Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3B

Orthogroup ID

OG0012754

Physical Location & Seq

Genomic Coordinates Forward (+)

46139713 .. 46142933

Gene Structure 3221 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3BG368900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 411 bp

ATGGGCAGTGTGAAAGCAGTGGCTGTCATCAGCGGGGGAGATAAGTGCCCCCTGCTCAGAGGCGCTCTTCAATTCGTGCAGGGCCCCCAAGGGCCTACCCATGTTAGAGGAAAAATTAGTGGCCTCTCTCCGGGCCTTCATGGCTTCCATATTCACGCTCTTGGTGATACCTCCAACGGCTGCAATTCCACTGGTTCCATCTCTCTCTCTCTCTCTCTCAATTGTTTTTCTATTTTTTCGATCGTTTCTTCAATTTTGAATTCTGCTTTGTCAGGACCTCACTTCAATCCACTGAACAAGGCCCATGGAGCTCCTTCAGACAAGGACCGTCACGCCGGTGATTTGGGTAACGTCACTGCAGGCCCAGATGGTATGCAAATCATTTTCTATCTACTACTATGTAGCTACTAG

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

136

Amino Acids

13.97

Weight (kDa)

8.44

Isoelectric Point (pI)

20.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Cu	PF00080	20 - 125	2.7e-22	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	1 cut(s)	33
AcsI	RAATTY	1 cut(s)	259
AcuI	CTGAAG	1 cut(s)	300
AfiI	CCNNNNNNNGG	1 cut(s)	130
AgsI	TTSAA	4 cut(s)	71, 252, 259, 286
AleI	CACNNNNGTG	1 cut(s)	336
AluBI	AGCT	2 cut(s)	311, 405
AluI	AGCT	2 cut(s)	311, 405
Alw21I	GWGCWC	1 cut(s)	313
AlwNI	CAGNNNCTG	1 cut(s)	23
AoxI	GGCC	6 cut(s)	82, 92, 121, 133, 300, 361
ApaI	GGGCCC	1 cut(s)	86
ApeKI	GCWGC	1 cut(s)	180
ApoI	RAATTY	1 cut(s)	259
AspLEI	GCGC	1 cut(s)	65
AspS9I	GGNCC	8 cut(s)	82, 83, 92, 133, 275, 301, 325, 362
AsuC2I	CCSGG	1 cut(s)	132
AsuHPI	GGTGA	2 cut(s)	176, 350
AvaII	GGWCC	2 cut(s)	275, 325
BaeGI	GKGCMC	2 cut(s)	50, 86
BanII	GRGCYC	2 cut(s)	86, 313
Bbv12I	GWGCWC	1 cut(s)	313
BbvI	GCAGC	1 cut(s)	167
BccI	CCATC	2 cut(s)	206, 362
BceAI	ACGGC	1 cut(s)	193
BcnI	CCSGG	1 cut(s)	132
BfaI	CTAG	1 cut(s)	409
BfmI	CTRYAG	1 cut(s)	357
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	2 cut(s)	275, 325
BmgT120I	GGNCC	8 cut(s)	82, 83, 92, 133, 275, 301, 325, 362
BmiI	GGNNCC	3 cut(s)	84, 85, 196
BmrFI	CCNGG	1 cut(s)	132
BpuMI	CCSGG	1 cut(s)	132
BsaJI	CCNNGG	2 cut(s)	88, 304
Bsc4I	CCNNNNNNNGG	1 cut(s)	130
Bse118I	RCCGGY	1 cut(s)	335
Bse1I	ACTGG	1 cut(s)	196
BseDI	CCNNGG	2 cut(s)	88, 304
BseLI	CCNNNNNNNGG	1 cut(s)	130
BseMII	CTCAG	1 cut(s)	70
BseNI	ACTGG	1 cut(s)	196
BseSI	GKGCMC	2 cut(s)	50, 86
BseXI	GCAGC	1 cut(s)	167
BsgI	GTGCAG	1 cut(s)	98
Bsh1285I	CGRYCG	1 cut(s)	243
BshFI	GGCC	6 cut(s)	84, 94, 123, 135, 302, 363
BsiEI	CGRYCG	1 cut(s)	243
BsiHKAI	GWGCWC	1 cut(s)	313
BsiSI	CCGG	2 cut(s)	131, 336
