Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr05

Orthogroup ID

OG0007186

Physical Location & Seq

Genomic Coordinates Forward (+)

39884031 .. 39889591

Gene Structure 5561 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD05G1263500.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 555 bp

ATGTATTTGTTATTTATGCAGAGCCAGCTTGTGTGTAGTGGGTGTAGGAGCGTTCTTCTATATCCTAGAGGAGCTACAAATGTATGCTGTGCATTATGCAATACAATCACCCCAGTCCCTGCTCCTGGGACTGAAATGGCTCAACTTATTTGTGGGGGTTGTAGGACGTTGCTAATGCATACGCGTGGGGCAACAAGTGTGAGGTGCTCCTGTTGTCACACAGTAAATCTTGCTCCAGCATCCAGTCAGGTCGCCCACATCAACTGTGGAAACTGCCGGACAACGCTTATGTATCCATTTGGAGCTCCTTCGGTCAAATGTGCAGTCTGTCACTTTGTTACTAATGCTGGGATGGCCAATATGAGGGTTCCAATTCCAGCGCACAGACCTAATGGGACGGCCAATTCAGGAATGGTGCCCTCTACTTCAGCAGCAATGCCTCATTCTCAGAGCCAGACCGTTGTCGTTGAGAACCCTATGTCTGTTGACGAAAGTGGCAAATTGGTGAGCAACGTCGTCGTTGGTGTCACACGGGGAAAAACTAGCACAGCGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0008150 GO:0010941 GO:0043067 GO:0043069 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0060548 GO:0065007

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-LSD1

Protein Analysis

185

Amino Acids

19.21

Weight (kDa)

8.94

Isoelectric Point (pI)

44.82

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-LSD1	PF06943	12 - 36	4.2e-11	LSD1 zinc finger
zf-LSD1	PF06943	51 - 75	3.5e-12	LSD1 zinc finger
zf-LSD1	PF06943	89 - 113	9.3e-15	LSD1 zinc finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

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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: OG0007186)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G20380 AT4G20380 AT4G20380 AT4G20380 AT4G20380 AT4G20380 AT4G20380 AT4G20380 AT4G20380
malus_domestica	MD05G1263500.v1.1 MD10G1241200.v1.1
prunus_persica	Prupe.4G102000_v2.0.a1
pyrus_communis	pycom05g24750 pycom10g20220
rosa_chinensis	RchiOBHm_Chr5g0018361
rosa_laevigata	RLG00000032355
rosa_multiflora	Rmu_sc0004464.1_g000002 Rmu_sc0029003.1_g000001
rosa_roxburghii	Rroxscaffold_1G00059380
rosa_rugosa	Rorug05G0041800.1
rosa_samantha	Rh5AG135100 Rh5BG133700 Rh5CG145500 Rh5DG135100
rosa_wichuraiana	Rw5G011800

