Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr1

Orthogroup ID

OG0004933

Physical Location & Seq

Genomic Coordinates Forward (+)

4426280 .. 4443515

Gene Structure 17236 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw1G002410.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 579 bp

ATGTTGATTATAATACATTTCGAGATCGGATGTAAGCAGGAAAAAAGATGGGCTGATGGGACACAGAGAGCTTCTAAAGTTGTTGCATACTATGGCTTGAAGGAACCACCTTATAAACTTGATGCTTTGGAACCCTATATGAGTCAGAGGACATTGGAGGTTCATTGGGGAGGCCATCATCGTAACTACTTGGAAGGTTTGAAAAAAACAGCTAGAGAAGATGAAAAAGGCTGGAGGGAACCCGTCGGGCCTGATAACAGGTCCGCCCCTGATAATGGGAATCCCTTAACTGAATTTAACAACGCTGCTCAGGAATCCATGCAACCTGGAGGATTGGACATGCCCAAACTAGGTGCAATTGAGCAGATTGAAAAGGATTTTGGTTCCTATACAAGTTTCAGAGAGAACTTTATAGAAGCAGCACTAACTTTGCTTGGCTGGTTTGTAAGAGAAGAGAGACAACTCAAGATAGTTAGAACTTCAAATCTGATAATCTGTTTGGATATGTGGGAGTATGCTTATTATCTGGATCGCAAGAATGACAGAGGAAAGATTGTGGTTTTATTTCTCTGTTTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000302 GO:0000303 GO:0000305 GO:0003674 GO:0003824 GO:0004784 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006801 GO:0006950 GO:0006979 GO:0008150 GO:0008152 GO:0009295 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009579 GO:0009636 GO:0009987 GO:0010035 GO:0016209 GO:0016491 GO:0016721 GO:0019430 GO:0033554 GO:0034599 GO:0034614 GO:0042221 GO:0042644 GO:0042646 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0044237 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051716 GO:0055114 GO:0070887 GO:0071450 GO:0071451 GO:0072593 GO:0097237 GO:0098754 GO:0098869 GO:1901700 GO:1901701 GO:1990748

KEGG Pathways

Metabolic & Signaling

ko04013 ko04068 ko04146 ko04211 ko04212 ko04213 ko05016 map04013 map04068 map04146 map04211 map04212 map04213 map05016

Pfam Domains

Protein Families

Sod_Fe_C Sod_Fe_N

Protein Analysis

192

Amino Acids

22.26

Weight (kDa)

6.13

Isoelectric Point (pI)

42.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	31 - 74	5.6e-10	Iron/manganese superoxide dismutases, alpha-hairpin domain
Sod_Fe_C	PF02777	121 - 186	2.3e-09	Iron/manganese superoxide dismutases, C-terminal domain

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)

