Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1D

Orthogroup ID

OG0004674

Physical Location & Seq

Genomic Coordinates Forward (+)

60137251 .. 60138549

Gene Structure 1299 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1DG379500.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 627 bp

ATGGTAATATTAGCAGTACTAGCAGCAGCTACAACACCACCACCTTTCGCTGCGCCCAATTCGCTAACTTCCGCACTGGGCCCACCATGGAAAGGCCTCACTGGAAGTCTGGGATCACCTTCAAGCTTGCAATGGCCAAAGAAACAGAGACAATGCAAAAGAAAAGGTGGTTCAAGTAGTATCTGTGCCAAATTTGAGCTGAAGCCTCCTCCATATCCACTGGATGCGCTGGAGCCGCATATGAGCAAGGAGACTCTGGAGTATCACTGGGGGAAGCACCATAGGGGTTATGTGGATAACCTAAACAAGCAAATCGAAGGAACCGAGCTAGATGAATTGTCGTTGGAAGATATTATACTTGCTACACACAACAACGGAGATTTGCTTCCACCTTTCAACAATGCTGCACAGATCTGGAACCATGACTTCTTCTGGGAGTCCATGAAACCAGGTGGTGGAGGAAGGCCATCCGGGGAACTTCTAGAACTAATTAATAGAGATTTTGGTTCTTTTGAGAGATTCATTGATGATATAAGGTTGGCTGCGGCTACACAGTTTGGTTCTGGTTGGGCTTGGCTTGCATGTGGGTTTGCCTTCGGATTGGCATGTCTTATTCTTTGCCTTTAA

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:0009314 GO:0009411 GO:0009416 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009579 GO:0009628 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

208

Amino Acids

22.79

Weight (kDa)

6.06

Isoelectric Point (pI)

48.5

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	64 - 149	1.3e-25	Iron/manganese superoxide dismutases, alpha-hairpin domain
Sod_Fe_C	PF02777	156 - 195	1.1e-08	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

Style Settings

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0004674)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G00651 AT4G25100 AT4G25100 AT4G25100 AT4G25100 AT4G25100 AT5G51100 AT5G51100 AT5G51100 AT5G51100 AT5G51100 AT5G51100
fragaria_vesca	FvH4_7g26501 FvH4_7g26501
malus_domestica	MD01G1173700.v1.1 MD07G1240700.v1.1
prunus_persica	Prupe.2G269400_v2.0.a1 Prupe.2G269400_v2.0.a1
pyrus_communis	pycom01g18560 pycom07g21700
rosa_chinensis	RchiOBHm_Chr1g0373101
rosa_laevigata	RLG00000026848
rosa_multiflora	Rmu_sc0002004.1_g000002
rosa_roxburghii	Rroxscaffold_4G00284450
rosa_rugosa	Rorug01G0376300 Rorug04G0079400
rosa_samantha	Rh1AG384700 Rh1BG348600 Rh1CG362000 Rh1DG379500
rosa_wichuraiana	Rw1G033930