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	415
AccII	CGCG	1 cut(s)	184
AcoI	YGGCCR	2 cut(s)	354, 399
AcuI	CTGAAG	1 cut(s)	411
AdeI	CACNNNGTG	1 cut(s)	552
AfiI	CCNNNNNNNGG	2 cut(s)	125, 363
AflIII	ACRYGT	1 cut(s)	182
AjnI	CCWGG	1 cut(s)	124
AluBI	AGCT	3 cut(s)	28, 74, 305
AluI	AGCT	3 cut(s)	28, 74, 305
Alw21I	GWGCWC	2 cut(s)	209, 307
AlwNI	CAGNNNCTG	1 cut(s)	119
AoxI	GGCC	2 cut(s)	354, 399
ApeKI	GCWGC	1 cut(s)	431
ArsI	GACNNNNNNTTYG	2 cut(s)	309, 341
AspLEI	GCGC	1 cut(s)	382
AsuHPI	GGTGA	2 cut(s)	100, 517
BaeGI	GKGCMC	1 cut(s)	420
BalI	TGGCCA	1 cut(s)	356
BanI	GGYRCC	1 cut(s)	415
BanII	GRGCYC	1 cut(s)	307
Bbv12I	GWGCWC	2 cut(s)	209, 307
BbvI	GCAGC	1 cut(s)	443
BccI	CCATC	1 cut(s)	346
BceAI	ACGGC	1 cut(s)	414
BcgI	CGANNNNNNTGC	2 cut(s)	499, 533
BciT130I	CCWGG	1 cut(s)	126
BciVI	GTATCC	1 cut(s)	303
BfaI	CTAG	2 cut(s)	66, 543
BfuI	GTATCC	1 cut(s)	303
BisI	GCNGC	1 cut(s)	432
BlsI	GCNGC	1 cut(s)	433
Bme1390I	CCNGG	1 cut(s)	126
BmiI	GGNNCC	2 cut(s)	369, 417
BmrFI	CCNGG	1 cut(s)	126
BmrI	ACTGGG	1 cut(s)	107
BmsI	GCATC	1 cut(s)	248
BmuI	ACTGGG	1 cut(s)	107
BoxI	GACNNNNGTC	1 cut(s)	461
BpmI	CTGGAG	1 cut(s)	219
BsaJI	CCNNGG	1 cut(s)	125
Bsc4I	CCNNNNNNNGG	2 cut(s)	125, 363
Bse1I	ACTGG	2 cut(s)	113, 243
Bse3DI	GCAATG	1 cut(s)	441
BseBI	CCWGG	1 cut(s)	126
BseDI	CCNNGG	1 cut(s)	125
BseGI	GGATG	2 cut(s)	239, 357
BseLI	CCNNNNNNNGG	2 cut(s)	125, 363
BseMI	GCAATG	1 cut(s)	441
BseMII	CTCAG	1 cut(s)	461
BseNI	ACTGG	2 cut(s)	113, 243
BseRI	GAGGAG	1 cut(s)	84
BseSI	GKGCMC	1 cut(s)	420
BseXI	GCAGC	1 cut(s)	443
BseYI	CCCAGC	1 cut(s)	347
BsgI	GTGCAG	1 cut(s)	342
Bsh1236I	CGCG	1 cut(s)	184
BshFI	GGCC	2 cut(s)	356, 401
BshNI	GGYRCC	1 cut(s)	415
BsiHKAI	GWGCWC	2 cut(s)	209, 307
BsiSI	CCGG	1 cut(s)	277
BslFI	GGGAC	3 cut(s)	101, 142, 409
BslI	CCNNNNNNNGG	2 cut(s)	125, 363
BsmFI	GGGAC	3 cut(s)	101, 142, 409
BsnI	GGCC	2 cut(s)	356, 401
Bsp1286I	GDGCHC	3 cut(s)	209, 307, 420
BspANI	GGCC	2 cut(s)	356, 401
BspCNI	CTCAG	1 cut(s)	460
BspFNI	CGCG	1 cut(s)	184
BspLI	GGNNCC	2 cut(s)	369, 417
BspT107I	GGYRCC	1 cut(s)	415
BsrDI	GCAATG	1 cut(s)	441
BsrI	ACTGG	2 cut(s)	113, 243
BssECI	CCNNGG	1 cut(s)	125
Bst2UI	CCWGG	1 cut(s)	126
Bst4CI	ACNGT	3 cut(s)	223, 266, 460
BstC8I	GCNNGC	1 cut(s)	26
BstDEI	CTNAG	1 cut(s)	447
BstF5I	GGATG	2 cut(s)	239, 357
BstFNI	CGCG	1 cut(s)	184
BstHHI	GCGC	1 cut(s)	382
BstMWI	GCNNNNNNNGC	2 cut(s)	25, 353
BstNI	CCWGG	1 cut(s)	126
BstPAI	GACNNNNGTC	1 cut(s)	461
BstSCI	CCNGG	1 cut(s)	124
BstSLI	GKGCMC	1 cut(s)	420
BstUI	CGCG	1 cut(s)	184
BstV1I	GCAGC	1 cut(s)	443
BsuI	GTATCC	1 cut(s)	303
BsuRI	GGCC	2 cut(s)	356, 401
BtsCI	GGATG	2 cut(s)	239, 357
Cac8I	GCNNGC	1 cut(s)	26
CaiI	CAGNNNCTG	1 cut(s)	119
CfoI	GCGC	1 cut(s)	382
CviJI	RGCY	8 cut(s)	24, 28, 74, 140, 305, 356, 401, 453
CviKI_1	RGCY	8 cut(s)	24, 28, 74, 140, 305, 356, 401, 453
DdeI	CTNAG	1 cut(s)	447
DraIII	CACNNNGTG	1 cut(s)	552
EaeI	YGGCCR	2 cut(s)	354, 399
Ecl136II	GAGCTC	1 cut(s)	305