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Publication-ready

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Orthologous Genes (Group: OG0004933)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G08335 AT5G08335 AT5G23320 AT5G23320
malus_domestica	MD11G1238800.v1.1 MD13G1003500.v1.1 MD16G1003900.v1.1
prunus_persica	Prupe.1G348900_v2.0.a1 Prupe.1G348900_v2.0.a1
pyrus_communis	pycom13g00300 pycom16g00210
rosa_chinensis	RchiOBHm_Chr1g0318061 RchiOBHm_Chr1g0318091 RchiOBHm_Chr1g0318101 RchiOBHm_Chr4g0446911
rosa_laevigata	RLG00000005622 RLG00000030561 RLG00000030567
rosa_multiflora	Rmu_sc0001753.1_g000011 Rmu_sc0011424.1_g000010 Rmu_sc0011539.1_g000006
rosa_roxburghii	Rroxscaffold_4G00329550 Rroxscaffold_4G00329600
rosa_rugosa	Rorug04G0375900
rosa_samantha	Rh4AG437100 Rh4BG446300 Rh4CG463600 Rh4DG444900
rosa_wichuraiana	Rw1G002410 Rw4G037400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	3 cut(s)	11, 114, 577
AciI	CCGC	1 cut(s)	264
AclWI	GGATC	1 cut(s)	537
AcsI	RAATTY	1 cut(s)	293
AfiI	CCNNNNNNNGG	2 cut(s)	275, 350
AgsI	TTSAA	4 cut(s)	100, 202, 371, 483
AjnI	CCWGG	1 cut(s)	325
AjuI	GAANNNNNNNTTGG	2 cut(s)	363, 395
AluBI	AGCT	2 cut(s)	71, 212
AluI	AGCT	2 cut(s)	71, 212
Alw26I	GTCTC	1 cut(s)	451
AlwI	GGATC	1 cut(s)	537
AoxI	GGCC	2 cut(s)	172, 248
ApeKI	GCWGC	2 cut(s)	305, 419
ApoI	RAATTY	1 cut(s)	293
AspS9I	GGNCC	2 cut(s)	248, 261
AvaII	GGWCC	1 cut(s)	261
BbvI	GCAGC	2 cut(s)	292, 431
BccI	CCATC	3 cut(s)	42, 50, 183
BciT130I	CCWGG	1 cut(s)	327
BcoDI	GTCTC	1 cut(s)	451
BfaI	CTAG	2 cut(s)	213, 350
BisI	GCNGC	2 cut(s)	306, 420
BlsI	GCNGC	2 cut(s)	307, 421
Bme1390I	CCNGG	1 cut(s)	327
Bme18I	GGWCC	1 cut(s)	261
BmgT120I	GGNCC	2 cut(s)	248, 261
BmiI	GGNNCC	4 cut(s)	105, 132, 240, 385
BmrFI	CCNGG	1 cut(s)	327
BmsI	GCATC	1 cut(s)	112
BpmI	CTGGAG	2 cut(s)	253, 348
Bpu10I	CCTNAGC	1 cut(s)	309
BpuEI	CTTGAG	1 cut(s)	449
Bsc4I	CCNNNNNNNGG	2 cut(s)	275, 350
BseBI	CCWGG	1 cut(s)	327
BseGI	GGATG	1 cut(s)	35
BseLI	CCNNNNNNNGG	2 cut(s)	275, 350
BseMII	CTCAG	1 cut(s)	323
BseXI	GCAGC	2 cut(s)	292, 431
BshFI	GGCC	2 cut(s)	174, 250
BslFI	GGGAC	1 cut(s)	73
BslI	CCNNNNNNNGG	2 cut(s)	275, 350
BsmAI	GTCTC	1 cut(s)	451
BsmFI	GGGAC	1 cut(s)	73
BsnI	GGCC	2 cut(s)	174, 250
Bsp143I	GATC	2 cut(s)	24, 529
BspACI	CCGC	1 cut(s)	264
BspANI	GGCC	2 cut(s)	174, 250
BspCNI	CTCAG	1 cut(s)	322
BspLI	GGNNCC	4 cut(s)	105, 132, 240, 385
BspPI	GGATC	1 cut(s)	537
BssMI	GATC	2 cut(s)	24, 529
Bst2UI	CCWGG	1 cut(s)	327
Bst6I	CTCTTC	1 cut(s)	447
BstDEI	CTNAG	1 cut(s)	309
BstF5I	GGATG	1 cut(s)	35
BstKTI	GATC	2 cut(s)	27, 532
BstMAI	GTCTC	1 cut(s)	451
BstMBI	GATC	2 cut(s)	24, 529
BstNI	CCWGG	1 cut(s)	327
BstNSI	RCATGY	1 cut(s)	343
BstSCI	CCNGG	1 cut(s)	325