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	455
AciI	CCGC	3 cut(s)	72, 236, 545
AclWI	GGATC	1 cut(s)	121
AcoI	YGGCCR	1 cut(s)	134
AcsI	RAATTY	1 cut(s)	191
AcuI	CTGAAG	1 cut(s)	221
AfaI	GTAC	1 cut(s)	18
AfiI	CCNNNNNNNGG	2 cut(s)	92, 455
AgsI	TTSAA	3 cut(s)	123, 174, 397
AjnI	CCWGG	1 cut(s)	448
AluBI	AGCT	4 cut(s)	29, 126, 199, 328
AluI	AGCT	4 cut(s)	29, 126, 199, 328
Alw26I	GTCTC	2 cut(s)	142, 245
AlwI	GGATC	1 cut(s)	121
AoxI	GGCC	4 cut(s)	79, 94, 134, 464
ApaI	GGGCCC	1 cut(s)	83
ApeKI	GCWGC	5 cut(s)	23, 26, 50, 404, 542
ApoI	RAATTY	1 cut(s)	191
AseI	ATTAAT	1 cut(s)	492
AspLEI	GCGC	2 cut(s)	55, 229
AspS9I	GGNCC	2 cut(s)	79, 80
AsuC2I	CCSGG	1 cut(s)	472
AsuHPI	GGTGA	1 cut(s)	108
BaeGI	GKGCMC	1 cut(s)	83
BalI	TGGCCA	1 cut(s)	136
BanII	GRGCYC	1 cut(s)	83
BarI	GAAGNNNNNNTAC	2 cut(s)	339, 371
BbvI	GCAGC	5 cut(s)	35, 37, 38, 391, 529
BccI	CCATC	1 cut(s)	475
BciT130I	CCWGG	1 cut(s)	450
BcnI	CCSGG	1 cut(s)	472
BcoDI	GTCTC	2 cut(s)	142, 245
BfaI	CTAG	3 cut(s)	20, 329, 482
BglII	AGATCT	1 cut(s)	411
BisI	GCNGC	7 cut(s)	24, 27, 51, 236, 405, 543, 546
BlsI	GCNGC	7 cut(s)	25, 28, 52, 237, 406, 544, 547
BmcAI	AGTACT	1 cut(s)	18
Bme1390I	CCNGG	2 cut(s)	450, 472
BmgT120I	GGNCC	2 cut(s)	79, 80
BmiI	GGNNCC	4 cut(s)	81, 234, 322, 419
BmrFI	CCNGG	2 cut(s)	450, 472
BmrI	ACTGGG	2 cut(s)	86, 277
BmsI	GCATC	1 cut(s)	214
BmuI	ACTGGG	2 cut(s)	86, 277
BpmI	CTGGAG	2 cut(s)	251, 278
BpuMI	CCSGG	1 cut(s)	472
BsaJI	CCNNGG	2 cut(s)	86, 471
Bsc4I	CCNNNNNNNGG	2 cut(s)	92, 455
Bse1I	ACTGG	4 cut(s)	81, 106, 225, 272
Bse3DI	GCAATG	1 cut(s)	137
BseBI	CCWGG	1 cut(s)	450
BseDI	CCNNGG	2 cut(s)	86, 471
BseGI	GGATG	2 cut(s)	229, 467
BseLI	CCNNNNNNNGG	2 cut(s)	92, 455
BseMI	GCAATG	1 cut(s)	137
BseNI	ACTGG	4 cut(s)	81, 106, 225, 272
BseRI	GAGGAG	1 cut(s)	198
BseSI	GKGCMC	1 cut(s)	83
BseXI	GCAGC	5 cut(s)	35, 37, 38, 391, 529
BsgI	GTGCAG	1 cut(s)	390
BshFI	GGCC	4 cut(s)	81, 96, 136, 466
BsiSI	CCGG	1 cut(s)	471
BslI	CCNNNNNNNGG	2 cut(s)	92, 455
BsmAI	GTCTC	2 cut(s)	142, 245
BsnI	GGCC	4 cut(s)	81, 96, 136, 466
Bsp120I	GGGCCC	1 cut(s)	79
Bsp1286I	GDGCHC	1 cut(s)	83
Bsp143I	GATC	2 cut(s)	113, 411
Bsp19I	CCATGG	1 cut(s)	86
BspACI	CCGC	3 cut(s)	72, 236, 545
BspANI	GGCC	4 cut(s)	81, 96, 136, 466
BspLI	GGNNCC	4 cut(s)	81, 234, 322, 419
BspPI	GGATC	1 cut(s)	121
BsrDI	GCAATG	1 cut(s)	137
BsrI	ACTGG	4 cut(s)	81, 106, 225, 272
BssECI	CCNNGG	2 cut(s)	86, 471
BssMI	GATC	2 cut(s)	113, 411
