Gene detail

Detail information of MD13G1253400 Annotation

Gene ID	Annotation
MD13G1253400	small nuclear ribonucleoprotein F

Network

Network Category	Global Network	Conditional network (different tissues and developmental stages)
Coexpression Positive	Top300 PCC genelist	Top300 PCC genelist
Coexpression Negative	Top300 PCC genelist	Top300 PCC genelist

Functional module

Method	Module ID	Function Annotation
--	--	--

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD13G1253400	mRNA	Chr13	27202707	27206342	-

Sequences

CDS:

Protein:

Gene family

Gene family	Subfamily
--	--

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Prunus persica	Prupe.1G085500.1.p	1	small nuclear ribonucleoprotein F
Prunus persica	Prupe.1G584000.1.p	1	small nuclear ribonucleoprotein F
Pyrus communis	PCP033995.1	1	-
Pyrus communis	PCP041827.1	1	-
Pyrus x bretschneideri	Pbr014202.2	1	-
Vitis vinifera	GSVIVT01003994001	1	small nuclear ribonucleoprotein F
Solanum lycopersicum	Solyc10g081370.1.1	1	small nuclear ribonucleoprotein F
Populus trichocarpa	Potri.018G092200.1	1	small nuclear ribonucleoprotein F
Nicotiana benthamiana	Niben101Scf04632g10007.1	1	Small nuclear ribonucleoprotein F
Nicotiana benthamiana	Niben101Scf00393g02002.1	1	Small nuclear ribonucleoprotein F
Oryza sativa	LOC_Os11g43620.2	1	"LSM domain containing protein, expressed"
Oryza sativa	LOC_Os02g08090.2	1	"LSM domain containing protein, expressed"
Zea mays	GRMZM2G168252_P01	1	Small nuclear ribonucleoprotein F;
Zea mays	GRMZM2G058252_P01	1	Small nuclear ribonucleoprotein F;

Gene Ontology

GO term	Description	Category
GO:0005634	nucleus	cellular component
GO:0006396	RNA processing	biological_process

KEGG

KO	Description	Enzyme
K11098	small nuclear ribonucleoprotein F	-

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF01423.18	LSM	11	74	3.50E-22

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	27.8731
SRR5252888	dormant buds	no	dormant buds(0 month)	24.9525
SRR5252889	dormant buds	no	dormant buds(0 month)	30.7128
SRR5252886	dormant buds	no	dormant buds(1 months)	22.4522
SRR5252887	dormant buds	no	dormant buds(1 months)	23.8622
SRR5252884	dormant buds	no	dormant buds(2 months)	19.8012
SRR5252882	dormant buds	no	dormant buds(3 months)	29.602
SRR5252883	dormant buds	no	dormant buds(3 months)	21.4362
SRR5252880	dormant buds	no	dormant buds(4 months)	39.266
SRR5252881	dormant buds	no	dormant buds(4 months)	33.4141
SRR5252878	bud break	no	bud break	27.5633
SRR5252879	bud break	no	bud break	51.2166
SRR3744766	flower	no	mature	8.40427
SRR3744767	flower	no	mature	9.91354
SRR3744768	flower	no	mature	9.48774
SRR6308190	stigmas	no	open flowers	8.28568
SRR6308181	styles	no	open flowers	13.4241
SRR6308188	filaments	no	open flowers	17.8013
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	3.78322
SRR6308192	pollen	no	open flowers	6.55716
SRR6308191	petals	no	open flowers	10.3743
SRR6308194	sepals	no	open flowers	12.5016
SRR6308193	receptacles	no	open flowers	26.7324
SRR6308189	ovaries	no	open flowers	15.3649
SRR3384922	fruit	no	1 week after full bloom	36.5002
SRR3384921	fruit	no	2 week after full bloom	33.051
SRR3384920	fruit	no	3 week after full bloom	25.4224
SRR3384919	fruit	no	4 week after full bloom	23.023
SRR3384923	fruit	no	5 week after full bloom	24.6866
SRR3384918	fruit	no	6 week after full bloom	13.9042
SRR3384917	fruit	no	8 week after full bloom	15.8231
SRR3384916	fruit	no	10 week after full bloom	16.7205
SRR3384915	fruit	no	12 week after full bloom	16.5166
SRR3384914	fruit	no	14 week after full bloom	15.6666
SRR3384913	fruit	no	16 week after full bloom	8.91535
SRR3384912	fruit	no	18 week after full bloom	10.5069
SRR3384911	fruit	no	19 week after full bloom	7.46469
SRR3384910	fruit	no	20 week after full bloom	6.13688
SRR768128	whole fruit	no	25 days post anthesis	16.9365
SRR768129	whole fruit	no	35 days post anthesis	16.5322
SRR768130	whole fruit	no	60 days post anthesis	7.31443
SRR768131	whole fruit	no	87 days post anthesis	4.63632
SRR7343308	immature fruit flesh	no	immature	8.32634
SRR7343309	immature fruit flesh	no	immature	9.37404
SRR6320494	ripe fruit flesh	no	mature	0.971349
SRR5405143	ripe fruit peel	no	mature	7.06963
SRR6320572	ripe fruit peel	no	mature	0.819437
SRR7403504	fruit	uninfected	mature	4.1594
SRR7403506	fruit	uninfected	mature	3.06544
SRR7403507	fruit	uninfected	mature	3.88234
SRR7403500	fruit	infected with penicillium expansum	mature	2.00004
SRR7403501	fruit	infected with penicillium expansum	mature	2.226
SRR7403508	fruit	infected with penicillium expansum	mature	1.87216
SRR7403502	fruit	infected with penicillium expansum	mature	0.827116
SRR7403503	fruit	infected with penicillium expansum	mature	1.84764
SRR7403505	fruit	infected with penicillium expansum	mature	1.86841
SRR1613973	Central seeds	no	20DAPF	37.8913
SRR1613974	Central seeds	no	20DAPF	40.2509
SRR1613975	Central seeds	no	20DAPF	35.823
SRR1613976	Lateral seeds	no	20DAPF	37.5801
SRR1613977	Lateral seeds	no	20DAPF	36.9545
SRR1613978	Lateral seeds	no	20DAPF	39.3463
SRR3744786	stem	no	mature	12.2141
SRR3744787	stem	no	mature	12.5383
SRR3744772	stem	no	mature	10.6581
SRX765691	seedling shoot apex	no	4-6 week old seedling	25.5294
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	33.3648
SRR1089478	leaf	Virus-free	plantlets	2.98382
SRR1089477	leaf	ASGV-infected	plantlets	5.91487
SRR767660	leaf	uninfected	fully developed	12.0761
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	0
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	4.03975
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	8.67376
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	0
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	9.05534
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	4.48348
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	5.99277
SRR6308182	young leaf	no	immature leaves	45.2474
SRR3744769	leaf	no	mature	10.0525
SRR3744770	leaf	no	mature	7.65261
SRR3744771	leaf	no	mature	10.795
SRR5405145	leaf	no	mature	0
SRR6320561	leaf	no	mature	7.28217