Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000006

Orthogroup ID

OG0012754

Physical Location & Seq

Genomic Coordinates Reverse (-)

1634931 .. 1646110

Gene Structure 11180 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_6G00388610.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 399 bp

ATGTTAGAGGAAAAATTAGTGGCCTCTCTCCGGGCCTTCATGGCTTCCATATTCACGCTCTTGGTGATACCTCCAACGGCTGCAATTCCACTGATTCCACTAAGCGGACCTCATTCCATTCTTGGGAGGGCGGTTGTAGTGCATGCTGATCCTGATGATCTTGGCAGAGGTGGACATGAACTCAGTAAATCTACTGGGAATGCAGGAGCAAGAGTTGGATGCGGTACATATTACACTATAGGAAGAGACGCAGAAAATGAGAAATTAGAGAAAATTGAATGTGAAAATTCAATGAATTTAAAAGAAACGGAAAATCTGGGATCTCATACATTTTATGAGCTAAACAGAAAAGGATGGTACCAGTACATGAACAGAAAATTGGAAAGACTTGTCCAATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000302 GO:0000303 GO:0000305 GO:0001101 GO:0003674 GO:0003824 GO:0004784 GO:0005488 GO:0005507 GO:0005575 GO:0005576 GO:0005615 GO:0005622 GO:0005623 GO:0005737 GO:0005773 GO:0005777 GO:0006801 GO:0006950 GO:0006970 GO:0006979 GO:0008150 GO:0008152 GO:0008270 GO:0009314 GO:0009411 GO:0009416 GO:0009628 GO:0009636 GO:0009642 GO:0009644 GO:0009651 GO:0009987 GO:0010035 GO:0010193 GO:0010224 GO:0016209 GO:0016491 GO:0016721 GO:0019430 GO:0033554 GO:0034599 GO:0034614 GO:0034644 GO:0035690 GO:0042221 GO:0042493 GO:0042579 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044421 GO:0044424 GO:0044444 GO:0044464 GO:0046677 GO:0046872 GO:0046914 GO:0050896 GO:0051716 GO:0055114 GO:0070887 GO:0071214 GO:0071229 GO:0071236 GO:0071450 GO:0071451 GO:0071457 GO:0071470 GO:0071472 GO:0071478 GO:0071482 GO:0071484 GO:0071486 GO:0071493 GO:0072593 GO:0097237 GO:0098754 GO:0098869 GO:0104004 GO:1901700 GO:1901701 GO:1990748

KEGG Pathways

Metabolic & Signaling

ko04146 ko04213 ko05014 ko05016 ko05020 map04146 map04213 map05014 map05016 map05020

Pfam Domains

Protein Families

Sod_Cu

Protein Analysis

132

Amino Acids

14.63

Weight (kDa)

6.42

Isoelectric Point (pI)

23.42

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Cu	PF00080	30 - 76	1.6e-11	Copper/zinc superoxide dismutase (SODC)

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

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Publication-ready

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Orthologous Genes (Group: OG0012754)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G18100 AT5G18100
fragaria_vesca	FvH4_1g28280
malus_domestica	MD12G1004800.v1.1 MD14G1003300.v1.1
prunus_persica	Prupe.7G005300_v2.0.a1 Prupe.7G005300_v2.0.a1 Prupe.7G005300_v2.0.a1
pyrus_communis	pycom12g00390 pycom14g00120
rosa_chinensis	RchiOBHm_Chr3g0496871
rosa_multiflora	Rmu_sc0001438.1_g000032
rosa_roxburghii	Rroxscaffold_6G00388610
rosa_samantha	Rh3AG332200 Rh3BG368900 Rh3CG365300 Rh3DG368200
rosa_wichuraiana	Rw3G029120