BssT1I	CCWWGG	1 cut(s)	86
Bst2UI	CCWGG	1 cut(s)	450
Bst4CI	ACNGT	1 cut(s)	555
BstC8I	GCNNGC	2 cut(s)	128, 579
BstDSI	CCRYGG	1 cut(s)	86
BstF5I	GGATG	2 cut(s)	229, 467
BstHHI	GCGC	2 cut(s)	55, 229
BstKTI	GATC	2 cut(s)	116, 414
BstMAI	GTCTC	2 cut(s)	142, 245
BstMBI	GATC	2 cut(s)	113, 411
BstMWI	GCNNNNNNNGC	4 cut(s)	20, 61, 235, 578
BstNI	CCWGG	1 cut(s)	450
BstNSI	RCATGY	2 cut(s)	585, 609
BstSCI	CCNGG	2 cut(s)	448, 470
BstSLI	GKGCMC	1 cut(s)	83
BstV1I	GCAGC	5 cut(s)	35, 37, 38, 391, 529
BstX2I	RGATCY	1 cut(s)	411
BstYI	RGATCY	1 cut(s)	411
BsuRI	GGCC	4 cut(s)	81, 96, 136, 466
BtgI	CCRYGG	1 cut(s)	86
BtsCI	GGATG	2 cut(s)	229, 467
BtsIMutI	CAGTG	4 cut(s)	74, 99, 218, 265
Cac8I	GCNNGC	2 cut(s)	128, 579
CfoI	GCGC	2 cut(s)	55, 229
Cfr13I	GGNCC	2 cut(s)	79, 80
CsiI	ACCWGGT	1 cut(s)	448
Csp6I	GTAC	1 cut(s)	17
CviAII	CATG	5 cut(s)	87, 422, 442, 582, 606
CviQI	GTAC	1 cut(s)	17
DpnI	GATC	2 cut(s)	115, 413
DpnII	GATC	2 cut(s)	113, 411
EaeI	YGGCCR	1 cut(s)	134
Eco130I	CCWWGG	1 cut(s)	86
Eco147I	AGGCCT	1 cut(s)	96
Eco24I	GRGCYC	1 cut(s)	83
Eco57I	CTGAAG	1 cut(s)	221
EcoRII	CCWGG	1 cut(s)	448
EcoT14I	CCWWGG	1 cut(s)	86
EcoT38I	GRGCYC	1 cut(s)	83
ErhI	CCWWGG	1 cut(s)	86
FaeI	CATG	5 cut(s)	90, 425, 445, 585, 609
FatI	CATG	5 cut(s)	86, 421, 441, 581, 605
FauNDI	CATATG	1 cut(s)	240
Fnu4HI	GCNGC	7 cut(s)	24, 27, 51, 236, 405, 543, 546
FokI	GGATG	2 cut(s)	236, 454
FriOI	GRGCYC	1 cut(s)	83
Fsp4HI	GCNGC	7 cut(s)	24, 27, 51, 236, 405, 543, 546
FspBI	CTAG	3 cut(s)	20, 329, 482
GlaI	GCGC	2 cut(s)	54, 228
GluI	GCNGC	7 cut(s)	24, 27, 51, 236, 405, 543, 546
GsuI	CTGGAG	2 cut(s)	251, 278
HaeIII	GGCC	4 cut(s)	81, 96, 136, 466
HapII	CCGG	1 cut(s)	471
HhaI	GCGC	2 cut(s)	55, 229
Hin1II	CATG	5 cut(s)	90, 425, 445, 585, 609
Hin6I	GCGC	2 cut(s)	53, 227
HinP1I	GCGC	2 cut(s)	53, 227
HindIII	AAGCTT	1 cut(s)	124
HinfI	GANTC	3 cut(s)	253, 437, 519
HpaII	CCGG	1 cut(s)	471
HphI	GGTGA	1 cut(s)	108
Hpy188I	TCNGA	1 cut(s)	599
Hpy188III	TCNNGA	3 cut(s)	257, 415, 482
HpyAV	CCTTC	4 cut(s)	129, 311, 456, 604
HpyCH4III	ACNGT	1 cut(s)	555
HpyCH4V	TGCA	4 cut(s)	130, 156, 407, 581
HpyF10VI	GCNNNNNNNGC	4 cut(s)	20, 61, 235, 578
Hsp92II	CATG	5 cut(s)	90, 425, 445, 585, 609
HspAI	GCGC	2 cut(s)	53, 227
Kzo9I	GATC	2 cut(s)	113, 411
LmnI	GCTCC	1 cut(s)	232
Lsp1109I	GCAGC	5 cut(s)	35, 37, 38, 391, 529
LweI	GCATC	1 cut(s)	214
MabI	ACCWGGT	1 cut(s)	448
MaeI	CTAG	3 cut(s)	20, 329, 482
MalI	GATC	2 cut(s)	115, 413
