Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0012775

Physical Location & Seq

Genomic Coordinates Forward (+)

64501160 .. 64503958

Gene Structure 2799 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG444800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 822 bp

ATGTTATCCTCTCTTACCAGAGCAATGTTATCCTCTTCTTCTCCTCCTCCAAGCTCTCATCTTTTGTTGACTCACTCTTCTCACTGTTTGAAGACTCCCAACCTTTCTCATCGTCAGTGTAAGCAGCAGAAAAGATGGACCCATGGGTCACAGAGAGCTTCTAGAGTTGTTGCTTACTATGGCTTGAAGGAACCACCTTATAAACTTGATGCTTTGGAACCCTATATGAGTCGGAGGACATTGGAGGTTCACTGGGGAGGCCATCATCGTAACTACTTGGAAGGTTTGAACAAACAGCTAGAGAAGAGTGACATACTGTATGGCTACACTTTTGATGAACTTGTCAAAGCAACATATAATAATGGGAATCCCTTACCAGAATTTAACAACGCTGCCCAGGTCTGGAATCATGACTTCTTTTGGGAATCCATGCAACCTGGAGGAGGGGACATGCCCAAACTAGGTGTACTTGAGCAGATTGAAAAGGATTTTGGTTCCTATACAAGTTTCAGAGAGAAGTTTATAGAGGCAGCGCTAACTCTATTTGGCTCAGGCTGGGTTTGGCTTGTTTTAAAGAGAGAAGAGAGACAACTCAAGATAGTTAGAACTTCAAATGCCATTTGCCCACTTGTCTGGGATGACATACCGATAATCTGTTTGGATATGTGGGAGCATGCTTATTATCTGGATTACAAGAATGAGAGAGGAAAGTATGTGGATACATTTATGAACCATCTTGTATCTTGGAATGCGGCAATGGTGCGCATGGCCCGTGCTGAGGCGTTTGTGAATTTAGGCGAACCTAATATCCCTGTTGCTTGA

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

273

Amino Acids

31.53

Weight (kDa)

7.73

Isoelectric Point (pI)

47.62

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	60 - 144	5.4e-18	Iron/manganese superoxide dismutases, alpha-hairpin domain
Sod_Fe_C	PF02777	156 - 252	4.8e-35	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

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Orthologous Genes (Group: OG0012775)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G23310
fragaria_vesca	FvH4_4g37110 FvH4_4g37110
malus_domestica	MD00G1043500.v1.1 MD13G1005800.v1.1 MD16G1002100.v1.1
prunus_persica	Prupe.1G347200_v2.0.a1 Prupe.1G347200_v2.0.a1
pyrus_communis	pycom13g00480 pycom16g00360
rosa_chinensis	RchiOBHm_Chr4g0446901
rosa_roxburghii	Rroxscaffold_5G00387240
rosa_rugosa	Rorug04G0375800
rosa_samantha	Rh4AG437000 Rh4BG446200 Rh4CG463500 Rh4DG444800
rosa_wichuraiana	Rw4G037390

