Basic Information

Type: gene

Biological Identity

Species

fragaria_vesca

Chromosome

Fvb5

Orthogroup ID

OG0005486

Physical Location & Seq

Genomic Coordinates Forward (+)

13142416 .. 13144624

Gene Structure 2209 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

FvH4_5g21750.t1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 474 bp

ATGCACCTCAAAGCTAAGAATATAATGCCAGTTCCACTTGCCCCATATCCAACACCTCCAGCACCTTATACACCTCCTGCTGCTGCTGCTGCAAATGGTGCACAAAGCCAGCTTGTCTGCTCTGGATGTCGGAATCTCTTACTATATCCAGTCGGAGCCACCTCAGTATGCTGTGCTGTTTGTAATGCAGTCACTGCTGTGCCACCTCCTGGCACAGAAATGGCACAGCTGGTCTGTGGAGGCTGCCACACCCTACTCATGTATATACGCGGAGCAACAAGCGTACAATGTTCTTGCTGTCATACTGTCAATCTAGCATTAGAAGCAAATCAGGTGGCACATGTGAATTGTGGGAACTGCAGGATGCTACTAATGTACCAATATGGTGCAAGATCTGTGAAATGTGCTGTTTGCAATTTTGTGACATCAGTTGGGGTCTCGACGAGCACTCCTGAACAGAAATTCACCAACTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0002682 GO:0002683 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0008150 GO:0010363 GO:0010941 GO:0031347 GO:0031348 GO:0034051 GO:0043067 GO:0043069 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045088 GO:0045595 GO:0045824 GO:0048519 GO:0048523 GO:0048583 GO:0048585 GO:0050776 GO:0050777 GO:0050789 GO:0050793 GO:0050794 GO:0060548 GO:0065007 GO:0080134 GO:0080135

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-LSD1

Protein Analysis

158

Amino Acids

16.37

Weight (kDa)

8.55

Isoelectric Point (pI)

43.05

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-LSD1	PF06943	40 - 64	6.9e-11	LSD1 zinc finger
zf-LSD1	PF06943	79 - 103	1.3e-12	LSD1 zinc finger
zf-LSD1	PF06943	117 - 141	5.1e-13	LSD1 zinc finger

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: OG0005486)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G32540 AT1G32540 AT1G32540 AT1G32540 AT1G32540 AT1G32540 AT1G32540
fragaria_vesca	FvH4_5g21750
malus_domestica	MD06G1032500.v1.1
prunus_persica	Prupe.5G039600_v2.0.a1 Prupe.5G039600_v2.0.a1 Prupe.5G039600_v2.0.a1 Prupe.5G039600_v2.0.a1 Prupe.5G039600_v2.0.a1
pyrus_communis	pycom06g02690
rosa_chinensis	RchiOBHm_Chr7g0209241
rosa_laevigata	RLG00000003154
rosa_multiflora	Rmu_sc0001701.1_g000013
rosa_roxburghii	Rroxscaffold_3G00249600
rosa_rugosa	Rorug07G0110400 Rorug07G0110500 Rorug07G0110500 Rorug07G0110600 Rorug07G0110700
rosa_samantha	Rh7AG244600 Rh7BG239900 Rh7CG260200 Rh7DG251500
rosa_wichuraiana	Rw7G020750

