Basic Information

Type: gene

Biological Identity

Species

rosa_rugosa

Chromosome

GWHBQTZ00000001

Orthogroup ID

OG0004870

Physical Location & Seq

Genomic Coordinates Forward (+)

51818159 .. 51820255

Gene Structure 2097 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rorug01G0413800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 948 bp

ATGGTAATACCAGCAACAACAACACCACCTTTCGCTGCGCCCAATTCGCTAACTTGGGCACTAGGCCCACCATGGAAAGGCCTCACTGGAAGTCTGGGATCACCTTCAAGCTTGCTATGGTCAAAGAAACAGAGACAATGCAAAAGGAAAGGTGGTTCAAGTAGTATCTGTGCCAAATTTGAGCTGAAGCCTCCTCCATATCCACTGGATGCGCTGGAGCCGCATATGAGCAAGGAGACTCTGGAGTATCACTGGGGGAAGCACCATAGGGGTTATGTGGATAACCTAAACAAGCAAATCGAAGGAACCGAGCTAGATGAATTGTCGTTGGAAGATATTATACTTGCTACACACAACAACGGAGATTTATTTCCACCTTTCAACAATGCTGCACAGATCTGGAACCATGACTTCTTCTGGGAGTCCATGAAACCAGGTGGTGGAGGAAGGCCATCCGGGGAACTTCTAGAACTAATTAATAGAGATTTTGGTTCTTTTGAGAGATTCATTGATGATATAAGGTTGGCTGCGGCTACACAGTTTGGTTCTGGTTGGGCTTGGCTTGCATATAAAGCAAATAGACTTGATGTTGAAAATGCAGTAAATCCTAATCCAACGGACGAAGACAAAAGGCTTGTAGTGGTGAAGAGTCCTAATTCAGTAAACCCCCTTATATGGGATTATTCTCCGCTCCTTACCATCGATGTTTGGGAGCATGCTTACTACCTCGATGTTCAGAACCGGCGAGCTGATTACATATCAATCTTTTTGGAGAAACTTGTTTCATGGGAAGCAGTCAGTTCTAGACTTGAAATTGCAAAGGCTCGAGCAGTTGAAAGAGAGGAAGAAGAGGAAAGGAGGAAAAGAGAAGAAGAGGAGAAATCATCAGATGGCGAAGTTGCAGAGATTTATGTGGACAACAAGAGCGATGACTCGGAGGCTGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005769 GO:0005770 GO:0005829 GO:0006810 GO:0008150 GO:0010008 GO:0012505 GO:0016020 GO:0016192 GO:0016482 GO:0019207 GO:0019216 GO:0019220 GO:0019222 GO:0019898 GO:0030234 GO:0031090 GO:0031312 GO:0031313 GO:0031323 GO:0031410 GO:0031901 GO:0031902 GO:0031982 GO:0035014 GO:0042325 GO:0043226 GO:0043227 GO:0043229 GO:0043549 GO:0043550 GO:0043551 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045022 GO:0046907 GO:0050789 GO:0050790 GO:0050794 GO:0051174 GO:0051179 GO:0051234 GO:0051338 GO:0051641 GO:0051649 GO:0065007 GO:0065009 GO:0080090 GO:0097708 GO:0098588 GO:0098772 GO:0098805 GO:0098927 GO:1903725

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

WD40

Protein Analysis

315

Amino Acids

35.73

Weight (kDa)

4.99

Isoelectric Point (pI)

48.51

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	59 - 143	2.6e-25	Iron/manganese superoxide dismutases, alpha-hairpin domain
Sod_Fe_C	PF02777	151 - 202	2e-10	Iron/manganese superoxide dismutases, C-terminal domain
Sod_Fe_C	PF02777	207 - 269	1.1e-17	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: OG0004870)