Eco24I	GRGCYC	1 cut(s)	307
Eco53kI	GAGCTC	1 cut(s)	305
Eco57I	CTGAAG	1 cut(s)	411
EcoICRI	GAGCTC	1 cut(s)	305
EcoRII	CCWGG	1 cut(s)	124
EcoT22I	ATGCAT	1 cut(s)	180
EcoT38I	GRGCYC	1 cut(s)	307
FaiI	YATR	8 cut(s)	17, 61, 85, 97, 180, 290, 362, 479
FaqI	GGGAC	3 cut(s)	101, 142, 409
Fnu4HI	GCNGC	1 cut(s)	432
FokI	GGATG	2 cut(s)	226, 364
FriOI	GRGCYC	1 cut(s)	307
Fsp4HI	GCNGC	1 cut(s)	432
FspBI	CTAG	2 cut(s)	66, 543
GlaI	GCGC	1 cut(s)	381
GluI	GCNGC	1 cut(s)	432
GsaI	CCCAGC	1 cut(s)	351
GsuI	CTGGAG	1 cut(s)	219
HaeIII	GGCC	2 cut(s)	356, 401
HapII	CCGG	1 cut(s)	277
HhaI	GCGC	1 cut(s)	382
Hin6I	GCGC	1 cut(s)	380
HinP1I	GCGC	1 cut(s)	380
HincII	GTYRAC	1 cut(s)	487
HindII	GTYRAC	1 cut(s)	487
HpaII	CCGG	1 cut(s)	277
HphI	GGTGA	2 cut(s)	100, 517
Hpy166II	GTNNAC	1 cut(s)	487
Hpy188I	TCNGA	1 cut(s)	450
Hpy188III	TCNNGA	1 cut(s)	408
Hpy8I	GTNNAC	1 cut(s)	487
Hpy99I	CGWCG	2 cut(s)	518, 521
HpyAV	CCTTC	1 cut(s)	318
HpyCH4III	ACNGT	3 cut(s)	223, 266, 460
HpyCH4IV	ACGT	2 cut(s)	167, 513
HpyCH4V	TGCA	5 cut(s)	19, 92, 99, 178, 323
HpyF10VI	GCNNNNNNNGC	2 cut(s)	25, 353
HpyF3I	CTNAG	1 cut(s)	447
HpySE526I	ACGT	2 cut(s)	167, 513
HspAI	GCGC	1 cut(s)	380
LmnI	GCTCC	7 cut(s)	48, 71, 127, 212, 238, 302, 310
Lsp1109I	GCAGC	1 cut(s)	443
LweI	GCATC	1 cut(s)	248
MaeI	CTAG	2 cut(s)	66, 543
MaeII	ACGT	2 cut(s)	167, 513
MaeIII	GTNAC	4 cut(s)	215, 329, 337, 526
MboII	GAAGA	1 cut(s)	47
MhlI	GDGCHC	3 cut(s)	209, 307, 420
MlsI	TGGCCA	1 cut(s)	356
MluCI	AATT	3 cut(s)	372, 403, 500
MluI	ACGCGT	1 cut(s)	182
MluNI	TGGCCA	1 cut(s)	356
MnlI	CCTC	5 cut(s)	62, 195, 357, 430, 450
Mox20I	TGGCCA	1 cut(s)	356
Mph1103I	ATGCAT	1 cut(s)	180
MscI	TGGCCA	1 cut(s)	356
MslI	CAYNNNNRTG	1 cut(s)	183
Msp20I	TGGCCA	1 cut(s)	356
MspI	CCGG	1 cut(s)	277
MspR9I	CCNGG	1 cut(s)	126
MvaI	CCWGG	1 cut(s)	126
MvnI	CGCG	1 cut(s)	184
MwoI	GCNNNNNNNGC	2 cut(s)	25, 353
NlaIV	GGNNCC	2 cut(s)	369, 417
NmuCI	GTSAC	3 cut(s)	215, 329, 526
NsiI	ATGCAT	1 cut(s)	180
PkrI	GCNGC	1 cut(s)	433
PshAI	GACNNNNGTC	1 cut(s)	461
Psp124BI	GAGCTC	1 cut(s)	307
Psp6I	CCWGG	1 cut(s)	124
PspFI	CCCAGC	1 cut(s)	347
PspGI	CCWGG	1 cut(s)	124
PspN4I	GGNNCC	2 cut(s)	369, 417
PstNI	CAGNNNCTG	1 cut(s)	119
RseI	CAYNNNNRTG	1 cut(s)	183
SacI	GAGCTC	1 cut(s)	307
SatI	GCNGC	1 cut(s)	432
ScrFI	CCNGG	1 cut(s)	126
SduI	GDGCHC	3 cut(s)	209, 307, 420
SetI	ASST	8 cut(s)	30, 76, 170, 206, 252, 307, 391, 516
SfaNI	GCATC	1 cut(s)	248
SmiMI	CAYNNNNRTG	1 cut(s)	183
Sse9I	AATT	3 cut(s)	372, 403, 500
SspMI	CTAG	2 cut(s)	66, 543
SstI	GAGCTC	1 cut(s)	307
StyD4I	CCNGG	1 cut(s)	124
TaaI	ACNGT	3 cut(s)	223, 266, 460
TaiI	ACGT	2 cut(s)	170, 516
TaqII	GACCGA	1 cut(s)	301
TasI	AATT	3 cut(s)	372, 403, 500
TseFI	GTSAC	3 cut(s)	215, 329, 526
TseI	GCWGC	1 cut(s)	431
Tsp45I	GTSAC	3 cut(s)	215, 329, 526
XcmI	CCANNNNNNNNNTGG	2 cut(s)	263, 409
XspI	CTAG	2 cut(s)	66, 543
Zsp2I	ATGCAT	1 cut(s)	180

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