Basic Information

Type: gene

Biological Identity

Species

malus_domestica

Chromosome

Chr08

Orthogroup ID

OG0010774

Physical Location & Seq

Genomic Coordinates Reverse (-)

31090376 .. 31093106

Gene Structure 2731 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

MD08G1247300.v1.1.491

Sequence Viewer

CDS Protein Promoter (2k)

Length: 267 bp

ATGGCGACAATACCAGTTAACCCCAAACCTTTCTTGAACAATCTGACTGGAAAGACTGTCATTGTGAAACTTAAATGGGGAATGGAGTACAAAGGCTTCCTTGTCTCAACGGATGCCTATATGAACTTGCAGCTGGCCAACACCGAAGAATATATTGATGGACAATCCACTGGAAATCTGGGAGAAATTTTGATCAGGTGTAACAACGTTCTCTATCTTCGTGGGGTGCCAGAGGATGAAGAGATTGAAGACGCTGAACAGGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000375 GO:0000377 GO:0000398 GO:0003674 GO:0003676 GO:0003723 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005681 GO:0005685 GO:0006139 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0030532 GO:0032991 GO:0034641 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0071013 GO:0071704 GO:0090304 GO:0097159 GO:0097525 GO:0120114 GO:1901360 GO:1901363 GO:1902494 GO:1990904

KEGG Pathways

Metabolic & Signaling

ko03040 map03040

Pfam Domains

Protein Families

LSM

Protein Analysis

89

Amino Acids

9.89

Weight (kDa)

4.39

Isoelectric Point (pI)

52.1

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
LSM	PF01423	10 - 73	9e-24	LSM domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0010774)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G30220 AT4G30220
fragaria_vesca	FvH4_5g33040 FvH4_7g09330
malus_domestica	MD08G1247300.v1.1 MD13G1253400.v1.1 MD16G1257700.v1.1
prunus_persica	Prupe.1G085500_v2.0.a1 Prupe.1G584000_v2.0.a1 Prupe.1G584000_v2.0.a1
pyrus_communis	pycom08g21420 pycom13g22460
rosa_chinensis	RchiOBHm_Chr7g0231121
rosa_roxburghii	Rroxscaffold_3G00229470
rosa_rugosa	Rorug07G0264800
rosa_samantha	Rh7AG417600 Rh7BG393800 Rh7CG437600 Rh7DG411600
rosa_wichuraiana	Rw7G034580