Species	Orthologous Gene IDs
malus_domestica	MD08G1133000.v1.1 MD15G1111500.v1.1
prunus_persica	Prupe.1G464100_v2.0.a1 Prupe.1G464100_v2.0.a1 Prupe.1G464100_v2.0.a1 Prupe.1G469700_v2.0.a1 Prupe.1G469700_v2.0.a1 Prupe.1G469700_v2.0.a1 Prupe.1G469700_v2.0.a1 Prupe.1G469700_v2.0.a1
pyrus_communis	pycom07g25650
rosa_chinensis	RchiOBHm_Chr1g0379631
rosa_laevigata	RLG00000003047 RLG00000026374 RLG00000026377
rosa_multiflora	Rmu_sc0007323.1_g000002 Rmu_sc0022226.1_g000002 Rmu_sc0034044.1_g000002
rosa_roxburghii	Rroxscaffold_3G00248410
rosa_rugosa	Rorug01G0413100 Rorug01G0413800 Rorug05G0539800 Rorug05G0540300 Rorug05G0541000
rosa_samantha	Rh1AG435900 Rh1AG436000 Rh1AG437500 Rh1BG393600 Rh1CG406300 Rh1DG424500
rosa_wichuraiana	Rw1G038120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	440
AccBSI	CCGCTC	1 cut(s)	691
AciI	CCGC	3 cut(s)	221, 530, 689
AclWI	GGATC	1 cut(s)	106
AcsI	RAATTY	1 cut(s)	176
AcuI	CTGAAG	1 cut(s)	206
AfiI	CCNNNNNNNGG	4 cut(s)	77, 440, 675, 676
AgsI	TTSAA	6 cut(s)	108, 159, 382, 593, 812, 836
AjnI	CCWGG	1 cut(s)	433
AloI	GAACNNNNNNTCC	2 cut(s)	139, 171
AluBI	AGCT	4 cut(s)	111, 184, 313, 749
AluI	AGCT	4 cut(s)	111, 184, 313, 749
Alw26I	GTCTC	2 cut(s)	127, 230
AlwI	GGATC	1 cut(s)	106
Ama87I	CYCGRG	1 cut(s)	825
AoxI	GGCC	3 cut(s)	64, 79, 449
ApeKI	GCWGC	3 cut(s)	35, 389, 527
ApoI	RAATTY	1 cut(s)	176
AseI	ATTAAT	1 cut(s)	477
AspLEI	GCGC	2 cut(s)	40, 214
AspS9I	GGNCC	1 cut(s)	65
AsuC2I	CCSGG	1 cut(s)	457
AsuHPI	GGTGA	2 cut(s)	93, 655
AvaI	CYCGRG	1 cut(s)	825
BaeGI	GKGCMC	1 cut(s)	61
BarI	GAAGNNNNNNTAC	2 cut(s)	324, 356
BbsI	GAAGAC	1 cut(s)	630
BbvI	GCAGC	3 cut(s)	22, 376, 514
BccI	CCATC	3 cut(s)	460, 707, 884
BciT130I	CCWGG	1 cut(s)	435
BcnI	CCSGG	1 cut(s)	457
BcoDI	GTCTC	2 cut(s)	127, 230
BfaI	CTAG	4 cut(s)	62, 314, 467, 804
BglII	AGATCT	1 cut(s)	396
BisI	GCNGC	5 cut(s)	36, 221, 390, 528, 531
BlsI	GCNGC	5 cut(s)	37, 222, 391, 529, 532
Bme1390I	CCNGG	2 cut(s)	435, 457
BmeT110I	CYCGRG	1 cut(s)	825
BmgT120I	GGNCC	1 cut(s)	65
BmiI	GGNNCC	3 cut(s)	219, 307, 404
BmrFI	CCNGG	2 cut(s)	435, 457
BmrI	ACTGGG	1 cut(s)	262
BmsI	GCATC	1 cut(s)	199