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	201
AasI	GACNNNNNNGTC	1 cut(s)	145
Acc16I	TGCGCA	1 cut(s)	764
AciI	CCGC	1 cut(s)	752
AcsI	RAATTY	2 cut(s)	380, 790
AfaI	GTAC	1 cut(s)	468
AfeI	AGCGCT	1 cut(s)	534
AfiI	CCNNNNNNNGG	4 cut(s)	402, 443, 461, 778
AgsI	TTSAA	5 cut(s)	91, 187, 289, 482, 612
AjnI	CCWGG	2 cut(s)	396, 436
AjuI	GAANNNNNNNTTGG	2 cut(s)	474, 506
AloI	GAACNNNNNNTCC	1 cut(s)	792
AluBI	AGCT	3 cut(s)	54, 158, 298
AluI	AGCT	3 cut(s)	54, 158, 298
Alw26I	GTCTC	1 cut(s)	580
Aor51HI	AGCGCT	1 cut(s)	534
AoxI	GGCC	2 cut(s)	259, 768
ApeKI	GCWGC	3 cut(s)	124, 392, 530
ApoI	RAATTY	2 cut(s)	380, 790
AspLEI	GCGC	2 cut(s)	535, 765
AspS9I	GGNCC	2 cut(s)	138, 769
AvaII	GGWCC	1 cut(s)	138
BbsI	GAAGAC	1 cut(s)	98
BbvCI	CCTCAGC	1 cut(s)	777
BbvI	GCAGC	3 cut(s)	136, 379, 542
BccI	CCATC	3 cut(s)	129, 270, 741
BciT130I	CCWGG	2 cut(s)	398, 438
BciVI	GTATCC	1 cut(s)	712
BcoDI	GTCTC	1 cut(s)	580
BfaI	CTAG	3 cut(s)	162, 299, 461
BfoI	RGCGCY	1 cut(s)	536
BfuI	GTATCC	1 cut(s)	712
BisI	GCNGC	4 cut(s)	125, 393, 531, 753
BlsI	GCNGC	4 cut(s)	126, 394, 532, 754
Bme1390I	CCNGG	2 cut(s)	398, 438
Bme18I	GGWCC	1 cut(s)	138
BmgT120I	GGNCC	2 cut(s)	138, 769
BmiI	GGNNCC	4 cut(s)	140, 192, 219, 496
BmrFI	CCNGG	2 cut(s)	398, 438
BmrI	ACTGGG	1 cut(s)	262
BmsI	GCATC	1 cut(s)	199
BmuI	ACTGGG	1 cut(s)	262
BpiI	GAAGAC	1 cut(s)	98
BpmI	CTGGAG	1 cut(s)	459
Bpu10I	CCTNAGC	2 cut(s)	550, 777
BpuEI	CTTGAG	2 cut(s)	491, 578
BsaJI	CCNNGG	2 cut(s)	142, 396
Bsc4I	CCNNNNNNNGG	4 cut(s)	402, 443, 461, 778
Bse1I	ACTGG	1 cut(s)	257
Bse3DI	GCAATG	2 cut(s)	30, 762
BseBI	CCWGG	2 cut(s)	398, 438
BseDI	CCNNGG	2 cut(s)	142, 396
BseGI	GGATG	1 cut(s)	643
BseLI	CCNNNNNNNGG	4 cut(s)	402, 443, 461, 778
BseMI	GCAATG	2 cut(s)	30, 762
BseMII	CTCAG	2 cut(s)	564, 768
BseNI	ACTGG	1 cut(s)	257
BseRI	GAGGAG	3 cut(s)	33, 36, 456
BseXI	GCAGC	3 cut(s)	136, 379, 542
BseYI	CCCAGC	1 cut(s)	555
BshFI	GGCC	2 cut(s)	261, 770
BslFI	GGGAC	1 cut(s)	461
BslI	CCNNNNNNNGG	4 cut(s)	402, 443, 461, 778
BsmAI	GTCTC	1 cut(s)	580
BsmFI	GGGAC	1 cut(s)	461
BsmI	GAATGC	1 cut(s)	754
BsnI	GGCC	2 cut(s)	261, 770
Bsp19I	CCATGG	1 cut(s)	142
BspACI	CCGC	1 cut(s)	752
BspANI	GGCC	2 cut(s)	261, 770
BspCNI	CTCAG	2 cut(s)	563, 769
BspHI	TCATGA	1 cut(s)	409
BspLI	GGNNCC	4 cut(s)	140, 192, 219, 496
BsrDI	GCAATG	2 cut(s)	30, 762