MboI	GATC	2 cut(s)	113, 411
MboII	GAAGA	2 cut(s)	359, 421
MflI	RGATCY	1 cut(s)	411
MhlI	GDGCHC	1 cut(s)	83
MlsI	TGGCCA	1 cut(s)	136
MluCI	AATT	4 cut(s)	58, 191, 335, 489
MluNI	TGGCCA	1 cut(s)	136
MlyI	GAGTC	2 cut(s)	247, 446
MmeI	TCCRAC	1 cut(s)	324
MnlI	CCTC	4 cut(s)	107, 216, 219, 452
Mox20I	TGGCCA	1 cut(s)	136
MscI	TGGCCA	1 cut(s)	136
MseI	TTAA	2 cut(s)	492, 625
Msp20I	TGGCCA	1 cut(s)	136
MspI	CCGG	1 cut(s)	471
MspR9I	CCNGG	2 cut(s)	450, 472
MvaI	CCWGG	1 cut(s)	450
MwoI	GCNNNNNNNGC	4 cut(s)	20, 61, 235, 578
NciI	CCSGG	1 cut(s)	472
NcoI	CCATGG	1 cut(s)	86
NdeI	CATATG	1 cut(s)	240
NdeII	GATC	2 cut(s)	113, 411
NlaIII	CATG	5 cut(s)	90, 425, 445, 585, 609
NlaIV	GGNNCC	4 cut(s)	81, 234, 322, 419
NspI	RCATGY	2 cut(s)	585, 609
PceI	AGGCCT	1 cut(s)	96
PcsI	WCGNNNNNNNCGW	1 cut(s)	321
PfeI	GAWTC	1 cut(s)	519
PflMI	CCANNNNNTGG	1 cut(s)	455
PkrI	GCNGC	7 cut(s)	25, 28, 52, 237, 406, 544, 547
PleI	GAGTC	2 cut(s)	247, 445
PpsI	GAGTC	2 cut(s)	247, 445
PshBI	ATTAAT	1 cut(s)	492
Psp6I	CCWGG	1 cut(s)	448
PspGI	CCWGG	1 cut(s)	448
PspN4I	GGNNCC	4 cut(s)	81, 234, 322, 419
PspOMI	GGGCCC	1 cut(s)	79
PspPI	GGNCC	2 cut(s)	79, 80
PsuI	RGATCY	1 cut(s)	411
RsaI	GTAC	1 cut(s)	18
RsaNI	GTAC	1 cut(s)	17
SaqAI	TTAA	2 cut(s)	492, 625
SatI	GCNGC	7 cut(s)	24, 27, 51, 236, 405, 543, 546
Sau3AI	GATC	2 cut(s)	113, 411
Sau96I	GGNCC	2 cut(s)	79, 80
ScaI	AGTACT	1 cut(s)	18
SchI	GAGTC	2 cut(s)	247, 446
ScrFI	CCNGG	2 cut(s)	450, 472
SduI	GDGCHC	1 cut(s)	83
SexAI	ACCWGGT	1 cut(s)	448
SfaNI	GCATC	1 cut(s)	214
Sse9I	AATT	4 cut(s)	58, 191, 335, 489
SseBI	AGGCCT	1 cut(s)	96
SsiI	CCGC	3 cut(s)	72, 236, 545
SspI	AATATT	1 cut(s)	9
SspMI	CTAG	3 cut(s)	20, 329, 482
StuI	AGGCCT	1 cut(s)	96
StyD4I	CCNGG	2 cut(s)	448, 470
StyI	CCWWGG	1 cut(s)	86
TaaI	ACNGT	1 cut(s)	555
TaqI	TCGA	1 cut(s)	315
TasI	AATT	4 cut(s)	58, 191, 335, 489
TatI	WGTACW	1 cut(s)	16
TauI	GCSGC	2 cut(s)	238, 548
TfiI	GAWTC	1 cut(s)	519
Tru1I	TTAA	2 cut(s)	492, 625
Tru9I	TTAA	2 cut(s)	492, 625
TscAI	CASTG	4 cut(s)	81, 106, 225, 272
TseI	GCWGC	5 cut(s)	23, 26, 50, 404, 542
TspDTI	ATGAA	3 cut(s)	348, 458, 511
TspGWI	ACGGA	1 cut(s)	390
TspRI	CASTG	4 cut(s)	81, 106, 225, 272
Van91I	CCANNNNNTGG	1 cut(s)	455
VspI	ATTAAT	1 cut(s)	492
XapI	RAATTY	1 cut(s)	191
XbaI	TCTAGA	1 cut(s)	481
XceI	RCATGY	2 cut(s)	585, 609
XspI	CTAG	3 cut(s)	20, 329, 482
ZrmI	AGTACT	1 cut(s)	18

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