BmuI	ACTGGG	1 cut(s)	262
BpiI	GAAGAC	1 cut(s)	630
BpmI	CTGGAG	2 cut(s)	236, 263
BpuMI	CCSGG	1 cut(s)	457
Bsa29I	ATCGAT	1 cut(s)	702
BsaJI	CCNNGG	2 cut(s)	71, 456
Bsc4I	CCNNNNNNNGG	4 cut(s)	77, 440, 675, 676
Bse118I	RCCGGY	1 cut(s)	741
Bse1I	ACTGG	3 cut(s)	91, 210, 257
BseBI	CCWGG	1 cut(s)	435
BseCI	ATCGAT	1 cut(s)	702
BseDI	CCNNGG	2 cut(s)	71, 456
BseGI	GGATG	2 cut(s)	214, 452
BseLI	CCNNNNNNNGG	4 cut(s)	77, 440, 675, 676
BseNI	ACTGG	3 cut(s)	91, 210, 257
BseRI	GAGGAG	2 cut(s)	183, 890
BseSI	GKGCMC	1 cut(s)	61
BseXI	GCAGC	3 cut(s)	22, 376, 514
BsgI	GTGCAG	1 cut(s)	375
BshFI	GGCC	3 cut(s)	66, 81, 451
BshVI	ATCGAT	1 cut(s)	702
BsiHKCI	CYCGRG	1 cut(s)	825
BsiSI	CCGG	2 cut(s)	456, 742
BslI	CCNNNNNNNGG	4 cut(s)	77, 440, 675, 676
BsmAI	GTCTC	2 cut(s)	127, 230
BsnI	GGCC	3 cut(s)	66, 81, 451
BsoBI	CYCGRG	1 cut(s)	825
Bsp1286I	GDGCHC	1 cut(s)	61
Bsp143I	GATC	2 cut(s)	98, 396
Bsp19I	CCATGG	1 cut(s)	71
BspACI	CCGC	3 cut(s)	221, 530, 689
BspANI	GGCC	3 cut(s)	66, 81, 451
BspDI	ATCGAT	1 cut(s)	702
BspLI	GGNNCC	3 cut(s)	219, 307, 404
BspPI	GGATC	1 cut(s)	106
BsrBI	CCGCTC	1 cut(s)	691
BsrFI	RCCGGY	1 cut(s)	741
BsrI	ACTGG	3 cut(s)	91, 210, 257
BssAI	RCCGGY	1 cut(s)	741
BssECI	CCNNGG	2 cut(s)	71, 456
BssMI	GATC	2 cut(s)	98, 396
BssT1I	CCWWGG	1 cut(s)	71
Bst2UI	CCWGG	1 cut(s)	435
Bst4CI	ACNGT	1 cut(s)	540
Bst6I	CTCTTC	3 cut(s)	641, 843, 867
BstC8I	GCNNGC	4 cut(s)	113, 564, 717, 747
BstDSI	CCRYGG	1 cut(s)	71
BstF5I	GGATG	2 cut(s)	214, 452
BstHHI	GCGC	2 cut(s)	40, 214
BstKTI	GATC	2 cut(s)	101, 399
BstMAI	GTCTC	2 cut(s)	127, 230
BstMBI	GATC	2 cut(s)	98, 396
BstMWI	GCNNNNNNNGC	4 cut(s)	46, 220, 563, 572
BstNI	CCWGG	1 cut(s)	435
BstNSI	RCATGY	1 cut(s)	719
BstSCI	CCNGG	2 cut(s)	433, 455
BstSLI	GKGCMC	1 cut(s)	61
BstV1I	GCAGC	3 cut(s)	22, 376, 514
BstV2I	GAAGAC	1 cut(s)	630
BstX2I	RGATCY	1 cut(s)	396
BstYI	RGATCY	1 cut(s)	396
Bsu15I	ATCGAT	1 cut(s)	702
BsuRI	GGCC	3 cut(s)	66, 81, 451
BsuTUI	ATCGAT	1 cut(s)	702
BtgI	CCRYGG	1 cut(s)	71
BtgZI	GCGATG	1 cut(s)	942
BtsCI	GGATG	2 cut(s)	214, 452
BtsIMutI	CAGTG	3 cut(s)	84, 203, 250
Cac8I	GCNNGC	4 cut(s)	113, 564, 717, 747
