Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0004197

Physical Location & Seq

Genomic Coordinates Reverse (-)

81840863 .. 81842831

Gene Structure 1969 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG476700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 708 bp

ATGGCCTTGAGAACTCTGAGCAGGAAAAGCCTGGCTGGTTTAACCAGAAATGGCAGAGGAGGCTTAGGCTTCGGGCTCGTCCCAGTCCGTGGCCTAAAGACCTTCACGCTGCCGGACTTGCCCTACGACTATGGGGCACTTGAGCCCTTCATTAGCCGCGAGATCATGGAGATCCATCACCTGAAGCACCATAACACCTACGTCGACAACTTCAACAAGGCTCTCGACAACCTCGAACAGGCCATGGATACCGGCGACTCCTCCACCGTCGTCAAGTTGCAGAGCGCCCTTAAATTCAACGGCGGAGGTCATATAAACCACTCTATTTTCTGGAAATGTCTGGCCCCGGATACGGAAGGAGGAGGTGATCCTCCAAAGGGTTCATTGGGATGGGAAATTGACAATCAGTTTGGTTCCTTACAAAGTCTGAAACAGAAAATGATGGTAGAAGGTGCTGCTTTGCAAGGTTCTGGTTGGGTGTGGCTTGCTCTTGACAAAGATCAGAAGAAGCTTTCCGTTGAATGCACAGCTAATCAGGATCCACTGATAATTAAAGGAGCAAATTATGTTCCTCTGCTTGGGATAGATGTGTGGGAGCATGCTTACTACTTGCAGTACAAAAACGTGAGGCCAGACTATCTGAAGTACATATGGGAGGTTGTTAACTGGAAATATGCAAGTGAAGTGTATGAGAAAGAGTATCCTTGA

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:0005739 GO:0005759 GO:0006801 GO:0006950 GO:0006979 GO:0008150 GO:0008152 GO:0009636 GO:0009987 GO:0010035 GO:0016209 GO:0016491 GO:0016721 GO:0019430 GO:0031974 GO:0033554 GO:0034599 GO:0034614 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0050896 GO:0051716 GO:0055114 GO:0070013 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

235

Amino Acids

26.45

Weight (kDa)

6.38

Isoelectric Point (pI)

41.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	34 - 115	4.6e-34	Iron/manganese superoxide dismutases, alpha-hairpin domain
Sod_Fe_C	PF02777	125 - 228	1.9e-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: OG0004197)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G10920 AT3G10920 AT3G56350
fragaria_vesca	FvH4_7g25730
malus_domestica	MD01G1164700.v1.1 MD07G1232200.v1.1
prunus_persica	Prupe.2G262400_v2.0.a1 Prupe.2G262400_v2.0.a1 Prupe.6G042300_v2.0.a1 Prupe.6G042300_v2.0.a1
pyrus_communis	pycom01g17880 pycom07g21000
rosa_chinensis	RchiOBHm_Chr1g0371971 RchiOBHm_Chr5g0072721 RchiOBHm_Chr5g0072741
rosa_laevigata	RLG00000026932 RLG00000036327 RLG00000036328
rosa_multiflora	Rmu_sc0001755.1_g000040 Rmu_sc0003160.1_g000031
rosa_roxburghii	Rroxscaffold_1G00008440 Rroxscaffold_4G00285350
rosa_rugosa	Rorug01G0367500 Rorug05G0419500
rosa_samantha	Rh1AG377300 Rh1BG340700 Rh1CG353800 Rh1DG371600 Rh5AG476700 Rh5BG496600 Rh5CG520400
rosa_wichuraiana	Rw1G033200 Rw5G044240

