Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0002873

Physical Location & Seq

Genomic Coordinates Reverse (-)

9442037 .. 9444408

Gene Structure 2372 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG117000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 447 bp

ATGATGATCTCTGCATATGCTGCCTCGACATCCGACGACATTGCACCTGCAATTTCACTCACAGAGAATGCATCAAAGCACTTCAATAAGATGAGATCCAAACATAATGAGGATCTATGCCTGGGAATTGGTGTTAAACAGGGTGGATATTCGGGCATGTTCCGCAATCGGAAAGCTCTAAACTTGACTGCACCCAGACCTTCTACTACTCCCAACCTTTCTCATCATCAGTGTAAGCAGCAGAAAAGATGGACCCATGGGTCACAGAGAGCTTCTAGAGTTGTTGCTTACTATGGCTTGAAGGAACCACCTTATAAACTTGATGCTTTGGAACCCTATATGAGTCAGAGGACATTGGAGGTTCACTGGGGAGGCCATCATCAATTTGAGCTTGAAAGTTCTTTTTGTGTTCTGGGTTTAACAATTTTTTGCCTAGTTGATATCTAG

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

148

Amino Acids

16.65

Weight (kDa)

9.12

Isoelectric Point (pI)

51.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_N	PF00081	98 - 128	2.9e-07	Iron/manganese superoxide dismutases, alpha-hairpin domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0002873)

Species	Orthologous Gene IDs
malus_domestica	MD15G1369000.v1.1
rosa_chinensis	RchiOBHm_Chr2g0158691 RchiOBHm_Chr3g0461771 RchiOBHm_Chr3g0477511 RchiOBHm_Chr4g0391611 RchiOBHm_Chr5g0060841 RchiOBHm_Chr5g0074511 RchiOBHm_Chr5g0074521 RchiOBHm_Chr6g0248211
rosa_laevigata	RLG00000001875 RLG00000032521
rosa_multiflora	Rmu_sc0001803.1_g000035 Rmu_sc0002942.1_g000044 Rmu_sc0005455.1_g000008 Rmu_sc0006619.1_g000001 Rmu_sc0015767.1_g000001 Rmu_sc0034909.1_g000001
rosa_roxburghii	Rroxscaffold_2G00094060 Rroxscaffold_2G00116020 Rroxscaffold_3G00235080 Rroxscaffold_5G00358150 Rroxscaffold_5G00359750
rosa_rugosa	Rorug05G0328100 Rorug05G0352400 Rorug07G0018800 Rorug07G0018900
rosa_samantha	Rh2AG426900 Rh2BG244900 Rh2BG245000 Rh2BG415100 Rh3BG245300 Rh3CG117000 Rh3CG370200 Rh3CG370300 Rh4DG044300 Rh5DG334900 Rh5DG403500 Rh6CG125700 Rh7CG192300