CfoI	GCGC	2 cut(s)	40, 214
Cfr10I	RCCGGY	1 cut(s)	741
Cfr13I	GGNCC	1 cut(s)	65
ClaI	ATCGAT	1 cut(s)	702
CsiI	ACCWGGT	1 cut(s)	433
CviAII	CATG	5 cut(s)	72, 407, 427, 716, 786
DpnI	GATC	2 cut(s)	100, 398
DpnII	GATC	2 cut(s)	98, 396
Eam1104I	CTCTTC	3 cut(s)	641, 843, 867
EarI	CTCTTC	3 cut(s)	641, 843, 867
Eco130I	CCWWGG	1 cut(s)	71
Eco147I	AGGCCT	1 cut(s)	81
Eco57I	CTGAAG	1 cut(s)	206
Eco88I	CYCGRG	1 cut(s)	825
EcoRII	CCWGG	1 cut(s)	433
EcoT14I	CCWWGG	1 cut(s)	71
ErhI	CCWWGG	1 cut(s)	71
FaeI	CATG	5 cut(s)	75, 410, 430, 719, 789
FatI	CATG	5 cut(s)	71, 406, 426, 715, 785
FauNDI	CATATG	1 cut(s)	225
Fnu4HI	GCNGC	5 cut(s)	36, 221, 390, 528, 531
FokI	GGATG	2 cut(s)	221, 439
Fsp4HI	GCNGC	5 cut(s)	36, 221, 390, 528, 531
FspBI	CTAG	4 cut(s)	62, 314, 467, 804
GlaI	GCGC	2 cut(s)	39, 213
GluI	GCNGC	5 cut(s)	36, 221, 390, 528, 531
GsuI	CTGGAG	2 cut(s)	236, 263
HaeIII	GGCC	3 cut(s)	66, 81, 451
HapII	CCGG	2 cut(s)	456, 742
HhaI	GCGC	2 cut(s)	40, 214
Hin1II	CATG	5 cut(s)	75, 410, 430, 719, 789
Hin6I	GCGC	2 cut(s)	38, 212
HinP1I	GCGC	2 cut(s)	38, 212
HindIII	AAGCTT	1 cut(s)	109
HinfI	GANTC	5 cut(s)	238, 422, 504, 649, 932
HpaII	CCGG	2 cut(s)	456, 742
HphI	GGTGA	2 cut(s)	93, 655
Hpy166II	GTNNAC	2 cut(s)	664, 916
Hpy188I	TCNGA	3 cut(s)	738, 889, 937
Hpy188III	TCNNGA	4 cut(s)	242, 400, 467, 804
Hpy8I	GTNNAC	2 cut(s)	664, 916
HpyAV	CCTTC	3 cut(s)	114, 296, 441
HpyCH4III	ACNGT	1 cut(s)	540
HpyCH4V	TGCA	6 cut(s)	141, 392, 566, 599, 818, 902
HpyF10VI	GCNNNNNNNGC	4 cut(s)	46, 220, 563, 572
Hsp92II	CATG	5 cut(s)	75, 410, 430, 719, 789
HspAI	GCGC	2 cut(s)	38, 212
Kzo9I	GATC	2 cut(s)	98, 396
LmnI	GCTCC	3 cut(s)	217, 696, 712
Lsp1109I	GCAGC	3 cut(s)	22, 376, 514
LweI	GCATC	1 cut(s)	199
MabI	ACCWGGT	1 cut(s)	433
MaeI	CTAG	4 cut(s)	62, 314, 467, 804
MalI	GATC	2 cut(s)	100, 398
MbiI	CCGCTC	1 cut(s)	691
MboI	GATC	2 cut(s)	98, 396
MboII	GAAGA	8 cut(s)	344, 406, 635, 658, 857, 860, 881, 884
MflI	RGATCY	1 cut(s)	396
MhlI	GDGCHC	1 cut(s)	61
MluCI	AATT	6 cut(s)	43, 176, 320, 474, 655, 813
MlyI	GAGTC	4 cut(s)	232, 431, 658, 926
MmeI	TCCRAC	2 cut(s)	309, 638