BsrI	ACTGG	1 cut(s)	257
BssECI	CCNNGG	2 cut(s)	142, 396
BssT1I	CCWWGG	1 cut(s)	142
Bst2UI	CCWGG	2 cut(s)	398, 438
Bst4CI	ACNGT	2 cut(s)	86, 318
Bst6I	CTCTTC	4 cut(s)	40, 82, 299, 576
BstC8I	GCNNGC	1 cut(s)	675
BstDEI	CTNAG	2 cut(s)	550, 777
BstDSI	CCRYGG	1 cut(s)	142
BstENI	CCTNNNNNAGG	1 cut(s)	441
BstF5I	GGATG	1 cut(s)	643
BstH2I	RGCGCY	1 cut(s)	536
BstHHI	GCGC	2 cut(s)	535, 765
BstMAI	GTCTC	1 cut(s)	580
BstNI	CCWGG	2 cut(s)	398, 438
BstNSI	RCATGY	2 cut(s)	454, 677
BstSCI	CCNGG	2 cut(s)	396, 436
BstV1I	GCAGC	3 cut(s)	136, 379, 542
BstV2I	GAAGAC	1 cut(s)	98
BstXI	CCANNNNNNTGG	1 cut(s)	633
BsuI	GTATCC	1 cut(s)	712
BsuRI	GGCC	2 cut(s)	261, 770
BtgI	CCRYGG	1 cut(s)	142
BtsCI	GGATG	1 cut(s)	643
BtsIMutI	CAGTG	3 cut(s)	82, 122, 250
Cac8I	GCNNGC	1 cut(s)	675
CciI	TCATGA	1 cut(s)	409
CfoI	GCGC	2 cut(s)	535, 765
Cfr13I	GGNCC	2 cut(s)	138, 769
Csp6I	GTAC	1 cut(s)	467
CviAII	CATG	6 cut(s)	143, 410, 430, 451, 674, 766
CviQI	GTAC	1 cut(s)	467
DdeI	CTNAG	2 cut(s)	550, 777
DraI	TTTAAA	1 cut(s)	573
DrdI	GACNNNNNNGTC	1 cut(s)	145
DseDI	GACNNNNNNGTC	1 cut(s)	145
Eam1104I	CTCTTC	4 cut(s)	40, 82, 299, 576
EarI	CTCTTC	4 cut(s)	40, 82, 299, 576
Eco130I	CCWWGG	1 cut(s)	142
Eco47I	GGWCC	1 cut(s)	138
Eco47III	AGCGCT	1 cut(s)	534
EcoNI	CCTNNNNNAGG	1 cut(s)	441
EcoRII	CCWGG	2 cut(s)	396, 436
EcoT14I	CCWWGG	1 cut(s)	142
ErhI	CCWWGG	1 cut(s)	142
FaeI	CATG	6 cut(s)	146, 413, 433, 454, 677, 769
FaqI	GGGAC	1 cut(s)	461
FatI	CATG	6 cut(s)	142, 409, 429, 450, 673, 765
Fnu4HI	GCNGC	4 cut(s)	125, 393, 531, 753
FokI	GGATG	1 cut(s)	650
Fsp4HI	GCNGC	4 cut(s)	125, 393, 531, 753
FspAI	RTGCGCAY	1 cut(s)	764
FspBI	CTAG	3 cut(s)	162, 299, 461
FspI	TGCGCA	1 cut(s)	764
GlaI	GCGC	2 cut(s)	534, 764
GluI	GCNGC	4 cut(s)	125, 393, 531, 753
GsaI	CCCAGC	1 cut(s)	559
GsuI	CTGGAG	1 cut(s)	459
HaeII	RGCGCY	1 cut(s)	536
HaeIII	GGCC	2 cut(s)	261, 770
HhaI	GCGC	2 cut(s)	535, 765
Hin1II	CATG	6 cut(s)	146, 413, 433, 454, 677, 769
Hin6I	GCGC	2 cut(s)	533, 763
HinP1I	GCGC	2 cut(s)	533, 763
HincII	GTYRAC	1 cut(s)	69
HindII	GTYRAC	1 cut(s)	69
HinfI	GANTC	6 cut(s)	70, 94, 229, 367, 406, 425
Hpy166II	GTNNAC	3 cut(s)	69, 250, 467
Hpy188I	TCNGA	2 cut(s)	234, 512
Hpy188III	TCNNGA	5 cut(s)	162, 403, 410, 595, 686
Hpy8I	GTNNAC	3 cut(s)	69, 250, 467
HpyAV	CCTTC	2 cut(s)	181, 275
