Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0005486

Physical Location & Seq

Genomic Coordinates Forward (+)

21218717 .. 21221082

Gene Structure 2366 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG239900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 450 bp

ATGCCAGTTCCACTTGCCCCATATCCAACACCTCCAGCACCTTATACACCACCTGCTACTGCTGCTGCAAATGGTGCACAAAGCCAGCTCGTCTGTTCTGGATGTCGGAACCTTTTACTCTATCCAGTCGGAGCCACCTCAGTATGCTGTGCTGTTTGTAATGCAGTCACTGCTGTGCCACCTCCTGGCACAGAAATGGCACAGCTGGTCTGTGGAGGCTGCCACACCTTACTCATGTATATACGTGGAGCAACAAGCGTACAATGTTCTTGCTGTCACACTGTCAATCTAGCCTTAGAAGCAAATCAGGTGGCACATGTGAATTGTGGGAACTGCAGGATGCTACTAATGTACCAATATGGGGCAAGATCTGTGAAATGTGCGGTTTGCAATTTTGTGACATCAGTTGGGGTCTCGACGAGCACTACTGAACAGAAATTCACCAACTAA

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

149

Amino Acids

15.46

Weight (kDa)

8.21

Isoelectric Point (pI)

38.73

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-LSD1	PF06943	32 - 56	6.3e-11	LSD1 zinc finger
zf-LSD1	PF06943	71 - 95	1.2e-12	LSD1 zinc finger
zf-LSD1	PF06943	109 - 133	4.7e-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)	61
Acc36I	ACCTGC	1 cut(s)	61
AccB7I	CCANNNNNTGG	1 cut(s)	185
AciI	CCGC	1 cut(s)	383
AcsI	RAATTY	1 cut(s)	437
AfaI	GTAC	2 cut(s)	261, 353
AfiI	CCNNNNNNNGG	2 cut(s)	185, 361
AflIII	ACRYGT	1 cut(s)	316
AjnI	CCWGG	1 cut(s)	184
AleI	CACNNNNGTG	1 cut(s)	173
AluBI	AGCT	2 cut(s)	88, 205
AluI	AGCT	2 cut(s)	88, 205
Alw21I	GWGCWC	2 cut(s)	79, 425
Alw26I	GTCTC	1 cut(s)	418
Alw44I	GTGCAC	1 cut(s)	75
AlwNI	CAGNNNCTG	1 cut(s)	170
ApaLI	GTGCAC	1 cut(s)	75
ApeKI	GCWGC	3 cut(s)	62, 65, 219
ApoI	RAATTY	1 cut(s)	437
AsuHPI	GGTGA	1 cut(s)	433
BaeGI	GKGCMC	1 cut(s)	79
BaeI	ACNNNNGTAYC	2 cut(s)	335, 368
Bbv12I	GWGCWC	2 cut(s)	79, 425
BbvI	GCAGC	3 cut(s)	49, 52, 206
BciT130I	CCWGG	1 cut(s)	186
BcoDI	GTCTC	1 cut(s)	418
BfaI	CTAG	1 cut(s)	290
BfmI	CTRYAG	1 cut(s)	334
BfuAI	ACCTGC	1 cut(s)	61
BglII	AGATCT	1 cut(s)	368
BisI	GCNGC	3 cut(s)	63, 66, 220
BlsI	GCNGC	3 cut(s)	64, 67, 221
Bme1390I	CCNGG	1 cut(s)	186
BmiI	GGNNCC	2 cut(s)	110, 133
BmrFI	CCNGG	1 cut(s)	186
BmsI	GCATC	1 cut(s)	330
BpmI	CTGGAG	1 cut(s)	18
BsaAI	YACGTR	1 cut(s)	245
BsaI	GGTCTC	1 cut(s)	418
Bsc4I	CCNNNNNNNGG	2 cut(s)	185, 361
