Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr7

Orthogroup ID

OG0005486

Physical Location & Seq

Genomic Coordinates Forward (+)

23718033 .. 23720098

Gene Structure 2066 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw7G020750.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 453 bp

ATGCCAGTTCCACTTGCCCCATATCCAACACCTCCGGCACCTTATACACCACCACCTGCTACTGCTGCTACAAATGGTGCACAAAGCCAGCTCGTCTGCTCTGGATGCCGGAACCTTCTACTCTATCCAGTCGGAGCCACCTCAGTATGTTGTGCTGTTTGTAATGCAGTCACTGCTGTGCCACCTCCTGGCACAGAAATGGCACAGCTGGTCTGTGGAGGCTGCCACACCTTACTCATGTATATACGTGGAGCAACAAGCGTACAATGTTCTTGCTGTCACACTGTCAATCTAGCCTTAGAAGCAAATCAGGTGGCACATGTGAATTGTGGGAACTGCAGGATGCTACTAATGTACCAATATGGGGCAAGATCTGTGAAATGTGCGGTTTGCAATTTTGTGACATCCGTTGGGGTCTCGACGAGCACTACTGAACAGAAATTCACCAACTAA

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

150

Amino Acids

15.59

Weight (kDa)

8.21

Isoelectric Point (pI)

38.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-LSD1	PF06943	33 - 57	6.4e-11	LSD1 zinc finger
zf-LSD1	PF06943	72 - 96	1.2e-12	LSD1 zinc finger
zf-LSD1	PF06943	110 - 134	4.8e-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