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc65I	GGTACC	1 cut(s)	357
AccB1I	GGYRCC	1 cut(s)	357
AciI	CCGC	3 cut(s)	105, 131, 222
AclWI	GGATC	2 cut(s)	143, 328
AcsI	RAATTY	2 cut(s)	286, 295
AfaI	GTAC	3 cut(s)	226, 359, 365
AfiI	CCNNNNNNNGG	3 cut(s)	30, 104, 123
AgsI	TTSAA	2 cut(s)	278, 291
AjuI	GAANNNNNNNTTGG	2 cut(s)	362, 394
AluBI	AGCT	1 cut(s)	340
AluI	AGCT	1 cut(s)	340
Alw26I	GTCTC	1 cut(s)	240
AlwI	GGATC	2 cut(s)	143, 328
AoxI	GGCC	2 cut(s)	21, 33
ApeKI	GCWGC	1 cut(s)	80
ApoI	RAATTY	2 cut(s)	286, 295
Asp718I	GGTACC	1 cut(s)	357
AspS9I	GGNCC	2 cut(s)	33, 107
AsuC2I	CCSGG	1 cut(s)	32
AsuHPI	GGTGA	1 cut(s)	76
AvaII	GGWCC	1 cut(s)	107
BanI	GGYRCC	1 cut(s)	357
BbvI	GCAGC	1 cut(s)	67
BccI	CCATC	1 cut(s)	348
BceAI	ACGGC	1 cut(s)	93
BcnI	CCSGG	1 cut(s)	32
BcoDI	GTCTC	1 cut(s)	240
BfmI	CTRYAG	1 cut(s)	237
BglI	GCCNNNNNGGC	1 cut(s)	41
BisI	GCNGC	1 cut(s)	81
BlsI	GCNGC	1 cut(s)	82
Bme1390I	CCNGG	1 cut(s)	32
Bme18I	GGWCC	1 cut(s)	107
BmgT120I	GGNCC	2 cut(s)	33, 107
BmiI	GGNNCC	1 cut(s)	359
BmrFI	CCNGG	1 cut(s)	32
BmrI	ACTGGG	1 cut(s)	204
BmsI	GCATC	1 cut(s)	209
BmuI	ACTGGG	1 cut(s)	204
BpuMI	CCSGG	1 cut(s)	32
BsaXI	ACNNNNNCTCC	2 cut(s)	198, 228
Bsc4I	CCNNNNNNNGG	3 cut(s)	30, 104, 123
Bse1I	ACTGG	2 cut(s)	199, 361
BseGI	GGATG	2 cut(s)	224, 359
BseLI	CCNNNNNNNGG	3 cut(s)	30, 104, 123
BseMII	CTCAG	1 cut(s)	196
BseNI	ACTGG	2 cut(s)	199, 361
BseXI	GCAGC	1 cut(s)	67
BshFI	GGCC	2 cut(s)	23, 35
BshNI	GGYRCC	1 cut(s)	357
BsiSI	CCGG	1 cut(s)	31
BslI	CCNNNNNNNGG	3 cut(s)	30, 104, 123
BsmAI	GTCTC	1 cut(s)	240
BsmBI	CGTCTC	1 cut(s)	240
BsmI	GAATGC	1 cut(s)	205
BsnI	GGCC	2 cut(s)	23, 35
Bsp143I	GATC	3 cut(s)	148, 157, 320
BspACI	CCGC	3 cut(s)	105, 131, 222
BspANI	GGCC	2 cut(s)	23, 35
BspCNI	CTCAG	1 cut(s)	195
BspLI	GGNNCC	1 cut(s)	359
BspPI	GGATC	2 cut(s)	143, 328
BspT107I	GGYRCC	1 cut(s)	357
BsrI	ACTGG	2 cut(s)	199, 361
BssMI	GATC	3 cut(s)	148, 157, 320
Bst6I	CTCTTC	1 cut(s)	238
BstC8I	GCNNGC	1 cut(s)	144
BstDEI	CTNAG	2 cut(s)	101, 182
BstF5I	GGATG	2 cut(s)	224, 359
BstKTI	GATC	3 cut(s)	151, 160, 323
BstMAI	GTCTC	1 cut(s)	240
BstMBI	GATC	3 cut(s)	148, 157, 320
BstMWI	GCNNNNNNNGC	1 cut(s)	41
BstNSI	RCATGY	1 cut(s)	146
BstSCI	CCNGG	1 cut(s)	30
BstSFI	CTRYAG	1 cut(s)	237
BstV1I	GCAGC	1 cut(s)	67
BstX2I	RGATCY	1 cut(s)	320
BstYI	RGATCY	1 cut(s)	320
BsuRI	GGCC	2 cut(s)	23, 35
BtsCI	GGATG	2 cut(s)	224, 359
BtsIMutI	CAGTG	1 cut(s)	89
Cac8I	GCNNGC	1 cut(s)	144
Cfr13I	GGNCC	2 cut(s)	33, 107
CseI	GACGC	1 cut(s)	257
Csp6I	GTAC	3 cut(s)	225, 358, 364
CviAII	CATG	4 cut(s)	40, 143, 176, 367
CviJI	RGCY	5 cut(s)	23, 35, 44, 80, 340
CviKI_1	RGCY	5 cut(s)	23, 35, 44, 80, 340
CviQI	GTAC	3 cut(s)	225, 358, 364