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	209
AccII	CGCG	1 cut(s)	270
AciI	CCGC	1 cut(s)	270
AcsI	RAATTY	1 cut(s)	461
AfaI	GTAC	2 cut(s)	285, 377
AfiI	CCNNNNNNNGG	1 cut(s)	209
AflIII	ACRYGT	1 cut(s)	340
AjnI	CCWGG	1 cut(s)	208
AleI	CACNNNNGTG	1 cut(s)	197
AluBI	AGCT	3 cut(s)	14, 112, 229
AluI	AGCT	3 cut(s)	14, 112, 229
Alw21I	GWGCWC	2 cut(s)	103, 449
Alw26I	GTCTC	1 cut(s)	442
Alw44I	GTGCAC	1 cut(s)	99
AlwNI	CAGNNNCTG	1 cut(s)	194
ApaLI	GTGCAC	1 cut(s)	99
ApeKI	GCWGC	5 cut(s)	80, 83, 86, 89, 243
ApoI	RAATTY	1 cut(s)	461
AsuHPI	GGTGA	1 cut(s)	457
BaeGI	GKGCMC	1 cut(s)	103
BaeI	ACNNNNGTAYC	2 cut(s)	359, 392
Bbv12I	GWGCWC	2 cut(s)	103, 449
BbvI	GCAGC	5 cut(s)	67, 70, 73, 76, 230
BciT130I	CCWGG	1 cut(s)	210
BcoDI	GTCTC	1 cut(s)	442
BfaI	CTAG	1 cut(s)	314
BfmI	CTRYAG	1 cut(s)	358
BglII	AGATCT	1 cut(s)	392
BisI	GCNGC	5 cut(s)	81, 84, 87, 90, 244
BlsI	GCNGC	5 cut(s)	82, 85, 88, 91, 245
Bme1390I	CCNGG	1 cut(s)	210
BmiI	GGNNCC	1 cut(s)	157
BmrFI	CCNGG	1 cut(s)	210
BmsI	GCATC	1 cut(s)	354
BpmI	CTGGAG	1 cut(s)	42
BsaI	GGTCTC	1 cut(s)	442
BsaXI	ACNNNNNCTCC	2 cut(s)	433, 463
Bsc4I	CCNNNNNNNGG	1 cut(s)	209
Bse1I	ACTGG	2 cut(s)	29, 149
BseBI	CCWGG	1 cut(s)	210
BseGI	GGATG	2 cut(s)	131, 369
BseLI	CCNNNNNNNGG	1 cut(s)	209
BseMII	CTCAG	1 cut(s)	177
BseNI	ACTGG	2 cut(s)	29, 149
BseSI	GKGCMC	1 cut(s)	103
BseXI	GCAGC	5 cut(s)	67, 70, 73, 76, 230
Bsh1236I	CGCG	1 cut(s)	270
BsiHKAI	GWGCWC	2 cut(s)	103, 449
BslI	CCNNNNNNNGG	1 cut(s)	209
BsmAI	GTCTC	1 cut(s)	442
Bso31I	GGTCTC	1 cut(s)	442
Bsp1286I	GDGCHC	2 cut(s)	103, 449
Bsp143I	GATC	1 cut(s)	392
BspACI	CCGC	1 cut(s)	270
BspCNI	CTCAG	1 cut(s)	176
BspFNI	CGCG	1 cut(s)	270
BspLI	GGNNCC	1 cut(s)	157
BspMAI	CTGCAG	1 cut(s)	362
BspTNI	GGTCTC	1 cut(s)	442
BsrI	ACTGG	2 cut(s)	29, 149
BssMI	GATC	1 cut(s)	392
Bst2UI	CCWGG	1 cut(s)	210
Bst4CI	ACNGT	1 cut(s)	307
BstAPI	GCANNNNNTGC	2 cut(s)	98, 194
BstC8I	GCNNGC	1 cut(s)	110
BstDEI	CTNAG	2 cut(s)	15, 163
BstF5I	GGATG	2 cut(s)	131, 369
BstFNI	CGCG	1 cut(s)	270
BstKTI	GATC	1 cut(s)	395
BstMAI	GTCTC	1 cut(s)	442
BstMBI	GATC	1 cut(s)	392
BstMWI	GCNNNNNNNGC	5 cut(s)	86, 89, 98, 194, 323
BstNI	CCWGG	1 cut(s)	210
BstNSI	RCATGY	1 cut(s)	344
BstSCI	CCNGG	1 cut(s)	208
BstSFI	CTRYAG	1 cut(s)	358
BstSLI	GKGCMC	1 cut(s)	103
BstUI	CGCG	1 cut(s)	270
BstV1I	GCAGC	5 cut(s)	67, 70, 73, 76, 230
BstX2I	RGATCY	1 cut(s)	392
BstYI	RGATCY	1 cut(s)	392
BtsCI	GGATG	2 cut(s)	131, 369
BtsI	GCAGTG	1 cut(s)	192
BtsIMutI	CAGTG	1 cut(s)	192
Cac8I	GCNNGC	1 cut(s)	110
CaiI	CAGNNNCTG	1 cut(s)	194
Csp6I	GTAC	2 cut(s)	284, 376
CspCI	CAANNNNNGTGG	2 cut(s)	315, 350
CviAII	CATG	2 cut(s)	259, 341
CviJI	RGCY	6 cut(s)	14, 108, 112, 158, 229, 243
CviKI_1	RGCY	6 cut(s)	14, 108, 112, 158, 229, 243
CviQI	GTAC	2 cut(s)	284, 376