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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)
AarI	CACCTGC	1 cut(s)	64
Acc36I	ACCTGC	1 cut(s)	64
AccB1I	GGYRCC	1 cut(s)	37
AccB7I	CCANNNNNTGG	1 cut(s)	188
AciI	CCGC	1 cut(s)	386
AcsI	RAATTY	1 cut(s)	440
AfaI	GTAC	2 cut(s)	264, 356
AfiI	CCNNNNNNNGG	2 cut(s)	188, 364
AflIII	ACRYGT	1 cut(s)	319
AjnI	CCWGG	1 cut(s)	187
AleI	CACNNNNGTG	1 cut(s)	176
AluBI	AGCT	2 cut(s)	91, 208
AluI	AGCT	2 cut(s)	91, 208
Alw21I	GWGCWC	2 cut(s)	82, 428
Alw26I	GTCTC	1 cut(s)	421
Alw44I	GTGCAC	1 cut(s)	78
AlwNI	CAGNNNCTG	1 cut(s)	173
ApaLI	GTGCAC	1 cut(s)	78
ApeKI	GCWGC	2 cut(s)	65, 222
ApoI	RAATTY	1 cut(s)	440
AsuHPI	GGTGA	1 cut(s)	436
BaeGI	GKGCMC	1 cut(s)	82
BaeI	ACNNNNGTAYC	2 cut(s)	338, 371
BanI	GGYRCC	1 cut(s)	37
Bbv12I	GWGCWC	2 cut(s)	82, 428
BbvI	GCAGC	2 cut(s)	52, 209
BciT130I	CCWGG	1 cut(s)	189
BcoDI	GTCTC	1 cut(s)	421
BfaI	CTAG	1 cut(s)	293
BfmI	CTRYAG	1 cut(s)	337
BfuAI	ACCTGC	1 cut(s)	64
BglII	AGATCT	1 cut(s)	371
BisI	GCNGC	2 cut(s)	66, 223
BlsI	GCNGC	2 cut(s)	67, 224
Bme1390I	CCNGG	1 cut(s)	189
BmiI	GGNNCC	3 cut(s)	39, 113, 136
BmrFI	CCNGG	1 cut(s)	189
BmsI	GCATC	2 cut(s)	95, 333
BsaAI	YACGTR	1 cut(s)	248
BsaI	GGTCTC	1 cut(s)	421
Bsc4I	CCNNNNNNNGG	2 cut(s)	188, 364
Bse1I	ACTGG	2 cut(s)	5, 128
BseBI	CCWGG	1 cut(s)	189
BseGI	GGATG	3 cut(s)	110, 348, 404
BseLI	CCNNNNNNNGG	2 cut(s)	188, 364
BseMII	CTCAG	1 cut(s)	156
BseNI	ACTGG	2 cut(s)	5, 128
BseSI	GKGCMC	1 cut(s)	82
BseXI	GCAGC	2 cut(s)	52, 209
BshNI	GGYRCC	1 cut(s)	37
BsiHKAI	GWGCWC	2 cut(s)	82, 428
BsiSI	CCGG	2 cut(s)	35, 109
BslI	CCNNNNNNNGG	2 cut(s)	188, 364
BsmAI	GTCTC	1 cut(s)	421
Bso31I	GGTCTC	1 cut(s)	421
Bsp1286I	GDGCHC	2 cut(s)	82, 428
Bsp143I	GATC	1 cut(s)	371
BspACI	CCGC	1 cut(s)	386
BspCNI	CTCAG	1 cut(s)	155
BspLI	GGNNCC	3 cut(s)	39, 113, 136
BspMAI	CTGCAG	1 cut(s)	341
BspMI	ACCTGC	1 cut(s)	64
BspT107I	GGYRCC	1 cut(s)	37
BspTNI	GGTCTC	1 cut(s)	421
BsrI	ACTGG	2 cut(s)	5, 128
BssMI	GATC	1 cut(s)	371
Bst2UI	CCWGG	1 cut(s)	189
Bst4CI	ACNGT	1 cut(s)	286
BstAPI	GCANNNNNTGC	1 cut(s)	173
BstBAI	YACGTR	1 cut(s)	248
BstC8I	GCNNGC	1 cut(s)	89
BstDEI	CTNAG	2 cut(s)	142, 298
BstF5I	GGATG	3 cut(s)	110, 348, 404
BstKTI	GATC	1 cut(s)	374
BstMAI	GTCTC	1 cut(s)	421
BstMBI	GATC	1 cut(s)	371
BstMWI	GCNNNNNNNGC	4 cut(s)	65, 105, 173, 302
BstNI	CCWGG	1 cut(s)	189
BstNSI	RCATGY	1 cut(s)	323
BstSCI	CCNGG	1 cut(s)	187
BstSFI	CTRYAG	1 cut(s)	337
BstSLI	GKGCMC	1 cut(s)	82
BstV1I	GCAGC	2 cut(s)	52, 209
BstX2I	RGATCY	1 cut(s)	371
BstYI	RGATCY	1 cut(s)	371
BtsCI	GGATG	3 cut(s)	110, 348, 404
BtsI	GCAGTG	1 cut(s)	171
BtsIMutI	CAGTG	2 cut(s)	171, 282
BveI	ACCTGC	1 cut(s)	64
Cac8I	GCNNGC	1 cut(s)	89
CaiI	CAGNNNCTG	1 cut(s)	173
Csp6I	GTAC	2 cut(s)	263, 355
CspCI	CAANNNNNGTGG	2 cut(s)	294, 329
CviAII	CATG	2 cut(s)	238, 320
CviJI	RGCY	6 cut(s)	87, 91, 137, 208, 222, 296
CviKI_1	RGCY	6 cut(s)	87, 91, 137, 208, 222, 296
CviQI	GTAC	2 cut(s)	263, 355
