Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4B

Orthogroup ID

OG0012775

Physical Location & Seq

Genomic Coordinates Forward (+)

58519801 .. 58520911

Gene Structure 1111 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4BG446200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 393 bp

ATGCAACCTGGAGGAGGGGACATGCCCAAACTAGGAGTACTTGAGCAGATTGAAAAGGATTTTGGTTCCTATACAAGTTTCAGAGAGAAGTTTATAGAGGCAGCACTAACTCTATTTGGCTCAGGCTGGGTTTGGCTTGTTTTAAAGAGAGAAGAGAGACAACTCAAGATAGTTAGAACTTCAAATGCCATTTGCCCACTTGTCTGGGATGACATACCGATAATCTGTTTGGATATGTGGGAGCATGCTTATTATCTGGATTACAAGAATGAGAGAGGAAAGTATGTGGATGCATTTATGAACCATCTTGTGTCTTGGAATGCGGCAATGGTGCGCATGGCCCGTGCTGAGGCGTTTGTGAATTTAGGCGAACCTAATATCCCTGTTGCTTGA

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

130

Amino Acids

14.94

Weight (kDa)

5.37

Isoelectric Point (pI)

35.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Sod_Fe_C	PF02777	13 - 109	3.7e-36	Iron/manganese superoxide dismutases, C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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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)
Acc16I	TGCGCA	1 cut(s)	335
AciI	CCGC	1 cut(s)	323
AcsI	RAATTY	1 cut(s)	361
AfaI	GTAC	1 cut(s)	39
AfiI	CCNNNNNNNGG	3 cut(s)	14, 32, 349
AgsI	TTSAA	2 cut(s)	53, 183
AjnI	CCWGG	1 cut(s)	7
AjuI	GAANNNNNNNTTGG	2 cut(s)	45, 77
AloI	GAACNNNNNNTCC	1 cut(s)	363
Alw26I	GTCTC	1 cut(s)	151
AoxI	GGCC	1 cut(s)	339
ApeKI	GCWGC	1 cut(s)	101
ApoI	RAATTY	1 cut(s)	361
AspLEI	GCGC	1 cut(s)	336
AspS9I	GGNCC	1 cut(s)	340
BbvCI	CCTCAGC	1 cut(s)	348
BbvI	GCAGC	1 cut(s)	113
BccI	CCATC	1 cut(s)	312
BciT130I	CCWGG	1 cut(s)	9
BcoDI	GTCTC	1 cut(s)	151
BfaI	CTAG	1 cut(s)	32
BisI	GCNGC	2 cut(s)	102, 324
BlsI	GCNGC	2 cut(s)	103, 325
BmcAI	AGTACT	1 cut(s)	39
Bme1390I	CCNGG	1 cut(s)	9
BmgT120I	GGNCC	1 cut(s)	340
BmiI	GGNNCC	1 cut(s)	67
BmrFI	CCNGG	1 cut(s)	9
BmsI	GCATC	1 cut(s)	280
BpmI	CTGGAG	1 cut(s)	30
Bpu10I	CCTNAGC	2 cut(s)	121, 348
BpuEI	CTTGAG	2 cut(s)	62, 149
Bsc4I	CCNNNNNNNGG	3 cut(s)	14, 32, 349
Bse3DI	GCAATG	1 cut(s)	333
BseBI	CCWGG	1 cut(s)	9
BseGI	GGATG	2 cut(s)	214, 295
BseLI	CCNNNNNNNGG	3 cut(s)	14, 32, 349
BseMI	GCAATG	1 cut(s)	333
BseMII	CTCAG	2 cut(s)	135, 339
BseRI	GAGGAG	1 cut(s)	27
BseXI	GCAGC	1 cut(s)	113
BseYI	CCCAGC	1 cut(s)	126
BshFI	GGCC	1 cut(s)	341
BslFI	GGGAC	1 cut(s)	32
BslI	CCNNNNNNNGG	3 cut(s)	14, 32, 349
BsmAI	GTCTC	1 cut(s)	151
BsmFI	GGGAC	1 cut(s)	32
BsmI	GAATGC	1 cut(s)	325
BsnI	GGCC	1 cut(s)	341
BspACI	CCGC	1 cut(s)	323
BspANI	GGCC	1 cut(s)	341
BspCNI	CTCAG	2 cut(s)	134, 340
BspLI	GGNNCC	1 cut(s)	67
BsrDI	GCAATG	1 cut(s)	333
Bst2UI	CCWGG	1 cut(s)	9
Bst6I	CTCTTC	1 cut(s)	147
BstC8I	GCNNGC	1 cut(s)	246
BstDEI	CTNAG	2 cut(s)	121, 348
BstENI	CCTNNNNNAGG	1 cut(s)	12
BstF5I	GGATG	2 cut(s)	214, 295
BstHHI	GCGC	1 cut(s)	336
BstMAI	GTCTC	1 cut(s)	151
BstNI	CCWGG	1 cut(s)	9