Bse1I	ACTGG	2 cut(s)	5, 125
BseBI	CCWGG	1 cut(s)	186
BseGI	GGATG	2 cut(s)	107, 345
BseLI	CCNNNNNNNGG	2 cut(s)	185, 361
BseMII	CTCAG	1 cut(s)	153
BseNI	ACTGG	2 cut(s)	5, 125
BseSI	GKGCMC	1 cut(s)	79
BseXI	GCAGC	3 cut(s)	49, 52, 206
BsiHKAI	GWGCWC	2 cut(s)	79, 425
BslI	CCNNNNNNNGG	2 cut(s)	185, 361
BsmAI	GTCTC	1 cut(s)	418
Bso31I	GGTCTC	1 cut(s)	418
Bsp1286I	GDGCHC	2 cut(s)	79, 425
Bsp143I	GATC	1 cut(s)	368
BspACI	CCGC	1 cut(s)	383
BspCNI	CTCAG	1 cut(s)	152
BspLI	GGNNCC	2 cut(s)	110, 133
BspMAI	CTGCAG	1 cut(s)	338
BspMI	ACCTGC	1 cut(s)	61
BspTNI	GGTCTC	1 cut(s)	418
BsrI	ACTGG	2 cut(s)	5, 125
BssMI	GATC	1 cut(s)	368
Bst2UI	CCWGG	1 cut(s)	186
Bst4CI	ACNGT	1 cut(s)	283
BstAPI	GCANNNNNTGC	2 cut(s)	74, 170
BstBAI	YACGTR	1 cut(s)	245
BstC8I	GCNNGC	1 cut(s)	86
BstDEI	CTNAG	2 cut(s)	139, 295
BstF5I	GGATG	2 cut(s)	107, 345
BstKTI	GATC	1 cut(s)	371
BstMAI	GTCTC	1 cut(s)	418
BstMBI	GATC	1 cut(s)	368
BstMWI	GCNNNNNNNGC	4 cut(s)	62, 74, 170, 299
BstNI	CCWGG	1 cut(s)	186
BstNSI	RCATGY	1 cut(s)	320
BstSCI	CCNGG	1 cut(s)	184
BstSFI	CTRYAG	1 cut(s)	334
BstSLI	GKGCMC	1 cut(s)	79
BstV1I	GCAGC	3 cut(s)	49, 52, 206
BstX2I	RGATCY	1 cut(s)	368
BstYI	RGATCY	1 cut(s)	368
BtsCI	GGATG	2 cut(s)	107, 345
BtsI	GCAGTG	1 cut(s)	168
BtsIMutI	CAGTG	2 cut(s)	168, 279
BveI	ACCTGC	1 cut(s)	61
Cac8I	GCNNGC	1 cut(s)	86
CaiI	CAGNNNCTG	1 cut(s)	170
Csp6I	GTAC	2 cut(s)	260, 352
CspCI	CAANNNNNGTGG	2 cut(s)	291, 326
CviAII	CATG	2 cut(s)	235, 317
CviJI	RGCY	6 cut(s)	84, 88, 134, 205, 219, 293
CviKI_1	RGCY	6 cut(s)	84, 88, 134, 205, 219, 293
CviQI	GTAC	2 cut(s)	260, 352
DdeI	CTNAG	2 cut(s)	139, 295
DpnI	GATC	1 cut(s)	370
DpnII	GATC	1 cut(s)	368
Eco31I	GGTCTC	1 cut(s)	418
EcoRII	CCWGG	1 cut(s)	184
FaeI	CATG	2 cut(s)	238, 320
FaiI	YATR	8 cut(s)	22, 45, 145, 236, 240, 242, 318, 360
FatI	CATG	2 cut(s)	234, 316
Fnu4HI	GCNGC	3 cut(s)	63, 66, 220
FokI	GGATG	2 cut(s)	114, 352
Fsp4HI	GCNGC	3 cut(s)	63, 66, 220
FspBI	CTAG	1 cut(s)	290
GluI	GCNGC	3 cut(s)	63, 66, 220
GsuI	CTGGAG	1 cut(s)	18
Hin1II	CATG	2 cut(s)	238, 320
HphI	GGTGA	1 cut(s)	433
Hpy166II	GTNNAC	1 cut(s)	77
Hpy188I	TCNGA	2 cut(s)	108, 131
Hpy188III	TCNNGA	2 cut(s)	99, 415
Hpy8I	GTNNAC	1 cut(s)	77
Hpy99I	CGWCG	1 cut(s)	421