BstV1I	GCAGC	2 cut(s)	292, 431
BsuRI	GGCC	2 cut(s)	174, 250
BtsCI	GGATG	1 cut(s)	35
Cfr13I	GGNCC	2 cut(s)	248, 261
CviAII	CATG	2 cut(s)	319, 340
CviJI	RGCY	8 cut(s)	53, 71, 96, 174, 212, 231, 250, 438
CviKI_1	RGCY	8 cut(s)	53, 71, 96, 174, 212, 231, 250, 438
DdeI	CTNAG	1 cut(s)	309
DpnI	GATC	2 cut(s)	26, 531
DpnII	GATC	2 cut(s)	24, 529
Eam1104I	CTCTTC	1 cut(s)	447
EarI	CTCTTC	1 cut(s)	447
EciI	GGCGGA	1 cut(s)	253
Eco47I	GGWCC	1 cut(s)	261
EcoRII	CCWGG	1 cut(s)	325
FaeI	CATG	2 cut(s)	322, 343
FaqI	GGGAC	1 cut(s)	73
FatI	CATG	2 cut(s)	318, 339
Fnu4HI	GCNGC	2 cut(s)	306, 420
FokI	GGATG	1 cut(s)	42
Fsp4HI	GCNGC	2 cut(s)	306, 420
FspBI	CTAG	2 cut(s)	213, 350
GluI	GCNGC	2 cut(s)	306, 420
GsuI	CTGGAG	2 cut(s)	253, 348
HaeIII	GGCC	2 cut(s)	174, 250
Hin1II	CATG	2 cut(s)	322, 343
HinfI	GANTC	3 cut(s)	142, 280, 314
Hpy188I	TCNGA	4 cut(s)	29, 147, 401, 489
Hpy188III	TCNNGA	4 cut(s)	22, 311, 466, 527
Hpy99I	CGWCG	1 cut(s)	248
HpyAV	CCTTC	2 cut(s)	94, 188
HpyCH4V	TGCA	3 cut(s)	86, 322, 356
HpyF3I	CTNAG	1 cut(s)	309
Hsp92II	CATG	2 cut(s)	322, 343
Kzo9I	GATC	2 cut(s)	24, 529
Lsp1109I	GCAGC	2 cut(s)	292, 431
LweI	GCATC	1 cut(s)	112
MaeI	CTAG	2 cut(s)	213, 350
MaeIII	GTNAC	1 cut(s)	182
MalI	GATC	2 cut(s)	26, 531
MboI	GATC	2 cut(s)	24, 529
MboII	GAAGA	2 cut(s)	230, 464
MfeI	CAATTG	1 cut(s)	357
MluCI	AATT	2 cut(s)	293, 357
MlyI	GAGTC	1 cut(s)	151
MnlI	CCTC	6 cut(s)	141, 151, 164, 228, 323, 539
MseI	TTAA	2 cut(s)	287, 297
MspR9I	CCNGG	1 cut(s)	327
MunI	CAATTG	1 cut(s)	357
MvaI	CCWGG	1 cut(s)	327
NdeII	GATC	2 cut(s)	24, 529
NlaIII	CATG	2 cut(s)	322, 343
NlaIV	GGNNCC	4 cut(s)	105, 132, 240, 385
NspI	RCATGY	1 cut(s)	343
PfeI	GAWTC	2 cut(s)	280, 314
PkrI	GCNGC	2 cut(s)	307, 421
PleI	GAGTC	1 cut(s)	150
PpsI	GAGTC	1 cut(s)	150
PsiI	TTATAA	3 cut(s)	11, 114, 577
Psp6I	CCWGG	1 cut(s)	325
PspGI	CCWGG	1 cut(s)	325
PspN4I	GGNNCC	4 cut(s)	105, 132, 240, 385
PspPI	GGNCC	2 cut(s)	248, 261
SaqAI	TTAA	2 cut(s)	287, 297
SatI	GCNGC	2 cut(s)	306, 420
Sau3AI	GATC	2 cut(s)	24, 529
Sau96I	GGNCC	2 cut(s)	248, 261
SchI	GAGTC	1 cut(s)	151
ScrFI	CCNGG	1 cut(s)	327
SetI	ASST	8 cut(s)	73, 112, 162, 199, 214, 263, 328, 355
SfaNI	GCATC	1 cut(s)	112
SinI	GGWCC	1 cut(s)	261
SmlI	CTYRAG	1 cut(s)	464
SmoI	CTYRAG	1 cut(s)	464
Sse9I	AATT	2 cut(s)	293, 357
SsiI	CCGC	1 cut(s)	264
SspMI	CTAG	2 cut(s)	213, 350
StyD4I	CCNGG	1 cut(s)	325
TaqI	TCGA	1 cut(s)	21
TasI	AATT	2 cut(s)	293, 357
TfiI	GAWTC	2 cut(s)	280, 314
Tru1I	TTAA	2 cut(s)	287, 297
Tru9I	TTAA	2 cut(s)	287, 297
TseI	GCWGC	2 cut(s)	305, 419
TspDTI	ATGAA	2 cut(s)	152, 237
VpaK11BI	GGWCC	1 cut(s)	261
XapI	RAATTY	1 cut(s)	293
XceI	RCATGY	1 cut(s)	343
XspI	CTAG	2 cut(s)	213, 350

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