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	315
AarI	CACCTGC	1 cut(s)	55
AasI	GACNNNNNNGTC	1 cut(s)	259
Acc36I	ACCTGC	1 cut(s)	55
AciI	CCGC	1 cut(s)	163
AclWI	GGATC	2 cut(s)	90, 120
AgsI	TTSAA	3 cut(s)	85, 301, 395
AjnI	CCWGG	1 cut(s)	120
AluBI	AGCT	3 cut(s)	176, 272, 391
AluI	AGCT	3 cut(s)	176, 272, 391
AlwI	GGATC	2 cut(s)	90, 120
AoxI	GGCC	1 cut(s)	373
ApeKI	GCWGC	2 cut(s)	20, 238
AspS9I	GGNCC	1 cut(s)	252
AvaII	GGWCC	1 cut(s)	252
BbvI	GCAGC	2 cut(s)	7, 250
BccI	CCATC	2 cut(s)	243, 384
BcgI	CGANNNNNNTGC	2 cut(s)	23, 57
BciT130I	CCWGG	1 cut(s)	122
BfaI	CTAG	3 cut(s)	276, 434, 445
BfuAI	ACCTGC	1 cut(s)	55
BisI	GCNGC	2 cut(s)	21, 239
BlsI	GCNGC	2 cut(s)	22, 240
Bme1390I	CCNGG	1 cut(s)	122
Bme18I	GGWCC	1 cut(s)	252
BmgT120I	GGNCC	1 cut(s)	252
BmiI	GGNNCC	3 cut(s)	254, 306, 333
BmrFI	CCNGG	1 cut(s)	122
BmrI	ACTGGG	1 cut(s)	376
BmsI	GCATC	2 cut(s)	80, 313
BmuI	ACTGGG	1 cut(s)	376
BsaJI	CCNNGG	2 cut(s)	121, 256
Bse1I	ACTGG	1 cut(s)	371
Bse3DI	GCAATG	1 cut(s)	39
BseBI	CCWGG	1 cut(s)	122
BseDI	CCNNGG	2 cut(s)	121, 256
BseGI	GGATG	1 cut(s)	29
BseMI	GCAATG	1 cut(s)	39
BseNI	ACTGG	1 cut(s)	371
BseXI	GCAGC	2 cut(s)	7, 250
BsgI	GTGCAG	1 cut(s)	174
BshFI	GGCC	1 cut(s)	375
BsmI	GAATGC	1 cut(s)	73
BsnI	GGCC	1 cut(s)	375
Bsp143I	GATC	3 cut(s)	6, 95, 112
Bsp19I	CCATGG	1 cut(s)	256
BspACI	CCGC	1 cut(s)	163
BspANI	GGCC	1 cut(s)	375
BspLI	GGNNCC	3 cut(s)	254, 306, 333
BspMI	ACCTGC	1 cut(s)	55
BspPI	GGATC	2 cut(s)	90, 120
BsrDI	GCAATG	1 cut(s)	39
BsrI	ACTGG	1 cut(s)	371
BssECI	CCNNGG	2 cut(s)	121, 256
BssMI	GATC	3 cut(s)	6, 95, 112
BssT1I	CCWWGG	1 cut(s)	256
Bst2UI	CCWGG	1 cut(s)	122
BstAPI	GCANNNNNTGC	1 cut(s)	20
BstDSI	CCRYGG	1 cut(s)	256
BstF5I	GGATG	1 cut(s)	29
BstKTI	GATC	3 cut(s)	9, 98, 115
BstMBI	GATC	3 cut(s)	6, 95, 112
BstMWI	GCNNNNNNNGC	2 cut(s)	20, 162
BstNI	CCWGG	1 cut(s)	122
BstNSI	RCATGY	1 cut(s)	160
BstSCI	CCNGG	1 cut(s)	120
BstV1I	GCAGC	2 cut(s)	7, 250
BstX2I	RGATCY	2 cut(s)	95, 112
BstYI	RGATCY	2 cut(s)	95, 112
BsuRI	GGCC	1 cut(s)	375
BtgI	CCRYGG	1 cut(s)	256
BtsCI	GGATG	1 cut(s)	29
BtsIMutI	CAGTG	2 cut(s)	236, 364
BveI	ACCTGC	1 cut(s)	55
Cfr13I	GGNCC	1 cut(s)	252
CviAII	CATG	2 cut(s)	157, 257
CviJI	RGCY	5 cut(s)	176, 272, 297, 375, 391
CviKI_1	RGCY	5 cut(s)	176, 272, 297, 375, 391
DpnI	GATC	3 cut(s)	8, 97, 114
DpnII	GATC	3 cut(s)	6, 95, 112
DrdI	GACNNNNNNGTC	1 cut(s)	259
DseDI	GACNNNNNNGTC	1 cut(s)	259
Eco130I	CCWWGG	1 cut(s)	256
Eco32I	GATATC	1 cut(s)	442
Eco47I	GGWCC	1 cut(s)	252
EcoRII	CCWGG	1 cut(s)	120
EcoRV	GATATC	1 cut(s)	442
EcoT14I	CCWWGG	1 cut(s)	256
EcoT22I	ATGCAT	1 cut(s)	73
ErhI	CCWWGG	1 cut(s)	256