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	89
AccI	GTMKAC	1 cut(s)	204
AccII	CGCG	1 cut(s)	159
AciI	CCGC	2 cut(s)	157, 303
AclWI	GGATC	4 cut(s)	166, 362, 533, 546
AcsI	RAATTY	1 cut(s)	293
AcuI	CTGAAG	2 cut(s)	203, 662
AfaI	GTAC	2 cut(s)	617, 647
AfiI	CCNNNNNNNGG	5 cut(s)	89, 238, 352, 377, 578
AgsI	TTSAA	3 cut(s)	214, 298, 521
AjnI	CCWGG	1 cut(s)	30
AluBI	AGCT	2 cut(s)	511, 530
AluI	AGCT	2 cut(s)	511, 530
AlwI	GGATC	4 cut(s)	166, 362, 533, 546
AoxI	GGCC	5 cut(s)	3, 91, 240, 342, 629
ApeKI	GCWGC	2 cut(s)	109, 455
ApoI	RAATTY	1 cut(s)	293
ArsI	GACNNNNNNTTYG	2 cut(s)	392, 424
AspLEI	GCGC	1 cut(s)	287
AspS9I	GGNCC	1 cut(s)	343
AsuC2I	CCSGG	1 cut(s)	347
AsuHPI	GGTGA	2 cut(s)	170, 377
BaeGI	GKGCMC	1 cut(s)	139
BamHI	GGATCC	1 cut(s)	538
BanII	GRGCYC	2 cut(s)	78, 147
BbvI	GCAGC	2 cut(s)	96, 442
BccI	CCATC	3 cut(s)	183, 384, 436
BceAI	ACGGC	1 cut(s)	316
BciT130I	CCWGG	1 cut(s)	32
BciVI	GTATCC	2 cut(s)	241, 343
BcnI	CCSGG	1 cut(s)	347
BfoI	RGCGCY	1 cut(s)	288
BfuI	GTATCC	2 cut(s)	241, 343
BisI	GCNGC	3 cut(s)	110, 157, 456
BlsI	GCNGC	3 cut(s)	111, 158, 457
Bme1390I	CCNGG	2 cut(s)	32, 347
BmgT120I	GGNCC	1 cut(s)	343
BmiI	GGNNCC	3 cut(s)	345, 415, 540
BmrFI	CCNGG	2 cut(s)	32, 347
BmrI	ACTGGG	1 cut(s)	77
BmuI	ACTGGG	1 cut(s)	77
Bpu10I	CCTNAGC	1 cut(s)	64
BpuEI	CTTGAG	2 cut(s)	28, 161
BpuMI	CCSGG	1 cut(s)	347
BsaJI	CCNNGG	3 cut(s)	88, 243, 345
Bsc4I	CCNNNNNNNGG	5 cut(s)	89, 238, 352, 377, 578
Bse118I	RCCGGY	1 cut(s)	251
Bse1I	ACTGG	2 cut(s)	83, 671
BseBI	CCWGG	1 cut(s)	32
BseDI	CCNNGG	3 cut(s)	88, 243, 345
BseGI	GGATG	1 cut(s)	395
BseLI	CCNNNNNNNGG	5 cut(s)	89, 238, 352, 377, 578
BseMII	CTCAG	1 cut(s)	8
BseNI	ACTGG	2 cut(s)	83, 671
BseRI	GAGGAG	3 cut(s)	72, 250, 375
BseSI	GKGCMC	1 cut(s)	139
BseXI	GCAGC	2 cut(s)	96, 442
Bsh1236I	CGCG	1 cut(s)	159
BshFI	GGCC	5 cut(s)	5, 93, 242, 344, 631
BsiSI	CCGG	3 cut(s)	113, 252, 347
BslFI	GGGAC	1 cut(s)	65
BslI	CCNNNNNNNGG	5 cut(s)	89, 238, 352, 377, 578
BsmFI	GGGAC	1 cut(s)	65
BsmI	GAATGC	1 cut(s)	527
BsnI	GGCC	5 cut(s)	5, 93, 242, 344, 631
Bsp1286I	GDGCHC	3 cut(s)	78, 139, 147
Bsp143I	GATC	5 cut(s)	162, 171, 367, 499, 538
Bsp19I	CCATGG	1 cut(s)	243
BspACI	CCGC	2 cut(s)	157, 303
BspANI	GGCC	5 cut(s)	5, 93, 242, 344, 631
BspCNI	CTCAG	1 cut(s)	9
BspFNI	CGCG	1 cut(s)	159
BspLI	GGNNCC	3 cut(s)	345, 415, 540
BspPI	GGATC	4 cut(s)	166, 362, 533, 546
BsrFI	RCCGGY	1 cut(s)	251
BsrI	ACTGG	2 cut(s)	83, 671
BssAI	RCCGGY	1 cut(s)	251
BssECI	CCNNGG	3 cut(s)	88, 243, 345
BssMI	GATC	5 cut(s)	162, 171, 367, 499, 538
