Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0004674

Physical Location & Seq

Genomic Coordinates Reverse (-)

6056788 .. 6058936

Gene Structure 2149 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00284450.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 966 bp

ATGGTAATACCAGCAGTACTAGCAACAACAACAACAACAACAACACCTTTCGCTGCGCCCAATTCGCTAACTTGCGCACTGGGCCCACCGTGGAAAGGCCTCACTGGAAGTCTGGGATCACCTTCAAGCTTGCTATGGCTAAAGAAACAGAGACAATGCAGAAGGAAAGGTGGTTCAAGTAGTATCTGTGCCAAATTTGAGCTGAAGCCTCCTCCGTATCCACTGGATGCGCTGGAGCCGCATATGAGCAAGGAGACTCTGGAGTATCACTGGGGGAAGCACCATAGGGGTTATGTGGATAACCTAAACAAGCAAATCGAAGGAACCAAGCTAGATGAATTGTCGTTGGAAGATATTATACTTGCTACACACAACAACGGAGATTTGCTTCCACCTTTCAACAATGCTGCACAGATCTGGAACCATGACTTCTTCTGGGAGTCCATGAAACCAAGTGGTGGAGGAAGGCCATCCGGGGAACTTCTAGAACTAATTAATAGAGATTTTGGTTCTTTTGAGAGATTCATTGATGATATAAGGTTGGCTGCGGCTACACAGTTTGGTTCTGGTTGGGCTTGGCTTGCATATAAAGCAAATAGACTTGATGTTGAAAATGCAGTAAATCCTAATCCAACGGACGAAGACAAAAGGCTTGTAGTGGTGAAGAGTCCTAATGCAGTAAACCCCCTTATATGGGATTATTCTCCGCTCCTTACCATCGATGTTTGGGAGCATGCTTACTACCTCGATGTTCAGAACCGGCGAGCTGATTACATATCAATCTTTTTGGAGAAACTTGTTTCATGGGAAGCAGTCAGTTCTAGACTTGAAATTGCAAAGGCTCGAGCGGTTGAAAGAGAGGAAGAAGAAGAAAGGAGGAAAAGAGAAGAAGAGGAGAAATCATCAGATGGCGAAGTTGCAGAGATTTATGTGGACAACAAGAGCGATGACTCGGAGGCTGAATGA

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

321

Amino Acids

36.27

Weight (kDa)

5.09

Isoelectric Point (pI)

48.36

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	65 - 149	5.4e-25	Iron/manganese superoxide dismutases, alpha-hairpin domain
Sod_Fe_C	PF02777	157 - 208	2.1e-10	Iron/manganese superoxide dismutases, C-terminal domain
Sod_Fe_C	PF02777	213 - 275	7.6e-18	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)

Image

Tree File

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Publication-ready

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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