FaeI	CATG	2 cut(s)	160, 260
FatI	CATG	2 cut(s)	156, 256
FauNDI	CATATG	1 cut(s)	16
Fnu4HI	GCNGC	2 cut(s)	21, 239
FokI	GGATG	1 cut(s)	16
Fsp4HI	GCNGC	2 cut(s)	21, 239
FspBI	CTAG	3 cut(s)	276, 434, 445
GluI	GCNGC	2 cut(s)	21, 239
HaeIII	GGCC	1 cut(s)	375
Hin1II	CATG	2 cut(s)	160, 260
HinfI	GANTC	1 cut(s)	343
Hpy166II	GTNNAC	1 cut(s)	364
Hpy188I	TCNGA	3 cut(s)	34, 171, 348
Hpy188III	TCNNGA	1 cut(s)	276
Hpy8I	GTNNAC	1 cut(s)	364
Hpy99I	CGWCG	1 cut(s)	38
HpyAV	CCTTC	2 cut(s)	210, 295
HpyCH4V	TGCA	5 cut(s)	14, 44, 50, 71, 191
HpyF10VI	GCNNNNNNNGC	2 cut(s)	20, 162
Hsp92II	CATG	2 cut(s)	160, 260
Kzo9I	GATC	3 cut(s)	6, 95, 112
LpnPI	CCDG	7 cut(s)	60, 107, 125, 134, 208, 352, 398
Lsp1109I	GCAGC	2 cut(s)	7, 250
LweI	GCATC	2 cut(s)	80, 313
MaeI	CTAG	3 cut(s)	276, 434, 445
MaeIII	GTNAC	1 cut(s)	261
MalI	GATC	3 cut(s)	8, 97, 114
MboI	GATC	3 cut(s)	6, 95, 112
MflI	RGATCY	2 cut(s)	95, 112
MluCI	AATT	4 cut(s)	51, 126, 383, 423
MlyI	GAGTC	1 cut(s)	352
MmeI	TCCRAC	1 cut(s)	57
MnlI	CCTC	5 cut(s)	34, 103, 342, 352, 365
Mph1103I	ATGCAT	1 cut(s)	73
MseI	TTAA	2 cut(s)	135, 419
MspR9I	CCNGG	1 cut(s)	122
Mva1269I	GAATGC	1 cut(s)	73
MvaI	CCWGG	1 cut(s)	122
MwoI	GCNNNNNNNGC	2 cut(s)	20, 162
NcoI	CCATGG	1 cut(s)	256
NdeI	CATATG	1 cut(s)	16
NdeII	GATC	3 cut(s)	6, 95, 112
NlaIII	CATG	2 cut(s)	160, 260
NlaIV	GGNNCC	3 cut(s)	254, 306, 333
NmuCI	GTSAC	1 cut(s)	261
NsiI	ATGCAT	1 cut(s)	73
NspI	RCATGY	1 cut(s)	160
PaqCI	CACCTGC	1 cut(s)	55
PctI	GAATGC	1 cut(s)	73
PkrI	GCNGC	2 cut(s)	22, 240
PleI	GAGTC	1 cut(s)	351
PpsI	GAGTC	1 cut(s)	351
PsiI	TTATAA	1 cut(s)	315
Psp6I	CCWGG	1 cut(s)	120
PspGI	CCWGG	1 cut(s)	120
PspN4I	GGNNCC	3 cut(s)	254, 306, 333
PspPI	GGNCC	1 cut(s)	252
PsuI	RGATCY	2 cut(s)	95, 112
SaqAI	TTAA	2 cut(s)	135, 419
SatI	GCNGC	2 cut(s)	21, 239
Sau3AI	GATC	3 cut(s)	6, 95, 112
Sau96I	GGNCC	1 cut(s)	252
SchI	GAGTC	1 cut(s)	352
ScrFI	CCNGG	1 cut(s)	122
SetI	ASST	8 cut(s)	49, 178, 202, 219, 274, 313, 363, 393
SfaNI	GCATC	2 cut(s)	80, 313
SinI	GGWCC	1 cut(s)	252
Sse9I	AATT	4 cut(s)	51, 126, 383, 423
SsiI	CCGC	1 cut(s)	163
SspMI	CTAG	3 cut(s)	276, 434, 445
StyD4I	CCNGG	1 cut(s)	120
StyI	CCWWGG	1 cut(s)	256
TaqI	TCGA	1 cut(s)	26
TasI	AATT	4 cut(s)	51, 126, 383, 423
Tru1I	TTAA	2 cut(s)	135, 419
Tru9I	TTAA	2 cut(s)	135, 419
TscAI	CASTG	2 cut(s)	236, 371
TseFI	GTSAC	1 cut(s)	261
TseI	GCWGC	2 cut(s)	20, 238
Tsp45I	GTSAC	1 cut(s)	261
TspRI	CASTG	2 cut(s)	236, 371
VpaK11BI	GGWCC	1 cut(s)	252
XbaI	TCTAGA	1 cut(s)	275
XceI	RCATGY	1 cut(s)	160
XspI	CTAG	3 cut(s)	276, 434, 445
Zsp2I	ATGCAT	1 cut(s)	73

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