DdeI	CTNAG	2 cut(s)	15, 163
DpnI	GATC	1 cut(s)	394
DpnII	GATC	1 cut(s)	392
Eco31I	GGTCTC	1 cut(s)	442
EcoRII	CCWGG	1 cut(s)	208
FaeI	CATG	2 cut(s)	262, 344
FatI	CATG	2 cut(s)	258, 340
Fnu4HI	GCNGC	5 cut(s)	81, 84, 87, 90, 244
FokI	GGATG	2 cut(s)	138, 376
Fsp4HI	GCNGC	5 cut(s)	81, 84, 87, 90, 244
FspBI	CTAG	1 cut(s)	314
GluI	GCNGC	5 cut(s)	81, 84, 87, 90, 244
GsuI	CTGGAG	1 cut(s)	42
Hin1II	CATG	2 cut(s)	262, 344
HinfI	GANTC	1 cut(s)	133
HphI	GGTGA	1 cut(s)	457
Hpy166II	GTNNAC	1 cut(s)	101
Hpy188I	TCNGA	2 cut(s)	132, 155
Hpy188III	TCNNGA	3 cut(s)	123, 439, 452
Hpy8I	GTNNAC	1 cut(s)	101
Hpy99I	CGWCG	1 cut(s)	445
HpyCH4III	ACNGT	1 cut(s)	307
HpyCH4V	TGCA	7 cut(s)	4, 92, 101, 188, 360, 389, 414
HpyF10VI	GCNNNNNNNGC	5 cut(s)	86, 89, 98, 194, 323
HpyF3I	CTNAG	2 cut(s)	15, 163
Hsp92II	CATG	2 cut(s)	262, 344
Kzo9I	GATC	1 cut(s)	392
LmnI	GCTCC	2 cut(s)	155, 272
Lsp1109I	GCAGC	5 cut(s)	67, 70, 73, 76, 230
LweI	GCATC	1 cut(s)	354
MaeI	CTAG	1 cut(s)	314
MaeIII	GTNAC	2 cut(s)	190, 421
MalI	GATC	1 cut(s)	394
MboI	GATC	1 cut(s)	392
MflI	RGATCY	1 cut(s)	392
MhlI	GDGCHC	2 cut(s)	103, 449
MluCI	AATT	3 cut(s)	346, 415, 461
MmeI	TCCRAC	3 cut(s)	74, 110, 133
MnlI	CCTC	6 cut(s)	17, 66, 84, 172, 216, 233
MslI	CAYNNNNRTG	2 cut(s)	197, 218
MspA1I	CMGCKG	1 cut(s)	229
MspR9I	CCNGG	1 cut(s)	210
MvaI	CCWGG	1 cut(s)	210
MvnI	CGCG	1 cut(s)	270
MwoI	GCNNNNNNNGC	5 cut(s)	86, 89, 98, 194, 323
NdeII	GATC	1 cut(s)	392
NlaIII	CATG	2 cut(s)	262, 344
NlaIV	GGNNCC	1 cut(s)	157
NmuCI	GTSAC	2 cut(s)	190, 421
NspI	RCATGY	1 cut(s)	344
OliI	CACNNNNGTG	1 cut(s)	197
PciI	ACATGT	1 cut(s)	340
PfeI	GAWTC	1 cut(s)	133
PflMI	CCANNNNNTGG	1 cut(s)	209
PkrI	GCNGC	5 cut(s)	82, 85, 88, 91, 245
PscI	ACATGT	1 cut(s)	340
Psp6I	CCWGG	1 cut(s)	208
PspGI	CCWGG	1 cut(s)	208
PspN4I	GGNNCC	1 cut(s)	157
PstI	CTGCAG	1 cut(s)	362
PstNI	CAGNNNCTG	1 cut(s)	194
PsuI	RGATCY	1 cut(s)	392
PvuII	CAGCTG	1 cut(s)	229
RsaI	GTAC	2 cut(s)	285, 377
RsaNI	GTAC	2 cut(s)	284, 376
RseI	CAYNNNNRTG	2 cut(s)	197, 218
SatI	GCNGC	5 cut(s)	81, 84, 87, 90, 244
Sau3AI	GATC	1 cut(s)	392
ScrFI	CCNGG	1 cut(s)	210
SduI	GDGCHC	2 cut(s)	103, 449
SfaNI	GCATC	1 cut(s)	354
SfcI	CTRYAG	1 cut(s)	358
SmiMI	CAYNNNNRTG	2 cut(s)	197, 218
Sse9I	AATT	3 cut(s)	346, 415, 461
SsiI	CCGC	1 cut(s)	270
SspMI	CTAG	1 cut(s)	314
StyD4I	CCNGG	1 cut(s)	208
TaaI	ACNGT	1 cut(s)	307
TaqI	TCGA	1 cut(s)	440
TasI	AATT	3 cut(s)	346, 415, 461
TfiI	GAWTC	1 cut(s)	133
TscAI	CASTG	1 cut(s)	199
TseFI	GTSAC	2 cut(s)	190, 421
TseI	GCWGC	5 cut(s)	80, 83, 86, 89, 243
Tsp45I	GTSAC	2 cut(s)	190, 421
TspRI	CASTG	1 cut(s)	199
Van91I	CCANNNNNTGG	1 cut(s)	209
VneI	GTGCAC	1 cut(s)	99
XapI	RAATTY	1 cut(s)	461
XceI	RCATGY	1 cut(s)	344
XspI	CTAG	1 cut(s)	314

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