220, 244, 281, 335
ScrFI	CCNGG	1 cut(s)	132
SduI	GDGCHC	2 cut(s)	50, 232
SetI	ASST	7 cut(s)	173, 199, 232, 273, 303, 340, 400
SfaNI	GCATC	1 cut(s)	437
SfcI	CTRYAG	1 cut(s)	276
SgrAI	CRCCGGYG	1 cut(s)	254
SinI	GGWCC	4 cut(s)	83, 194, 244, 335
SmiMI	CAYNNNNRTG	1 cut(s)	255
SphI	GCATGC	1 cut(s)	374
Sse9I	AATT	4 cut(s)	71, 114, 184, 456
SsiI	CCGC	5 cut(s)	33, 333, 359, 431, 450
SstI	GAGCTC	1 cut(s)	232
StyD4I	CCNGG	1 cut(s)	130
StyI	CCWWGG	2 cut(s)	88, 223
TaaI	ACNGT	1 cut(s)	248
TaiI	ACGT	1 cut(s)	273
TasI	AATT	4 cut(s)	71, 114, 184, 456
TfiI	GAWTC	1 cut(s)	322
Tru1I	TTAA	1 cut(s)	478
Tru9I	TTAA	1 cut(s)	478
TscAI	CASTG	5 cut(s)	13, 24, 196, 216, 280
TseFI	GTSAC	2 cut(s)	248, 271
TseI	GCWGC	1 cut(s)	180
Tsp45I	GTSAC	2 cut(s)	248, 271
TspDTI	ATGAA	2 cut(s)	128, 420
TspRI	CASTG	5 cut(s)	13, 24, 196, 216, 280
VpaK11BI	GGWCC	4 cut(s)	83, 194, 244, 335
XceI	RCATGY	1 cut(s)	374

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