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	226
AclI	AACGTT	1 cut(s)	207
AcoI	YGGCCR	1 cut(s)	135
AcsI	RAATTY	1 cut(s)	186
AfaI	GTAC	1 cut(s)	89
AgsI	TTSAA	2 cut(s)	37, 248
AluBI	AGCT	1 cut(s)	133
AluI	AGCT	1 cut(s)	133
Alw26I	GTCTC	1 cut(s)	109
AoxI	GGCC	1 cut(s)	135
ApeKI	GCWGC	1 cut(s)	130
ApoI	RAATTY	1 cut(s)	186
BalI	TGGCCA	1 cut(s)	137
BanI	GGYRCC	1 cut(s)	226
BarI	GAAGNNNNNNTAC	2 cut(s)	80, 112
BbsI	GAAGAC	1 cut(s)	255
BbvI	GCAGC	1 cut(s)	142
BccI	CCATC	1 cut(s)	152
BclI	TGATCA	1 cut(s)	192
BcoDI	GTCTC	1 cut(s)	109
BisI	GCNGC	1 cut(s)	131
BlsI	GCNGC	1 cut(s)	132
BmiI	GGNNCC	1 cut(s)	228
BmsI	GCATC	1 cut(s)	103
BpiI	GAAGAC	1 cut(s)	255
Bse1I	ACTGG	3 cut(s)	14, 52, 175
BseGI	GGATG	2 cut(s)	118, 241
BseNI	ACTGG	3 cut(s)	14, 52, 175
BseXI	GCAGC	1 cut(s)	142
BshFI	GGCC	1 cut(s)	137
BshNI	GGYRCC	1 cut(s)	226
BsmAI	GTCTC	1 cut(s)	109
BsnI	GGCC	1 cut(s)	137
Bsp143I	GATC	1 cut(s)	192
BspANI	GGCC	1 cut(s)	137
BspLI	GGNNCC	1 cut(s)	228
BspT107I	GGYRCC	1 cut(s)	226
BsrI	ACTGG	3 cut(s)	14, 52, 175
BssMI	GATC	1 cut(s)	192
Bst4CI	ACNGT	1 cut(s)	58
Bst6I	CTCTTC	1 cut(s)	234
BstC8I	GCNNGC	1 cut(s)	135
BstF5I	GGATG	2 cut(s)	118, 241
BstKTI	GATC	1 cut(s)	195
BstMAI	GTCTC	1 cut(s)	109
BstMBI	GATC	1 cut(s)	192
BstV1I	GCAGC	1 cut(s)	142
BstV2I	GAAGAC	1 cut(s)	255
BsuRI	GGCC	1 cut(s)	137
BtsCI	GGATG	2 cut(s)	118, 241
BtsIMutI	CAGTG	1 cut(s)	168
Cac8I	GCNNGC	1 cut(s)	135
CseI	GACGC	1 cut(s)	260
Csp6I	GTAC	1 cut(s)	88
CviJI	RGCY	3 cut(s)	96, 133, 137
CviKI_1	RGCY	3 cut(s)	96, 133, 137
CviQI	GTAC	1 cut(s)	88
DpnI	GATC	1 cut(s)	194
DpnII	GATC	1 cut(s)	192
EaeI	YGGCCR	1 cut(s)	135
Eam1104I	CTCTTC	1 cut(s)	234
EarI	CTCTTC	1 cut(s)	234
FaiI	YATR	3 cut(s)	120, 122, 153
FalI	AAGNNNNNCTT	2 cut(s)	84, 116
FbaI	TGATCA	1 cut(s)	192
Fnu4HI	GCNGC	1 cut(s)	131
FokI	GGATG	2 cut(s)	125, 248
Fsp4HI	GCNGC	1 cut(s)	131
GluI	GCNGC	1 cut(s)	131
HaeIII	GGCC	1 cut(s)	137
HgaI	GACGC	1 cut(s)	260
HincII	GTYRAC	1 cut(s)	19
HindII	GTYRAC	1 cut(s)	19
HpaI	GTTAAC	1 cut(s)	19
Hpy166II	GTNNAC	1 cut(s)	19
Hpy188I	TCNGA	1 cut(s)	45
Hpy188III	TCNNGA	1 cut(s)	34
Hpy8I	GTNNAC	1 cut(s)	19
HpyCH4III	ACNGT	1 cut(s)	58
HpyCH4IV	ACGT	1 cut(s)	207
HpyCH4V	TGCA	1 cut(s)	130
HpySE526I	ACGT	1 cut(s)	207
Ksp22I	TGATCA	1 cut(s)	192
KspAI	GTTAAC	1 cut(s)	19
Kzo9I	GATC	1 cut(s)	192
LpnPI	CCDG	8 cut(s)	27, 33, 119, 156, 164, 181, 243, 245
Lsp1109I	GCAGC	1 cut(s)	142
LweI	GCATC	1 cut(s)	103
MaeII	ACGT	1 cut(s)	207
MaeIII	GTNAC	1 cut(s)	200
MalI	GATC	1 cut(s)	194
MboI	GATC	1 cut(s)	192
MboII	GAAGA	4 cut(s)	158, 209, 251, 260
MlsI	TGGCCA	1 cut(s)	137
MluCI	AATT	1 cut(s)	186
MluNI	TGGCCA	1 cut(s)	137
MnlI	CCTC	1 cut(s)	226
Mox20I	TGGCCA	1 cut(s)	137
MscI	TGGCCA	1 cut(s)	137
MseI	TTAA	2 cut(s)	18, 72
Msp20I	TGGCCA	1 cut(s)	137
MspA1I	CMGCKG	1 cut(s)	133
NdeII	GATC	1 cut(s)	192
NlaIV	GGNNCC	1 cut(s)	228
PkrI	GCNGC	1 cut(s)	132
Psp1406I	AACGTT	1 cut(s)	207
PspN4I	GGNNCC	1 cut(s)	228
PvuII	CAGCTG	1 cut(s)	133
RsaI	GTAC	1 cut(s)	89
RsaNI	GTAC	1 cut(s)	88
SaqAI	TTAA	2 cut(s)	18, 72
SatI	GCNGC	1 cut(s)	131
Sau3AI	GATC	1 cut(s)	192
SetI	ASST	4 cut(s)	31, 135, 200, 210
SfaNI	GCATC	1 cut(s)	103
Sse9I	AATT	1 cut(s)	186
TaaI	ACNGT	1 cut(s)	58
TaiI	ACGT	1 cut(s)	210
TasI	AATT	1 cut(s)	186
TatI	WGTACW	1 cut(s)	87
Tru1I	TTAA	2 cut(s)	18, 72
Tru9I	TTAA	2 cut(s)	18, 72
TscAI	CASTG	1 cut(s)	175
TseI	GCWGC	1 cut(s)	130
TspDTI	ATGAA	2 cut(s)	137, 252
TspGWI	ACGGA	1 cut(s)	125
TspRI	CASTG	1 cut(s)	175
XapI	RAATTY	1 cut(s)	186
XcmI	CCANNNNNNNNNTGG	1 cut(s)	175

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