BslI	CCNNNNNNNGG	1 cut(s)	130
BsnI	GGCC	6 cut(s)	84, 94, 123, 135, 302, 363
Bsp120I	GGGCCC	1 cut(s)	82
Bsp1286I	GDGCHC	3 cut(s)	50, 86, 313
Bsp143I	GATC	1 cut(s)	240
Bsp19I	CCATGG	1 cut(s)	304
BspACI	CCGC	1 cut(s)	33
BspANI	GGCC	6 cut(s)	84, 94, 123, 135, 302, 363
BspCNI	CTCAG	1 cut(s)	69
BspLI	GGNNCC	3 cut(s)	84, 85, 196
BspMAI	CTGCAG	1 cut(s)	361
BspQI	GCTCTTC	1 cut(s)	72
BsrFI	RCCGGY	1 cut(s)	335
BsrI	ACTGG	1 cut(s)	196
BssAI	RCCGGY	1 cut(s)	335
BssECI	CCNNGG	2 cut(s)	88, 304
BssMI	GATC	1 cut(s)	240
BssT1I	CCWWGG	2 cut(s)	88, 304
Bst4CI	ACNGT	1 cut(s)	329
Bst6I	CTCTTC	1 cut(s)	72
BstC8I	GCNNGC	1 cut(s)	361
BstDEI	CTNAG	1 cut(s)	56
BstDSI	CCRYGG	1 cut(s)	304
BstH2I	RGCGCY	1 cut(s)	66
BstHHI	GCGC	1 cut(s)	65
BstKTI	GATC	1 cut(s)	243
BstMBI	GATC	1 cut(s)	240
BstMCI	CGRYCG	1 cut(s)	243
BstMWI	GCNNNNNNNGC	2 cut(s)	141, 308
BstSCI	CCNGG	1 cut(s)	130
BstSFI	CTRYAG	1 cut(s)	357
BstSLI	GKGCMC	2 cut(s)	50, 86
BstV1I	GCAGC	1 cut(s)	167
BsuRI	GGCC	6 cut(s)	84, 94, 123, 135, 302, 363
BtgI	CCRYGG	1 cut(s)	304
BtsI	GCAGTG	3 cut(s)	13, 24, 354
BtsIMutI	CAGTG	5 cut(s)	13, 24, 189, 290, 354
Cac8I	GCNNGC	1 cut(s)	361
CaiI	CAGNNNCTG	1 cut(s)	23
CfoI	GCGC	1 cut(s)	65
Cfr10I	RCCGGY	1 cut(s)	335
Cfr13I	GGNCC	8 cut(s)	82, 83, 92, 133, 275, 301, 325, 362
CviAII	CATG	3 cut(s)	101, 140, 305
DdeI	CTNAG	1 cut(s)	56
DpnI	GATC	1 cut(s)	242
DpnII	GATC	1 cut(s)	240
Eam1104I	CTCTTC	1 cut(s)	72
EarI	CTCTTC	1 cut(s)	72
Ecl136II	GAGCTC	1 cut(s)	311
Eco130I	CCWWGG	2 cut(s)	88, 304
Eco24I	GRGCYC	2 cut(s)	86, 313
Eco47I	GGWCC	2 cut(s)	275, 325
Eco53kI	GAGCTC	1 cut(s)	311
Eco57I	CTGAAG	1 cut(s)	300
EcoICRI	GAGCTC	1 cut(s)	311
EcoO109I	RGGNCCY	4 cut(s)	82, 83, 92, 275
EcoRI	GAATTC	1 cut(s)	259
EcoT14I	CCWWGG	2 cut(s)	88, 304
EcoT38I	GRGCYC	2 cut(s)	86, 313
ErhI	CCWWGG	2 cut(s)	88, 304
FaeI	CATG	3 cut(s)	104, 143, 308
FaiI	YATR	6 cut(s)	102, 141, 150, 306, 374, 400
FatI	CATG	3 cut(s)	100, 139, 304
FauI	CCCGC	1 cut(s)	26
Fnu4HI	GCNGC	1 cut(s)	181
FriOI	GRGCYC	2 cut(s)	86, 313
Fsp4HI	GCNGC	1 cut(s)	181
FspBI	CTAG	1 cut(s)	409
GlaI	GCGC	1 cut(s)	64
GluI	GCNGC	1 cut(s)	181
HaeII	RGCGCY	1 cut(s)	66
HaeIII	GGCC	6 cut(s)	84, 94, 123, 135, 302, 363
HapII	CCGG	2 cut(s)	131, 336
HhaI	GCGC	1 cut(s)	65
Hin1II	CATG	3 cut(s)	104, 143, 308
Hin6I	GCGC	1 cut(s)	63
HinP1I	GCGC	1 cut(s)	63
HpaII	CCGG	2 cut(s)	131, 336
HphI	GGTGA	2 cut(s)	176, 350
Hpy188I	TCNGA	2 cut(s)	59, 319
Hpy188III	TCNNGA	1 cut(s)	273
HpyAV	CCTTC	2 cut(s)	146, 324
HpyCH4III	ACNGT	1 cut(s)	329
HpyCH4IV	ACGT	1 cut(s)	351
