Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7A

Orthogroup ID

OG0005486

Physical Location & Seq

Genomic Coordinates Forward (+)

24080345 .. 24082582

Gene Structure 2238 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7AG244600.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 426 bp

ATGCCAGTTCCACTTGCCCCATATCCAACACCTCCGGCACCTTATACACCACCTGCTACTGCTGCTACAAATGGTGCACAAAGCCAGCTCGTCTGCTCTGGATGCAGGAACCTTTTACTCTATCCAGTCGGAGCCACCTCAGTATGCTGTGCTGTTTGTAATGCAGTCACTGCTGTGCCACCTCCTGGCACAGAAATGGCACAGCTGGTCTGTGGCGGCTGCCACACCTTACTCATGTATATACGTGGAGCAACAAGCGTACAATGTTCTTGCTGTCACACTGTCAATCTAGCCTTAGAAGCAAATCAGGTGGCACATGTGAATTGTGGGAACTGCAGGATGCTACTAATGTACCAATATGGGGCAAGATCTGTGAAATGTGCGGTTTGCAATTTTGTGACATCCGTTGGGGTGAGTACAGAATAA

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

141

Amino Acids

14.58

Weight (kDa)

7.92

Isoelectric Point (pI)

38.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-LSD1	PF06943	32 - 56	5.8e-11	LSD1 zinc finger
zf-LSD1	PF06943	71 - 95	1.1e-12	LSD1 zinc finger
zf-LSD1	PF06943	109 - 133	4.3e-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