HpyCH4III	ACNGT	1 cut(s)	283
HpyCH4IV	ACGT	1 cut(s)	244
HpyCH4V	TGCA	5 cut(s)	68, 77, 164, 336, 390
HpyF10VI	GCNNNNNNNGC	4 cut(s)	62, 74, 170, 299
HpyF3I	CTNAG	2 cut(s)	139, 295
HpySE526I	ACGT	1 cut(s)	244
Hsp92II	CATG	2 cut(s)	238, 320
Kzo9I	GATC	1 cut(s)	368
LmnI	GCTCC	2 cut(s)	131, 248
Lsp1109I	GCAGC	3 cut(s)	49, 52, 206
LweI	GCATC	1 cut(s)	330
MaeI	CTAG	1 cut(s)	290
MaeII	ACGT	1 cut(s)	244
MaeIII	GTNAC	3 cut(s)	166, 275, 397
MalI	GATC	1 cut(s)	370
MboI	GATC	1 cut(s)	368
MflI	RGATCY	1 cut(s)	368
MhlI	GDGCHC	2 cut(s)	79, 425
MluCI	AATT	3 cut(s)	322, 391, 437
MmeI	TCCRAC	3 cut(s)	50, 86, 109
MnlI	CCTC	4 cut(s)	42, 148, 192, 209
MslI	CAYNNNNRTG	2 cut(s)	173, 194
MspA1I	CMGCKG	1 cut(s)	205
MspR9I	CCNGG	1 cut(s)	186
MvaI	CCWGG	1 cut(s)	186
MwoI	GCNNNNNNNGC	4 cut(s)	62, 74, 170, 299
NdeII	GATC	1 cut(s)	368
NlaIII	CATG	2 cut(s)	238, 320
NlaIV	GGNNCC	2 cut(s)	110, 133
NmuCI	GTSAC	3 cut(s)	166, 275, 397
NspI	RCATGY	1 cut(s)	320
OliI	CACNNNNGTG	1 cut(s)	173
PaqCI	CACCTGC	1 cut(s)	61
PciI	ACATGT	1 cut(s)	316
PflMI	CCANNNNNTGG	1 cut(s)	185
PkrI	GCNGC	3 cut(s)	64, 67, 221
Ppu21I	YACGTR	1 cut(s)	245
PscI	ACATGT	1 cut(s)	316
Psp6I	CCWGG	1 cut(s)	184
PspGI	CCWGG	1 cut(s)	184
PspN4I	GGNNCC	2 cut(s)	110, 133
PstI	CTGCAG	1 cut(s)	338
PstNI	CAGNNNCTG	1 cut(s)	170
PsuI	RGATCY	1 cut(s)	368
PvuII	CAGCTG	1 cut(s)	205
RsaI	GTAC	2 cut(s)	261, 353
RsaNI	GTAC	2 cut(s)	260, 352
RseI	CAYNNNNRTG	2 cut(s)	173, 194
SatI	GCNGC	3 cut(s)	63, 66, 220
Sau3AI	GATC	1 cut(s)	368
ScrFI	CCNGG	1 cut(s)	186
SduI	GDGCHC	2 cut(s)	79, 425
SfaNI	GCATC	1 cut(s)	330
SfcI	CTRYAG	1 cut(s)	334
SmiMI	CAYNNNNRTG	2 cut(s)	173, 194
Sse9I	AATT	3 cut(s)	322, 391, 437
SsiI	CCGC	1 cut(s)	383
SspMI	CTAG	1 cut(s)	290
StyD4I	CCNGG	1 cut(s)	184
TaaI	ACNGT	1 cut(s)	283
TaiI	ACGT	1 cut(s)	247
TaqI	TCGA	1 cut(s)	416
TasI	AATT	3 cut(s)	322, 391, 437
TscAI	CASTG	2 cut(s)	175, 286
TseFI	GTSAC	3 cut(s)	166, 275, 397
TseI	GCWGC	3 cut(s)	62, 65, 219
Tsp45I	GTSAC	3 cut(s)	166, 275, 397
TspRI	CASTG	2 cut(s)	175, 286
Van91I	CCANNNNNTGG	1 cut(s)	185
VneI	GTGCAC	1 cut(s)	75
XapI	RAATTY	1 cut(s)	437
XceI	RCATGY	1 cut(s)	320
XspI	CTAG	1 cut(s)	290

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