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Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc16I	TGCGCA	1 cut(s)	76
AccB7I	CCANNNNNTGG	1 cut(s)	458
AccBSI	CCGCTC	2 cut(s)	709, 848
AciI	CCGC	4 cut(s)	239, 548, 707, 848
AclWI	GGATC	1 cut(s)	124
AcsI	RAATTY	1 cut(s)	194
AcuI	CTGAAG	1 cut(s)	224
AfaI	GTAC	1 cut(s)	18
AfiI	CCNNNNNNNGG	4 cut(s)	95, 458, 693, 694
AgsI	TTSAA	6 cut(s)	126, 177, 400, 611, 830, 854
AloI	GAACNNNNNNTCC	2 cut(s)	157, 189
AluBI	AGCT	4 cut(s)	129, 202, 331, 767
AluI	AGCT	4 cut(s)	129, 202, 331, 767
Alw26I	GTCTC	2 cut(s)	145, 248
AlwI	GGATC	1 cut(s)	124
Ama87I	CYCGRG	1 cut(s)	843
AoxI	GGCC	3 cut(s)	82, 97, 467
ApaI	GGGCCC	1 cut(s)	86
ApeKI	GCWGC	3 cut(s)	53, 407, 545
ApoI	RAATTY	1 cut(s)	194
AseI	ATTAAT	1 cut(s)	495
AspLEI	GCGC	3 cut(s)	58, 77, 232
AspS9I	GGNCC	2 cut(s)	82, 83
AsuC2I	CCSGG	1 cut(s)	475
AsuHPI	GGTGA	2 cut(s)	111, 673
AvaI	CYCGRG	1 cut(s)	843
BaeGI	GKGCMC	1 cut(s)	86
BanII	GRGCYC	1 cut(s)	86
BarI	GAAGNNNNNNTAC	2 cut(s)	342, 374
BbsI	GAAGAC	1 cut(s)	648
BbvI	GCAGC	3 cut(s)	40, 394, 532
BccI	CCATC	3 cut(s)	478, 725, 902
BciVI	GTATCC	1 cut(s)	228
BcnI	CCSGG	1 cut(s)	475
BcoDI	GTCTC	2 cut(s)	145, 248
BfaI	CTAG	4 cut(s)	20, 332, 485, 822
BfuI	GTATCC	1 cut(s)	228
BglII	AGATCT	1 cut(s)	414
BisI	GCNGC	5 cut(s)	54, 239, 408, 546, 549
BlsI	GCNGC	5 cut(s)	55, 240, 409, 547, 550
BmcAI	AGTACT	1 cut(s)	18
Bme1390I	CCNGG	1 cut(s)	475
BmeT110I	CYCGRG	1 cut(s)	843
BmgT120I	GGNCC	2 cut(s)	82, 83
BmiI	GGNNCC	4 cut(s)	84, 237, 325, 422
BmrFI	CCNGG	1 cut(s)	475
BmrI	ACTGGG	2 cut(s)	89, 280
BmsI	GCATC	1 cut(s)	217
BmuI	ACTGGG	2 cut(s)	89, 280
BpiI	GAAGAC	1 cut(s)	648
BpmI	CTGGAG	2 cut(s)	254, 281
BpuMI	CCSGG	1 cut(s)	475
Bsa29I	ATCGAT	1 cut(s)	720
BsaJI	CCNNGG	2 cut(s)	89, 474
Bsc4I	CCNNNNNNNGG	4 cut(s)	95, 458, 693, 694
Bse118I	RCCGGY	1 cut(s)	759
Bse1I	ACTGG	4 cut(s)	84, 109, 228, 275
BseCI	ATCGAT	1 cut(s)	720
BseDI	CCNNGG	2 cut(s)	89, 474
BseGI	GGATG	2 cut(s)	232, 470
BseLI	CCNNNNNNNGG	4 cut(s)	95, 458, 693, 694
BseNI	ACTGG	4 cut(s)	84, 109, 228, 275
BseRI	GAGGAG	2 cut(s)	201, 908
BseSI	GKGCMC	1 cut(s)	86
BseXI	GCAGC	3 cut(s)	40, 394, 532
BsgI	GTGCAG	1 cut(s)	393
BshFI	GGCC	3 cut(s)	84, 99, 469
BshVI	ATCGAT	1 cut(s)	720
BsiHKCI	CYCGRG	1 cut(s)	843
BsiSI	CCGG	2 cut(s)	474, 760
BslI	CCNNNNNNNGG	4 cut(s)	95, 458, 693, 694
BsmAI	GTCTC	2 cut(s)	145, 248
BsnI	GGCC	3 cut(s)	84, 99, 469
BsoBI	CYCGRG	1 cut(s)	843
Bsp120I	GGGCCC	1 cut(s)	82
Bsp1286I	GDGCHC	1 cut(s)	86
Bsp143I	GATC	2 cut(s)	116, 414
BspACI	CCGC	4 cut(s)	239, 548, 707, 848
BspANI	GGCC	3 cut(s)	84, 99, 469
BspDI	ATCGAT	1 cut(s)	720
BspLI	GGNNCC	4 cut(s)	84, 237, 325, 422
BspPI	GGATC	1 cut(s)	124