HpyCH4V	TGCA	4 cut(s)	79, 183, 359, 376
HpyF10VI	GCNNNNNNNGC	2 cut(s)	141, 308
HpyF3I	CTNAG	1 cut(s)	56
HpySE526I	ACGT	1 cut(s)	351
Hsp92II	CATG	3 cut(s)	104, 143, 308
HspAI	GCGC	1 cut(s)	63
Kzo9I	GATC	1 cut(s)	240
LguI	GCTCTTC	1 cut(s)	72
LmnI	GCTCC	2 cut(s)	308, 316
LpnPI	CCDG	8 cut(s)	65, 65, 144, 177, 258, 345, 349, 378
Lsp1109I	GCAGC	1 cut(s)	167
MaeI	CTAG	1 cut(s)	409
MaeII	ACGT	1 cut(s)	351
MaeIII	GTNAC	3 cut(s)	329, 347, 352
MalI	GATC	1 cut(s)	242
MboI	GATC	1 cut(s)	240
MboII	GAAGA	2 cut(s)	59, 240
MfeI	CAATTG	1 cut(s)	220
MhlI	GDGCHC	3 cut(s)	50, 86, 313
MluCI	AATT	6 cut(s)	71, 114, 184, 220, 252, 259
MmeI	TCCRAC	1 cut(s)	198
MnlI	CCTC	5 cut(s)	53, 101, 134, 181, 288
MslI	CAYNNNNRTG	1 cut(s)	336
MspA1I	CMGCKG	1 cut(s)	33
MspI	CCGG	2 cut(s)	131, 336
MspR9I	CCNGG	1 cut(s)	132
MunI	CAATTG	1 cut(s)	220
MwoI	GCNNNNNNNGC	2 cut(s)	141, 308
NciI	CCSGG	1 cut(s)	132
NcoI	CCATGG	1 cut(s)	304
NdeII	GATC	1 cut(s)	240
NlaIII	CATG	3 cut(s)	104, 143, 308
NlaIV	GGNNCC	3 cut(s)	84, 85, 196
NmuCI	GTSAC	2 cut(s)	329, 352
OliI	CACNNNNGTG	1 cut(s)	336
PciSI	GCTCTTC	1 cut(s)	72
PkrI	GCNGC	1 cut(s)	182
Ple19I	CGATCG	1 cut(s)	243
PpuMI	RGGWCCY	1 cut(s)	275
Psp124BI	GAGCTC	1 cut(s)	313
Psp5II	RGGWCCY	1 cut(s)	275
PspN4I	GGNNCC	3 cut(s)	84, 85, 196
PspOMI	GGGCCC	1 cut(s)	82
PspPI	GGNCC	8 cut(s)	82, 83, 92, 133, 275, 301, 325, 362
PspPPI	RGGWCCY	1 cut(s)	275
PstI	CTGCAG	1 cut(s)	361
PstNI	CAGNNNCTG	1 cut(s)	23
PvuI	CGATCG	1 cut(s)	243
RseI	CAYNNNNRTG	1 cut(s)	336
SacI	GAGCTC	1 cut(s)	313
SapI	GCTCTTC	1 cut(s)	72
SatI	GCNGC	1 cut(s)	181
Sau3AI	GATC	1 cut(s)	240
Sau96I	GGNCC	8 cut(s)	82, 83, 92, 133, 275, 301, 325, 362
ScrFI	CCNGG	1 cut(s)	132
SduI	GDGCHC	3 cut(s)	50, 86, 313
SetI	ASST	5 cut(s)	173, 280, 313, 354, 407
SfcI	CTRYAG	1 cut(s)	357
SgrAI	CRCCGGYG	1 cut(s)	335
SinI	GGWCC	2 cut(s)	275, 325
SmiMI	CAYNNNNRTG	1 cut(s)	336
Sse9I	AATT	6 cut(s)	71, 114, 184, 220, 252, 259
SsiI	CCGC	1 cut(s)	33
SspMI	CTAG	1 cut(s)	409
SstI	GAGCTC	1 cut(s)	313
StyD4I	CCNGG	1 cut(s)	130
StyI	CCWWGG	2 cut(s)	88, 304
TaaI	ACNGT	1 cut(s)	329
TaiI	ACGT	1 cut(s)	354
TaqI	TCGA	1 cut(s)	239
TasI	AATT	6 cut(s)	71, 114, 184, 220, 252, 259
TscAI	CASTG	5 cut(s)	13, 24, 196, 297, 361
TseFI	GTSAC	2 cut(s)	329, 352
TseI	GCWGC	1 cut(s)	180
Tsp45I	GTSAC	2 cut(s)	329, 352
TspDTI	ATGAA	1 cut(s)	128
TspRI	CASTG	5 cut(s)	13, 24, 196, 297, 361
VpaK11BI	GGWCC	2 cut(s)	275, 325
XapI	RAATTY	1 cut(s)	259
XspI	CTAG	1 cut(s)	409

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