BssT1I	CCWWGG	1 cut(s)	243
Bst2UI	CCWGG	1 cut(s)	32
Bst4CI	ACNGT	1 cut(s)	268
BstC8I	GCNNGC	2 cut(s)	486, 600
BstDEI	CTNAG	2 cut(s)	17, 64
BstDSI	CCRYGG	2 cut(s)	88, 243
BstENI	CCTNNNNNAGG	1 cut(s)	236
BstF5I	GGATG	1 cut(s)	395
BstFNI	CGCG	1 cut(s)	159
BstH2I	RGCGCY	1 cut(s)	288
BstHHI	GCGC	1 cut(s)	287
BstKTI	GATC	5 cut(s)	165, 174, 370, 502, 541
BstMBI	GATC	5 cut(s)	162, 171, 367, 499, 538
BstMWI	GCNNNNNNNGC	3 cut(s)	27, 60, 118
BstNI	CCWGG	1 cut(s)	32
BstNSI	RCATGY	1 cut(s)	602
BstSCI	CCNGG	2 cut(s)	30, 345
BstSLI	GKGCMC	1 cut(s)	139
BstUI	CGCG	1 cut(s)	159
BstV1I	GCAGC	2 cut(s)	96, 442
BstX2I	RGATCY	2 cut(s)	171, 538
BstYI	RGATCY	2 cut(s)	171, 538
BsuI	GTATCC	2 cut(s)	241, 343
BsuRI	GGCC	5 cut(s)	5, 93, 242, 344, 631
BtgI	CCRYGG	2 cut(s)	88, 243
BtsCI	GGATG	1 cut(s)	395
BtsIMutI	CAGTG	1 cut(s)	542
Cac8I	GCNNGC	2 cut(s)	486, 600
CfoI	GCGC	1 cut(s)	287
Cfr10I	RCCGGY	1 cut(s)	251
Cfr13I	GGNCC	1 cut(s)	343
Csp6I	GTAC	2 cut(s)	616, 646
CviAII	CATG	3 cut(s)	166, 244, 599
CviQI	GTAC	2 cut(s)	616, 646
DdeI	CTNAG	2 cut(s)	17, 64
DpnI	GATC	5 cut(s)	164, 173, 369, 501, 540
DpnII	GATC	5 cut(s)	162, 171, 367, 499, 538
EciI	GGCGGA	1 cut(s)	318
Eco130I	CCWWGG	1 cut(s)	243
Eco24I	GRGCYC	2 cut(s)	78, 147
Eco57I	CTGAAG	2 cut(s)	203, 662
EcoNI	CCTNNNNNAGG	1 cut(s)	236
EcoRII	CCWGG	1 cut(s)	30
EcoT14I	CCWWGG	1 cut(s)	243
EcoT38I	GRGCYC	2 cut(s)	78, 147
ErhI	CCWWGG	1 cut(s)	243
FaeI	CATG	3 cut(s)	169, 247, 602
FaqI	GGGAC	1 cut(s)	65
FatI	CATG	3 cut(s)	165, 243, 598
FauNDI	CATATG	1 cut(s)	650
FblI	GTMKAC	1 cut(s)	204
Fnu4HI	GCNGC	3 cut(s)	110, 157, 456
FokI	GGATG	1 cut(s)	402
FriOI	GRGCYC	2 cut(s)	78, 147
Fsp4HI	GCNGC	3 cut(s)	110, 157, 456
GlaI	GCGC	1 cut(s)	286
GluI	GCNGC	3 cut(s)	110, 157, 456
HaeII	RGCGCY	1 cut(s)	288
HaeIII	GGCC	5 cut(s)	5, 93, 242, 344, 631
HapII	CCGG	3 cut(s)	113, 252, 347
HhaI	GCGC	1 cut(s)	287
Hin1II	CATG	3 cut(s)	169, 247, 602
Hin6I	GCGC	1 cut(s)	285
HinP1I	GCGC	1 cut(s)	285
HincII	GTYRAC	2 cut(s)	205, 664
HindII	GTYRAC	2 cut(s)	205, 664
HindIII	AAGCTT	1 cut(s)	509
HinfI	GANTC	1 cut(s)	257
HpaI	GTTAAC	1 cut(s)	664
HpaII	CCGG	3 cut(s)	113, 252, 347
HphI	GGTGA	2 cut(s)	170, 377
Hpy166II	GTNNAC	2 cut(s)	205, 664
Hpy188I	TCNGA	4 cut(s)	18, 429, 504, 642
Hpy188III	TCNNGA	4 cut(s)	224, 331, 491, 536
Hpy8I	GTNNAC	2 cut(s)	205, 664
Hpy99I	CGWCG	2 cut(s)	206, 272
HpyAV	CCTTC	4 cut(s)	112, 157, 350, 443
HpyCH4III	ACNGT	1 cut(s)	268
HpyCH4IV	ACGT	2 cut(s)	201, 624
HpyCH4V	TGCA	5 cut(s)	280, 463, 525, 613, 677
HpyF10VI	GCNNNNNNNGC	3 cut(s)	27, 60, 118