BsrBI	CCGCTC	2 cut(s)	709, 848
BsrFI	RCCGGY	1 cut(s)	759
BsrI	ACTGG	4 cut(s)	84, 109, 228, 275
BssAI	RCCGGY	1 cut(s)	759
BssECI	CCNNGG	2 cut(s)	89, 474
BssMI	GATC	2 cut(s)	116, 414
Bst4CI	ACNGT	2 cut(s)	90, 558
Bst6I	CTCTTC	2 cut(s)	659, 885
BstC8I	GCNNGC	4 cut(s)	131, 582, 735, 765
BstDSI	CCRYGG	1 cut(s)	89
BstF5I	GGATG	2 cut(s)	232, 470
BstHHI	GCGC	3 cut(s)	58, 77, 232
BstKTI	GATC	2 cut(s)	119, 417
BstMAI	GTCTC	2 cut(s)	145, 248
BstMBI	GATC	2 cut(s)	116, 414
BstMWI	GCNNNNNNNGC	6 cut(s)	20, 64, 81, 238, 581, 590
BstNSI	RCATGY	1 cut(s)	737
BstSCI	CCNGG	1 cut(s)	473
BstSLI	GKGCMC	1 cut(s)	86
BstV1I	GCAGC	3 cut(s)	40, 394, 532
BstV2I	GAAGAC	1 cut(s)	648
BstX2I	RGATCY	1 cut(s)	414
BstYI	RGATCY	1 cut(s)	414
Bsu15I	ATCGAT	1 cut(s)	720
BsuI	GTATCC	1 cut(s)	228
BsuRI	GGCC	3 cut(s)	84, 99, 469
BsuTUI	ATCGAT	1 cut(s)	720
BtgI	CCRYGG	1 cut(s)	89
BtgZI	GCGATG	1 cut(s)	960
BtsCI	GGATG	2 cut(s)	232, 470
BtsIMutI	CAGTG	4 cut(s)	77, 102, 221, 268
Cac8I	GCNNGC	4 cut(s)	131, 582, 735, 765
CfoI	GCGC	3 cut(s)	58, 77, 232
Cfr10I	RCCGGY	1 cut(s)	759
Cfr13I	GGNCC	2 cut(s)	82, 83
ClaI	ATCGAT	1 cut(s)	720
Csp6I	GTAC	1 cut(s)	17
CviAII	CATG	4 cut(s)	425, 445, 734, 804
CviQI	GTAC	1 cut(s)	17
DpnI	GATC	2 cut(s)	118, 416
DpnII	GATC	2 cut(s)	116, 414
Eam1104I	CTCTTC	2 cut(s)	659, 885
EarI	CTCTTC	2 cut(s)	659, 885
Eco147I	AGGCCT	1 cut(s)	99
Eco24I	GRGCYC	1 cut(s)	86
Eco57I	CTGAAG	1 cut(s)	224
Eco88I	CYCGRG	1 cut(s)	843
EcoT38I	GRGCYC	1 cut(s)	86
FaeI	CATG	4 cut(s)	428, 448, 737, 807
FatI	CATG	4 cut(s)	424, 444, 733, 803
FauNDI	CATATG	1 cut(s)	243
Fnu4HI	GCNGC	5 cut(s)	54, 239, 408, 546, 549
FokI	GGATG	2 cut(s)	239, 457
FriOI	GRGCYC	1 cut(s)	86
Fsp4HI	GCNGC	5 cut(s)	54, 239, 408, 546, 549
FspBI	CTAG	4 cut(s)	20, 332, 485, 822
FspI	TGCGCA	1 cut(s)	76
GlaI	GCGC	3 cut(s)	57, 76, 231
GluI	GCNGC	5 cut(s)	54, 239, 408, 546, 549
GsuI	CTGGAG	2 cut(s)	254, 281
HaeIII	GGCC	3 cut(s)	84, 99, 469
HapII	CCGG	2 cut(s)	474, 760
HhaI	GCGC	3 cut(s)	58, 77, 232
Hin1II	CATG	4 cut(s)	428, 448, 737, 807
Hin6I	GCGC	3 cut(s)	56, 75, 230
HinP1I	GCGC	3 cut(s)	56, 75, 230
HindIII	AAGCTT	1 cut(s)	127
HinfI	GANTC	5 cut(s)	256, 440, 522, 667, 950
HpaII	CCGG	2 cut(s)	474, 760
HphI	GGTGA	2 cut(s)	111, 673
Hpy166II	GTNNAC	2 cut(s)	682, 934
Hpy188I	TCNGA	3 cut(s)	756, 907, 955
Hpy188III	TCNNGA	4 cut(s)	260, 418, 485, 822
Hpy8I	GTNNAC	2 cut(s)	682, 934
HpyAV	CCTTC	4 cut(s)	132, 156, 314, 459
HpyCH4III	ACNGT	2 cut(s)	90, 558
HpyCH4V	TGCA	7 cut(s)	159, 410, 584, 617, 677, 836, 920
HpyF10VI	GCNNNNNNNGC	6 cut(s)	20, 64, 81, 238, 581, 590
Hsp92II	CATG	4 cut(s)	428, 448, 737, 807
HspAI	GCGC	3 cut(s)	56, 75, 230