DdeI	CTNAG	2 cut(s)	101, 182
DpnI	GATC	3 cut(s)	150, 159, 322
DpnII	GATC	3 cut(s)	148, 157, 320
DraI	TTTAAA	1 cut(s)	300
Eam1104I	CTCTTC	1 cut(s)	238
EarI	CTCTTC	1 cut(s)	238
Eco47I	GGWCC	1 cut(s)	107
Esp3I	CGTCTC	1 cut(s)	240
FaeI	CATG	4 cut(s)	43, 146, 179, 370
FaiI	YATR	9 cut(s)	41, 50, 144, 177, 229, 239, 327, 336, 368
FatI	CATG	4 cut(s)	39, 142, 175, 366
Fnu4HI	GCNGC	1 cut(s)	81
FokI	GGATG	2 cut(s)	231, 366
Fsp4HI	GCNGC	1 cut(s)	81
GluI	GCNGC	1 cut(s)	81
HaeIII	GGCC	2 cut(s)	23, 35
HapII	CCGG	1 cut(s)	31
HgaI	GACGC	1 cut(s)	257
Hin1II	CATG	4 cut(s)	43, 146, 179, 370
HinfI	GANTC	1 cut(s)	94
HpaII	CCGG	1 cut(s)	31
HphI	GGTGA	1 cut(s)	76
Hpy166II	GTNNAC	1 cut(s)	173
Hpy188III	TCNNGA	1 cut(s)	152
Hpy8I	GTNNAC	1 cut(s)	173
HpyAV	CCTTC	1 cut(s)	46
HpyCH4V	TGCA	3 cut(s)	83, 142, 203
HpyF10VI	GCNNNNNNNGC	1 cut(s)	41
HpyF3I	CTNAG	2 cut(s)	101, 182
Hsp92II	CATG	4 cut(s)	43, 146, 179, 370
KpnI	GGTACC	1 cut(s)	361
Kzo9I	GATC	3 cut(s)	148, 157, 320
LmnI	GCTCC	1 cut(s)	206
LpnPI	CCDG	6 cut(s)	44, 165, 180, 189, 302, 374
Lsp1109I	GCAGC	1 cut(s)	67
LweI	GCATC	1 cut(s)	209
MalI	GATC	3 cut(s)	150, 159, 322
MboI	GATC	3 cut(s)	148, 157, 320
MboII	GAAGA	1 cut(s)	255
MflI	RGATCY	1 cut(s)	320
MluCI	AATT	7 cut(s)	14, 84, 263, 273, 286, 295, 377
MmeI	TCCRAC	2 cut(s)	98, 196
MnlI	CCTC	5 cut(s)	34, 81, 120, 120, 161
MseI	TTAA	1 cut(s)	299
MspI	CCGG	1 cut(s)	31
MspR9I	CCNGG	1 cut(s)	32
Mva1269I	GAATGC	1 cut(s)	205
MwoI	GCNNNNNNNGC	1 cut(s)	41
NciI	CCSGG	1 cut(s)	32
NdeII	GATC	3 cut(s)	148, 157, 320
NlaIII	CATG	4 cut(s)	43, 146, 179, 370
NlaIV	GGNNCC	1 cut(s)	359
NspI	RCATGY	1 cut(s)	146
PaeI	GCATGC	1 cut(s)	146
PctI	GAATGC	1 cut(s)	205
PfeI	GAWTC	1 cut(s)	94
PkrI	GCNGC	1 cut(s)	82
PspN4I	GGNNCC	1 cut(s)	359
PspPI	GGNCC	2 cut(s)	33, 107
PsuI	RGATCY	1 cut(s)	320
RsaI	GTAC	3 cut(s)	226, 359, 365
RsaNI	GTAC	3 cut(s)	225, 358, 364
SaqAI	TTAA	1 cut(s)	299
SatI	GCNGC	1 cut(s)	81
Sau3AI	GATC	3 cut(s)	148, 157, 320
Sau96I	GGNCC	2 cut(s)	33, 107
ScrFI	CCNGG	1 cut(s)	32
SetI	ASST	4 cut(s)	73, 112, 172, 342
SfaNI	GCATC	1 cut(s)	209
SfcI	CTRYAG	1 cut(s)	237
SinI	GGWCC	1 cut(s)	107
SphI	GCATGC	1 cut(s)	146
Sse9I	AATT	7 cut(s)	14, 84, 263, 273, 286, 295, 377
SsiI	CCGC	3 cut(s)	105, 131, 222
StyD4I	CCNGG	1 cut(s)	30
TasI	AATT	7 cut(s)	14, 84, 263, 273, 286, 295, 377
TatI	WGTACW	1 cut(s)	363
TfiI	GAWTC	1 cut(s)	94
Tru1I	TTAA	1 cut(s)	299
Tru9I	TTAA	1 cut(s)	299
TscAI	CASTG	1 cut(s)	96
TseI	GCWGC	1 cut(s)	80
TspDTI	ATGAA	4 cut(s)	28, 192, 308, 383
TspGWI	ACGGA	1 cut(s)	323
TspRI	CASTG	1 cut(s)	96
VpaK11BI	GGWCC	1 cut(s)	107
XapI	RAATTY	2 cut(s)	286, 295
XceI	RCATGY	1 cut(s)	146

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