MseI	TTAA	1 cut(s)	477
MspI	CCGG	2 cut(s)	456, 742
MspR9I	CCNGG	2 cut(s)	435, 457
MvaI	CCWGG	1 cut(s)	435
MwoI	GCNNNNNNNGC	4 cut(s)	46, 220, 563, 572
NciI	CCSGG	1 cut(s)	457
NcoI	CCATGG	1 cut(s)	71
NdeI	CATATG	1 cut(s)	225
NdeII	GATC	2 cut(s)	98, 396
NlaIII	CATG	5 cut(s)	75, 410, 430, 719, 789
NlaIV	GGNNCC	3 cut(s)	219, 307, 404
NspI	RCATGY	1 cut(s)	719
PaeI	GCATGC	1 cut(s)	719
PaeR7I	CTCGAG	1 cut(s)	825
PceI	AGGCCT	1 cut(s)	81
PcsI	WCGNNNNNNNCGW	1 cut(s)	306
PfeI	GAWTC	1 cut(s)	504
PflMI	CCANNNNNTGG	1 cut(s)	440
PkrI	GCNGC	5 cut(s)	37, 222, 391, 529, 532
PleI	GAGTC	4 cut(s)	232, 430, 657, 926
PpsI	GAGTC	4 cut(s)	232, 430, 657, 926
PshBI	ATTAAT	1 cut(s)	477
Psp6I	CCWGG	1 cut(s)	433
PspGI	CCWGG	1 cut(s)	433
PspN4I	GGNNCC	3 cut(s)	219, 307, 404
PspPI	GGNCC	1 cut(s)	65
PspXI	VCTCGAGB	1 cut(s)	825
PsuI	RGATCY	1 cut(s)	396
SaqAI	TTAA	1 cut(s)	477
SatI	GCNGC	5 cut(s)	36, 221, 390, 528, 531
Sau3AI	GATC	2 cut(s)	98, 396
Sau96I	GGNCC	1 cut(s)	65
SchI	GAGTC	4 cut(s)	232, 431, 658, 926
ScrFI	CCNGG	2 cut(s)	435, 457
SduI	GDGCHC	1 cut(s)	61
SexAI	ACCWGGT	1 cut(s)	433
SfaNI	GCATC	1 cut(s)	199
Sfr274I	CTCGAG	1 cut(s)	825
SlaI	CTCGAG	1 cut(s)	825
SmlI	CTYRAG	1 cut(s)	825
SmoI	CTYRAG	1 cut(s)	825
SphI	GCATGC	1 cut(s)	719
Sse9I	AATT	6 cut(s)	43, 176, 320, 474, 655, 813
SseBI	AGGCCT	1 cut(s)	81
SsiI	CCGC	3 cut(s)	221, 530, 689
SspMI	CTAG	4 cut(s)	62, 314, 467, 804
StuI	AGGCCT	1 cut(s)	81
StyD4I	CCNGG	2 cut(s)	433, 455
StyI	CCWWGG	1 cut(s)	71
TaaI	ACNGT	1 cut(s)	540
TaqI	TCGA	4 cut(s)	300, 702, 729, 826
TasI	AATT	6 cut(s)	43, 176, 320, 474, 655, 813
TauI	GCSGC	2 cut(s)	223, 533
TfiI	GAWTC	1 cut(s)	504
Tru1I	TTAA	1 cut(s)	477
Tru9I	TTAA	1 cut(s)	477
TscAI	CASTG	3 cut(s)	91, 210, 257
TseI	GCWGC	3 cut(s)	35, 389, 527
TspDTI	ATGAA	4 cut(s)	333, 443, 496, 774
TspGWI	ACGGA	2 cut(s)	375, 632
TspRI	CASTG	3 cut(s)	91, 210, 257
Van91I	CCANNNNNTGG	1 cut(s)	440
VspI	ATTAAT	1 cut(s)	477
XapI	RAATTY	1 cut(s)	176
XbaI	TCTAGA	2 cut(s)	466, 803
XceI	RCATGY	1 cut(s)	719
XhoI	CTCGAG	1 cut(s)	825
XspI	CTAG	4 cut(s)	62, 314, 467, 804

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