BstNSI	RCATGY	2 cut(s)	25, 248
BstSCI	CCNGG	1 cut(s)	7
BstV1I	GCAGC	1 cut(s)	113
BstXI	CCANNNNNNTGG	1 cut(s)	204
BsuRI	GGCC	1 cut(s)	341
BtsCI	GGATG	2 cut(s)	214, 295
Cac8I	GCNNGC	1 cut(s)	246
CfoI	GCGC	1 cut(s)	336
Cfr13I	GGNCC	1 cut(s)	340
Csp6I	GTAC	1 cut(s)	38
CviAII	CATG	3 cut(s)	22, 245, 337
CviJI	RGCY	4 cut(s)	120, 126, 136, 341
CviKI_1	RGCY	4 cut(s)	120, 126, 136, 341
CviQI	GTAC	1 cut(s)	38
DdeI	CTNAG	2 cut(s)	121, 348
DraI	TTTAAA	1 cut(s)	144
Eam1104I	CTCTTC	1 cut(s)	147
EarI	CTCTTC	1 cut(s)	147
EcoNI	CCTNNNNNAGG	1 cut(s)	12
EcoRII	CCWGG	1 cut(s)	7
EcoT22I	ATGCAT	1 cut(s)	295
FaeI	CATG	3 cut(s)	25, 248, 340
FaiI	YATR	9 cut(s)	23, 72, 95, 215, 236, 246, 285, 299, 338
FaqI	GGGAC	1 cut(s)	32
FatI	CATG	3 cut(s)	21, 244, 336
Fnu4HI	GCNGC	2 cut(s)	102, 324
FokI	GGATG	2 cut(s)	221, 302
Fsp4HI	GCNGC	2 cut(s)	102, 324
FspAI	RTGCGCAY	1 cut(s)	335
FspBI	CTAG	1 cut(s)	32
FspI	TGCGCA	1 cut(s)	335
GlaI	GCGC	1 cut(s)	335
GluI	GCNGC	2 cut(s)	102, 324
GsaI	CCCAGC	1 cut(s)	130
GsuI	CTGGAG	1 cut(s)	30
HaeIII	GGCC	1 cut(s)	341
HhaI	GCGC	1 cut(s)	336
Hin1II	CATG	3 cut(s)	25, 248, 340
Hin6I	GCGC	1 cut(s)	334
HinP1I	GCGC	1 cut(s)	334
Hpy188I	TCNGA	1 cut(s)	83
Hpy188III	TCNNGA	2 cut(s)	166, 257
HpyCH4V	TGCA	2 cut(s)	4, 293
HpyF3I	CTNAG	2 cut(s)	121, 348
Hsp92II	CATG	3 cut(s)	25, 248, 340
HspAI	GCGC	1 cut(s)	334
LmnI	GCTCC	1 cut(s)	241
LpnPI	CCDG	5 cut(s)	21, 108, 112, 190, 242
Lsp1109I	GCAGC	1 cut(s)	113
LweI	GCATC	1 cut(s)	280
MaeI	CTAG	1 cut(s)	32
MboII	GAAGA	1 cut(s)	164
MluCI	AATT	1 cut(s)	361
MnlI	CCTC	5 cut(s)	5, 8, 91, 269, 343
Mph1103I	ATGCAT	1 cut(s)	295
MseI	TTAA	1 cut(s)	143
MspR9I	CCNGG	1 cut(s)	9
Mva1269I	GAATGC	1 cut(s)	325
MvaI	CCWGG	1 cut(s)	9
NlaIII	CATG	3 cut(s)	25, 248, 340
NlaIV	GGNNCC	1 cut(s)	67
NsbI	TGCGCA	1 cut(s)	335
NsiI	ATGCAT	1 cut(s)	295
NspI	RCATGY	2 cut(s)	25, 248
PaeI	GCATGC	1 cut(s)	248
PctI	GAATGC	1 cut(s)	325
PkrI	GCNGC	2 cut(s)	103, 325
Psp6I	CCWGG	1 cut(s)	7
PspFI	CCCAGC	1 cut(s)	126
PspGI	CCWGG	1 cut(s)	7
PspN4I	GGNNCC	1 cut(s)	67
PspPI	GGNCC	1 cut(s)	340
RsaI	GTAC	1 cut(s)	39
RsaNI	GTAC	1 cut(s)	38
SaqAI	TTAA	1 cut(s)	143
SatI	GCNGC	2 cut(s)	102, 324
Sau96I	GGNCC	1 cut(s)	340
ScaI	AGTACT	1 cut(s)	39
ScrFI	CCNGG	1 cut(s)	9
SetI	ASST	2 cut(s)	10, 376
SfaNI	GCATC	1 cut(s)	280
SmlI	CTYRAG	2 cut(s)	41, 164
SmoI	CTYRAG	2 cut(s)	41, 164
SphI	GCATGC	1 cut(s)	248
Sse9I	AATT	1 cut(s)	361
SsiI	CCGC	1 cut(s)	323
SspMI	CTAG	1 cut(s)	32
StyD4I	CCNGG	1 cut(s)	7
TasI	AATT	1 cut(s)	361
TatI	WGTACW	1 cut(s)	37
TauI	GCSGC	1 cut(s)	326
Tru1I	TTAA	1 cut(s)	143
Tru9I	TTAA	1 cut(s)	143
TseI	GCWGC	1 cut(s)	101
TspDTI	ATGAA	1 cut(s)	314
XagI	CCTNNNNNAGG	1 cut(s)	12
XapI	RAATTY	1 cut(s)	361
XceI	RCATGY	2 cut(s)	25, 248
XspI	CTAG	1 cut(s)	32
ZrmI	AGTACT	1 cut(s)	39
Zsp2I	ATGCAT	1 cut(s)	295

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