HpyCH4III	ACNGT	2 cut(s)	86, 318
HpyCH4V	TGCA	1 cut(s)	433
HpyF3I	CTNAG	2 cut(s)	550, 777
Hsp92II	CATG	6 cut(s)	146, 413, 433, 454, 677, 769
HspAI	GCGC	2 cut(s)	533, 763
LmnI	GCTCC	1 cut(s)	670
Lsp1109I	GCAGC	3 cut(s)	136, 379, 542
LweI	GCATC	1 cut(s)	199
MaeI	CTAG	3 cut(s)	162, 299, 461
MaeIII	GTNAC	3 cut(s)	147, 269, 308
MboII	GAAGA	6 cut(s)	27, 30, 69, 103, 316, 593
MluCI	AATT	2 cut(s)	380, 790
MlyI	GAGTC	3 cut(s)	64, 88, 238
MmeI	TCCRAC	1 cut(s)	212
MseI	TTAA	2 cut(s)	384, 572
MspR9I	CCNGG	2 cut(s)	398, 438
Mva1269I	GAATGC	1 cut(s)	754
MvaI	CCWGG	2 cut(s)	398, 438
NcoI	CCATGG	1 cut(s)	142
NlaIII	CATG	6 cut(s)	146, 413, 433, 454, 677, 769
NlaIV	GGNNCC	4 cut(s)	140, 192, 219, 496
NmuCI	GTSAC	2 cut(s)	147, 308
NsbI	TGCGCA	1 cut(s)	764
NspI	RCATGY	2 cut(s)	454, 677
PaeI	GCATGC	1 cut(s)	677
PagI	TCATGA	1 cut(s)	409
PctI	GAATGC	1 cut(s)	754
PfeI	GAWTC	3 cut(s)	367, 406, 425
PkrI	GCNGC	4 cut(s)	126, 394, 532, 754
PleI	GAGTC	3 cut(s)	64, 88, 237
PpsI	GAGTC	3 cut(s)	64, 88, 237
PsiI	TTATAA	1 cut(s)	201
Psp6I	CCWGG	2 cut(s)	396, 436
PspFI	CCCAGC	1 cut(s)	555
PspGI	CCWGG	2 cut(s)	396, 436
PspN4I	GGNNCC	4 cut(s)	140, 192, 219, 496
PspPI	GGNCC	2 cut(s)	138, 769
RsaI	GTAC	1 cut(s)	468
RsaNI	GTAC	1 cut(s)	467
SaqAI	TTAA	2 cut(s)	384, 572
SatI	GCNGC	4 cut(s)	125, 393, 531, 753
Sau96I	GGNCC	2 cut(s)	138, 769
SchI	GAGTC	3 cut(s)	64, 88, 238
ScrFI	CCNGG	2 cut(s)	398, 438
SfaNI	GCATC	1 cut(s)	199
SinI	GGWCC	1 cut(s)	138
SmlI	CTYRAG	2 cut(s)	470, 593
SmoI	CTYRAG	2 cut(s)	470, 593
SphI	GCATGC	1 cut(s)	677
Sse9I	AATT	2 cut(s)	380, 790
SsiI	CCGC	1 cut(s)	752
SspMI	CTAG	3 cut(s)	162, 299, 461
StyD4I	CCNGG	2 cut(s)	396, 436
StyI	CCWWGG	1 cut(s)	142
TaaI	ACNGT	2 cut(s)	86, 318
TasI	AATT	2 cut(s)	380, 790
TatI	WGTACW	1 cut(s)	466
TauI	GCSGC	1 cut(s)	755
TfiI	GAWTC	3 cut(s)	367, 406, 425
Tru1I	TTAA	2 cut(s)	384, 572
Tru9I	TTAA	2 cut(s)	384, 572
TscAI	CASTG	3 cut(s)	89, 122, 257
TseFI	GTSAC	2 cut(s)	147, 308
TseI	GCWGC	3 cut(s)	124, 392, 530
Tsp45I	GTSAC	2 cut(s)	147, 308
TspDTI	ATGAA	2 cut(s)	351, 743
TspRI	CASTG	3 cut(s)	89, 122, 257
VpaK11BI	GGWCC	1 cut(s)	138
XagI	CCTNNNNNAGG	1 cut(s)	441
XapI	RAATTY	2 cut(s)	380, 790
XbaI	TCTAGA	1 cut(s)	161
XceI	RCATGY	2 cut(s)	454, 677
XspI	CTAG	3 cut(s)	162, 299, 461

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