Kzo9I	GATC	2 cut(s)	116, 414
LmnI	GCTCC	3 cut(s)	235, 714, 730
Lsp1109I	GCAGC	3 cut(s)	40, 394, 532
LweI	GCATC	1 cut(s)	217
MaeI	CTAG	4 cut(s)	20, 332, 485, 822
MalI	GATC	2 cut(s)	118, 416
MbiI	CCGCTC	2 cut(s)	709, 848
MboI	GATC	2 cut(s)	116, 414
MboII	GAAGA	9 cut(s)	362, 424, 653, 676, 875, 878, 881, 899, 902
MflI	RGATCY	1 cut(s)	414
MhlI	GDGCHC	1 cut(s)	86
MluCI	AATT	5 cut(s)	61, 194, 338, 492, 831
MlyI	GAGTC	4 cut(s)	250, 449, 676, 944
MmeI	TCCRAC	2 cut(s)	327, 656
MnlI	CCTC	9 cut(s)	110, 219, 222, 455, 755, 853, 870, 886, 949
MseI	TTAA	1 cut(s)	495
MspI	CCGG	2 cut(s)	474, 760
MspR9I	CCNGG	1 cut(s)	475
MwoI	GCNNNNNNNGC	6 cut(s)	20, 64, 81, 238, 581, 590
NciI	CCSGG	1 cut(s)	475
NdeI	CATATG	1 cut(s)	243
NdeII	GATC	2 cut(s)	116, 414
NlaIII	CATG	4 cut(s)	428, 448, 737, 807
NlaIV	GGNNCC	4 cut(s)	84, 237, 325, 422
NsbI	TGCGCA	1 cut(s)	76
NspI	RCATGY	1 cut(s)	737
PaeI	GCATGC	1 cut(s)	737
PaeR7I	CTCGAG	1 cut(s)	843
PceI	AGGCCT	1 cut(s)	99
PfeI	GAWTC	1 cut(s)	522
PflMI	CCANNNNNTGG	1 cut(s)	458
PkrI	GCNGC	5 cut(s)	55, 240, 409, 547, 550
PleI	GAGTC	4 cut(s)	250, 448, 675, 944
PpsI	GAGTC	4 cut(s)	250, 448, 675, 944
PshBI	ATTAAT	1 cut(s)	495
PspN4I	GGNNCC	4 cut(s)	84, 237, 325, 422
PspOMI	GGGCCC	1 cut(s)	82
PspPI	GGNCC	2 cut(s)	82, 83
PspXI	VCTCGAGB	1 cut(s)	843
PsuI	RGATCY	1 cut(s)	414
RsaI	GTAC	1 cut(s)	18
RsaNI	GTAC	1 cut(s)	17
SaqAI	TTAA	1 cut(s)	495
SatI	GCNGC	5 cut(s)	54, 239, 408, 546, 549
Sau3AI	GATC	2 cut(s)	116, 414
Sau96I	GGNCC	2 cut(s)	82, 83
ScaI	AGTACT	1 cut(s)	18
SchI	GAGTC	4 cut(s)	250, 449, 676, 944
ScrFI	CCNGG	1 cut(s)	475
SduI	GDGCHC	1 cut(s)	86
SfaNI	GCATC	1 cut(s)	217
Sfr274I	CTCGAG	1 cut(s)	843
SlaI	CTCGAG	1 cut(s)	843
SmlI	CTYRAG	1 cut(s)	843
SmoI	CTYRAG	1 cut(s)	843
SphI	GCATGC	1 cut(s)	737
Sse9I	AATT	5 cut(s)	61, 194, 338, 492, 831
SseBI	AGGCCT	1 cut(s)	99
SsiI	CCGC	4 cut(s)	239, 548, 707, 848
SspMI	CTAG	4 cut(s)	20, 332, 485, 822
StuI	AGGCCT	1 cut(s)	99
StyD4I	CCNGG	1 cut(s)	473
TaaI	ACNGT	2 cut(s)	90, 558
TaqI	TCGA	4 cut(s)	318, 720, 747, 844
TasI	AATT	5 cut(s)	61, 194, 338, 492, 831
TatI	WGTACW	1 cut(s)	16
TauI	GCSGC	2 cut(s)	241, 551
TfiI	GAWTC	1 cut(s)	522
Tru1I	TTAA	1 cut(s)	495
Tru9I	TTAA	1 cut(s)	495
TscAI	CASTG	4 cut(s)	84, 109, 228, 275
TseI	GCWGC	3 cut(s)	53, 407, 545
TspDTI	ATGAA	4 cut(s)	351, 461, 514, 792
TspGWI	ACGGA	3 cut(s)	204, 393, 650
TspRI	CASTG	4 cut(s)	84, 109, 228, 275
Van91I	CCANNNNNTGG	1 cut(s)	458
VspI	ATTAAT	1 cut(s)	495
XapI	RAATTY	1 cut(s)	194
XbaI	TCTAGA	2 cut(s)	484, 821
XceI	RCATGY	1 cut(s)	737
XhoI	CTCGAG	1 cut(s)	843
XspI	CTAG	4 cut(s)	20, 332, 485, 822
ZrmI	AGTACT	1 cut(s)	18

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