DdeI	CTNAG	2 cut(s)	142, 298
DpnI	GATC	1 cut(s)	373
DpnII	GATC	1 cut(s)	371
Eco31I	GGTCTC	1 cut(s)	421
EcoRII	CCWGG	1 cut(s)	187
FaeI	CATG	2 cut(s)	241, 323
FaiI	YATR	8 cut(s)	22, 45, 148, 239, 243, 245, 321, 363
FatI	CATG	2 cut(s)	237, 319
Fnu4HI	GCNGC	2 cut(s)	66, 223
FokI	GGATG	3 cut(s)	117, 355, 391
Fsp4HI	GCNGC	2 cut(s)	66, 223
FspBI	CTAG	1 cut(s)	293
GluI	GCNGC	2 cut(s)	66, 223
HapII	CCGG	2 cut(s)	35, 109
Hin1II	CATG	2 cut(s)	241, 323
HpaII	CCGG	2 cut(s)	35, 109
HphI	GGTGA	1 cut(s)	436
Hpy166II	GTNNAC	1 cut(s)	80
Hpy188I	TCNGA	1 cut(s)	134
Hpy188III	TCNNGA	2 cut(s)	102, 418
Hpy8I	GTNNAC	1 cut(s)	80
Hpy99I	CGWCG	1 cut(s)	424
HpyAV	CCTTC	1 cut(s)	125
HpyCH4III	ACNGT	1 cut(s)	286
HpyCH4IV	ACGT	1 cut(s)	247
HpyCH4V	TGCA	4 cut(s)	80, 167, 339, 393
HpyF10VI	GCNNNNNNNGC	4 cut(s)	65, 105, 173, 302
HpyF3I	CTNAG	2 cut(s)	142, 298
HpySE526I	ACGT	1 cut(s)	247
Hsp92II	CATG	2 cut(s)	241, 323
Kzo9I	GATC	1 cut(s)	371
LmnI	GCTCC	2 cut(s)	134, 251
Lsp1109I	GCAGC	2 cut(s)	52, 209
LweI	GCATC	2 cut(s)	95, 333
MaeI	CTAG	1 cut(s)	293
MaeII	ACGT	1 cut(s)	247
MaeIII	GTNAC	3 cut(s)	169, 278, 400
MalI	GATC	1 cut(s)	373
MboI	GATC	1 cut(s)	371
MflI	RGATCY	1 cut(s)	371
MhlI	GDGCHC	2 cut(s)	82, 428
MluCI	AATT	3 cut(s)	325, 394, 440
MmeI	TCCRAC	2 cut(s)	50, 112
MnlI	CCTC	4 cut(s)	42, 151, 195, 212
MslI	CAYNNNNRTG	2 cut(s)	176, 197
MspA1I	CMGCKG	1 cut(s)	208
MspI	CCGG	2 cut(s)	35, 109
MspR9I	CCNGG	1 cut(s)	189
MvaI	CCWGG	1 cut(s)	189
MwoI	GCNNNNNNNGC	4 cut(s)	65, 105, 173, 302
NdeII	GATC	1 cut(s)	371
NlaIII	CATG	2 cut(s)	241, 323
NlaIV	GGNNCC	3 cut(s)	39, 113, 136
NmuCI	GTSAC	3 cut(s)	169, 278, 400
NspI	RCATGY	1 cut(s)	323
OliI	CACNNNNGTG	1 cut(s)	176
PaqCI	CACCTGC	1 cut(s)	64
PciI	ACATGT	1 cut(s)	319
PflMI	CCANNNNNTGG	1 cut(s)	188
PkrI	GCNGC	2 cut(s)	67, 224
Ppu21I	YACGTR	1 cut(s)	248
PscI	ACATGT	1 cut(s)	319
Psp6I	CCWGG	1 cut(s)	187
PspGI	CCWGG	1 cut(s)	187
PspN4I	GGNNCC	3 cut(s)	39, 113, 136
PstI	CTGCAG	1 cut(s)	341
PstNI	CAGNNNCTG	1 cut(s)	173
PsuI	RGATCY	1 cut(s)	371
PvuII	CAGCTG	1 cut(s)	208
RsaI	GTAC	2 cut(s)	264, 356
RsaNI	GTAC	2 cut(s)	263, 355
RseI	CAYNNNNRTG	2 cut(s)	176, 197
SatI	GCNGC	2 cut(s)	66, 223
Sau3AI	GATC	1 cut(s)	371
ScrFI	CCNGG	1 cut(s)	189
SduI	GDGCHC	2 cut(s)	82, 428
SfaNI	GCATC	2 cut(s)	95, 333
SfcI	CTRYAG	1 cut(s)	337
SmiMI	CAYNNNNRTG	2 cut(s)	176, 197
Sse9I	AATT	3 cut(s)	325, 394, 440
SsiI	CCGC	1 cut(s)	386
SspMI	CTAG	1 cut(s)	293
StyD4I	CCNGG	1 cut(s)	187
TaaI	ACNGT	1 cut(s)	286
TaiI	ACGT	1 cut(s)	250
TaqI	TCGA	1 cut(s)	419
TasI	AATT	3 cut(s)	325, 394, 440
TscAI	CASTG	2 cut(s)	178, 289
TseFI	GTSAC	3 cut(s)	169, 278, 400
TseI	GCWGC	2 cut(s)	65, 222
Tsp45I	GTSAC	3 cut(s)	169, 278, 400
TspGWI	ACGGA	1 cut(s)	397
TspRI	CASTG	2 cut(s)	178, 289
Van91I	CCANNNNNTGG	1 cut(s)	188
VneI	GTGCAC	1 cut(s)	78
XapI	RAATTY	1 cut(s)	440
XceI	RCATGY	1 cut(s)	323
XspI	CTAG	1 cut(s)	293

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