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

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
AccB1I	GGYRCC	1 cut(s)	37
AccB7I	CCANNNNNTGG	1 cut(s)	185
AciI	CCGC	2 cut(s)	216, 383
AfaI	GTAC	3 cut(s)	261, 353, 418
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	1 cut(s)	79
Alw44I	GTGCAC	1 cut(s)	75
AlwNI	CAGNNNCTG	1 cut(s)	170
ApaLI	GTGCAC	1 cut(s)	75
ApeKI	GCWGC	2 cut(s)	62, 219
AsuHPI	GGTGA	1 cut(s)	424
BaeGI	GKGCMC	1 cut(s)	79
BaeI	ACNNNNGTAYC	2 cut(s)	335, 368
BanI	GGYRCC	1 cut(s)	37
Bbv12I	GWGCWC	1 cut(s)	79
BbvI	GCAGC	2 cut(s)	49, 206
BciT130I	CCWGG	1 cut(s)	186
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, 217, 220
BlsI	GCNGC	3 cut(s)	64, 218, 221
Bme1390I	CCNGG	1 cut(s)	186
BmiI	GGNNCC	3 cut(s)	39, 110, 133
BmrFI	CCNGG	1 cut(s)	186
BmsI	GCATC	2 cut(s)	92, 330
BsaAI	YACGTR	1 cut(s)	245
Bsc4I	CCNNNNNNNGG	2 cut(s)	185, 361
Bse1I	ACTGG	2 cut(s)	5, 125
BseBI	CCWGG	1 cut(s)	186
BseGI	GGATG	3 cut(s)	107, 345, 401
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	2 cut(s)	49, 206
BshNI	GGYRCC	1 cut(s)	37
BsiHKAI	GWGCWC	1 cut(s)	79
BsiSI	CCGG	1 cut(s)	35
BslI	CCNNNNNNNGG	2 cut(s)	185, 361
Bsp1286I	GDGCHC	1 cut(s)	79
Bsp143I	GATC	1 cut(s)	368
BspACI	CCGC	2 cut(s)	216, 383
BspCNI	CTCAG	1 cut(s)	152
BspLI	GGNNCC	3 cut(s)	39, 110, 133
BspMAI	CTGCAG	1 cut(s)	338
BspMI	ACCTGC	1 cut(s)	61
BspT107I	GGYRCC	1 cut(s)	37
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	1 cut(s)	170
BstBAI	YACGTR	1 cut(s)	245
BstC8I	GCNNGC	1 cut(s)	86
BstDEI	CTNAG	2 cut(s)	139, 295
BstF5I	GGATG	3 cut(s)	107, 345, 401
BstKTI	GATC	1 cut(s)	371
BstMBI	GATC	1 cut(s)	368
BstMWI	GCNNNNNNNGC	4 cut(s)	62, 102, 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	2 cut(s)	49, 206
BstX2I	RGATCY	1 cut(s)	368
BstYI	RGATCY	1 cut(s)	368
BtsCI	GGATG	3 cut(s)	107, 345, 401
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	3 cut(s)	260, 352, 417
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	3 cut(s)	260, 352, 417
DdeI	CTNAG	2 cut(s)	139, 295
DpnI	GATC	1 cut(s)	370
DpnII	GATC	1 cut(s)	368
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, 217, 220
FokI	GGATG	3 cut(s)	114, 352, 388
Fsp4HI	GCNGC	3 cut(s)	63, 217, 220
FspBI	CTAG	1 cut(s)	290
GluI	GCNGC	3 cut(s)	63, 217, 220
HapII	CCGG	1 cut(s)	35
Hin1II	CATG	2 cut(s)	238, 320
HpaII	CCGG	1 cut(s)	35
HphI	GGTGA	1 cut(s)	424
Hpy166II	GTNNAC	1 cut(s)	77
Hpy188I	TCNGA	1 cut(s)	131
Hpy188III	TCNNGA	1 cut(s)	99
Hpy8I	GTNNAC	1 cut(s)	77
HpyCH4III	ACNGT	1 cut(s)	283
HpyCH4IV	ACGT	1 cut(s)	244
HpyCH4V	TGCA	5 cut(s)	77, 105, 164, 336, 390
HpyF10VI	GCNNNNNNNGC	4 cut(s)	62, 102, 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	2 cut(s)	49, 206
LweI	GCATC	2 cut(s)	92, 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	1 cut(s)	79
MluCI	AATT	2 cut(s)	322, 391
MmeI	TCCRAC	2 cut(s)	50, 109
MnlI	CCTC	3 cut(s)	42, 148, 192
MslI	CAYNNNNRTG	2 cut(s)	173, 194
MspA1I	CMGCKG	1 cut(s)	205
MspI	CCGG	1 cut(s)	35
MspR9I	CCNGG	1 cut(s)	186
MvaI	CCWGG	1 cut(s)	186
MwoI	GCNNNNNNNGC	4 cut(s)	62, 102, 170, 299
NdeII	GATC	1 cut(s)	368
NlaIII	CATG	2 cut(s)	238, 320
NlaIV	GGNNCC	3 cut(s)	39, 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, 218, 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	3 cut(s)	39, 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	3 cut(s)	261, 353, 418
RsaNI	GTAC	3 cut(s)	260, 352, 417
RseI	CAYNNNNRTG	2 cut(s)	173, 194
SatI	GCNGC	3 cut(s)	63, 217, 220
Sau3AI	GATC	1 cut(s)	368
ScrFI	CCNGG	1 cut(s)	186
SduI	GDGCHC	1 cut(s)	79
SfaNI	GCATC	2 cut(s)	92, 330
SfcI	CTRYAG	1 cut(s)	334
SmiMI	CAYNNNNRTG	2 cut(s)	173, 194
Sse9I	AATT	2 cut(s)	322, 391
SsiI	CCGC	2 cut(s)	216, 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
TasI	AATT	2 cut(s)	322, 391
TatI	WGTACW	1 cut(s)	416
TauI	GCSGC	1 cut(s)	219
TscAI	CASTG	2 cut(s)	175, 286
TseFI	GTSAC	3 cut(s)	166, 275, 397
TseI	GCWGC	2 cut(s)	62, 219
Tsp45I	GTSAC	3 cut(s)	166, 275, 397
TspGWI	ACGGA	1 cut(s)	394
TspRI	CASTG	2 cut(s)	175, 286
Van91I	CCANNNNNTGG	1 cut(s)	185
VneI	GTGCAC	1 cut(s)	75
XceI	RCATGY	1 cut(s)	320
XspI	CTAG	1 cut(s)	290

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