HpyF3I	CTNAG	2 cut(s)	17, 64
HpySE526I	ACGT	2 cut(s)	201, 624
Hsp92II	CATG	3 cut(s)	169, 247, 602
HspAI	GCGC	1 cut(s)	285
KspAI	GTTAAC	1 cut(s)	664
Kzo9I	GATC	5 cut(s)	162, 171, 367, 499, 538
LmnI	GCTCC	2 cut(s)	557, 595
Lsp1109I	GCAGC	2 cut(s)	96, 442
MaeII	ACGT	2 cut(s)	201, 624
MalI	GATC	5 cut(s)	164, 173, 369, 501, 540
MboI	GATC	5 cut(s)	162, 171, 367, 499, 538
MboII	GAAGA	1 cut(s)	517
MflI	RGATCY	2 cut(s)	171, 538
MhlI	GDGCHC	3 cut(s)	78, 139, 147
MluCI	AATT	4 cut(s)	293, 396, 549, 562
MlyI	GAGTC	1 cut(s)	251
MseI	TTAA	4 cut(s)	41, 291, 552, 663
MslI	CAYNNNNRTG	1 cut(s)	388
MspI	CCGG	3 cut(s)	113, 252, 347
MspR9I	CCNGG	2 cut(s)	32, 347
Mva1269I	GAATGC	1 cut(s)	527
MvaI	CCWGG	1 cut(s)	32
MvnI	CGCG	1 cut(s)	159
MwoI	GCNNNNNNNGC	3 cut(s)	27, 60, 118
NciI	CCSGG	1 cut(s)	347
NcoI	CCATGG	1 cut(s)	243
NdeI	CATATG	1 cut(s)	650
NdeII	GATC	5 cut(s)	162, 171, 367, 499, 538
NlaIII	CATG	3 cut(s)	169, 247, 602
NlaIV	GGNNCC	3 cut(s)	345, 415, 540
NspI	RCATGY	1 cut(s)	602
PaeI	GCATGC	1 cut(s)	602
PcsI	WCGNNNNNNNCGW	1 cut(s)	231
PctI	GAATGC	1 cut(s)	527
PflMI	CCANNNNNTGG	1 cut(s)	89
PkrI	GCNGC	3 cut(s)	111, 158, 457
PleI	GAGTC	1 cut(s)	251
PpsI	GAGTC	1 cut(s)	251
Psp6I	CCWGG	1 cut(s)	30
PspGI	CCWGG	1 cut(s)	30
PspN4I	GGNNCC	3 cut(s)	345, 415, 540
PspPI	GGNCC	1 cut(s)	343
PsuI	RGATCY	2 cut(s)	171, 538
RsaI	GTAC	2 cut(s)	617, 647
RsaNI	GTAC	2 cut(s)	616, 646
RseI	CAYNNNNRTG	1 cut(s)	388
SalI	GTCGAC	1 cut(s)	203
SaqAI	TTAA	4 cut(s)	41, 291, 552, 663
SatI	GCNGC	3 cut(s)	110, 157, 456
Sau3AI	GATC	5 cut(s)	162, 171, 367, 499, 538
Sau96I	GGNCC	1 cut(s)	343
SchI	GAGTC	1 cut(s)	251
ScrFI	CCNGG	2 cut(s)	32, 347
SduI	GDGCHC	3 cut(s)	78, 139, 147
SmiMI	CAYNNNNRTG	1 cut(s)	388
SmlI	CTYRAG	2 cut(s)	7, 140
SmoI	CTYRAG	2 cut(s)	7, 140
SphI	GCATGC	1 cut(s)	602
Sse9I	AATT	4 cut(s)	293, 396, 549, 562
SsiI	CCGC	2 cut(s)	157, 303
StyD4I	CCNGG	2 cut(s)	30, 345
StyI	CCWWGG	1 cut(s)	243
TaaI	ACNGT	1 cut(s)	268
TaiI	ACGT	2 cut(s)	204, 627
TaqI	TCGA	3 cut(s)	204, 225, 234
TasI	AATT	4 cut(s)	293, 396, 549, 562
TatI	WGTACW	2 cut(s)	615, 645
TauI	GCSGC	1 cut(s)	159
Tru1I	TTAA	4 cut(s)	41, 291, 552, 663
Tru9I	TTAA	4 cut(s)	41, 291, 552, 663
TscAI	CASTG	1 cut(s)	549
TseI	GCWGC	2 cut(s)	109, 455
TspDTI	ATGAA	2 cut(s)	139, 372
TspGWI	ACGGA	3 cut(s)	77, 368, 505
TspRI	CASTG	1 cut(s)	549
Van91I	CCANNNNNTGG	1 cut(s)	89
XagI	CCTNNNNNAGG	1 cut(s)	236
XapI	RAATTY	1 cut(s)	293
XceI	RCATGY	1 cut(s)	602
XmiI	GTMKAC	1 cut(s)	204

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