Gene detail

Detail information of MD04G1110800 Annotation

Gene ID	Annotation
MD04G1110800	RING/U-box superfamily protein

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
Co-expression network	CFinderM0374	magnesium chelatase subunit H [EC:6.6.1.1] chloroplast inner membrane chlorophyll biosynthetic process thylakoid membrane organization rRNA processing chloroplast stroma amyloplast magnesium chelatase complex photosynthesis chloroplast thylakoid membrane plastid chromosome chloroplast relocation carotenoid biosynthetic process stomatal complex morphogenesis magnesium chelatase activity pentose-phosphate shunt photosystem II stabilization

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD04G1110800	mRNA	Chr04	19554498	19555322	+

Sequences

CDS:

Protein:

Gene family

Gene family	Subfamily
Ubiquitin Family	RING

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT5G02750.1	1	SGR9\|SHOOT GRAVITROPISM 9
Pyrus communis	PCP044939.1	1	-
Pyrus x bretschneideri	Pbr029346.1	1	-
Solanum lycopersicum	Solyc09g007060.2.1	1	RING/U-box superfamily protein
Populus trichocarpa	Potri.006G216200.1	1	RING/U-box superfamily protein
Populus trichocarpa	Potri.016G082500.1	0.603	RING/U-box superfamily protein
Nicotiana benthamiana	Niben101Scf05306g04010.1	1	RING finger protein 165
Oryza sativa	LOC_Os05g33830.1	1	"zinc finger, C3HC4 type domain containing protein, expressed"

Gene Ontology

GO term	Description	Category
GO:0008270	zinc ion binding	molecular_function
GO:0005515	protein binding	molecular_function

KEGG

KO	Description	Enzyme
--	--	--

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF13639.2	zf-RING_2	204	246	4.00E-12

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	9.90801
SRR5252888	dormant buds	no	dormant buds(0 month)	0
SRR5252889	dormant buds	no	dormant buds(0 month)	0.839599
SRR5252886	dormant buds	no	dormant buds(1 months)	0.920667
SRR5252887	dormant buds	no	dormant buds(1 months)	0.978489
SRR5252884	dormant buds	no	dormant buds(2 months)	2.08353
SRR5252882	dormant buds	no	dormant buds(3 months)	1.30604
SRR5252883	dormant buds	no	dormant buds(3 months)	2.27705
SRR5252880	dormant buds	no	dormant buds(4 months)	1.30344
SRR5252881	dormant buds	no	dormant buds(4 months)	0.578705
SRR5252878	bud break	no	bud break	3.11583
SRR5252879	bud break	no	bud break	3.31116
SRR3744766	flower	no	mature	0.449597
SRR3744767	flower	no	mature	0.346349
SRR3744768	flower	no	mature	0.302917
SRR6308190	stigmas	no	open flowers	1.21587
SRR6308181	styles	no	open flowers	1.0416
SRR6308188	filaments	no	open flowers	0
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	0.269036
SRR6308192	pollen	no	open flowers	0
SRR6308191	petals	no	open flowers	0
SRR6308194	sepals	no	open flowers	0
SRR6308193	receptacles	no	open flowers	0.345176
SRR6308189	ovaries	no	open flowers	1.26043
SRR3384922	fruit	no	1 week after full bloom	3.30217
SRR3384921	fruit	no	2 week after full bloom	2.38293
SRR3384920	fruit	no	3 week after full bloom	5.36209
SRR3384919	fruit	no	4 week after full bloom	1.93844
SRR3384923	fruit	no	5 week after full bloom	1.12655
SRR3384918	fruit	no	6 week after full bloom	0.798049
SRR3384917	fruit	no	8 week after full bloom	0.658387
SRR3384916	fruit	no	10 week after full bloom	0.213825
SRR3384915	fruit	no	12 week after full bloom	0.252995
SRR3384914	fruit	no	14 week after full bloom	0.122685
SRR3384913	fruit	no	16 week after full bloom	0.289004
SRR3384912	fruit	no	18 week after full bloom	0
SRR3384911	fruit	no	19 week after full bloom	0
SRR3384910	fruit	no	20 week after full bloom	0
SRR768128	whole fruit	no	25 days post anthesis	3.51274
SRR768129	whole fruit	no	35 days post anthesis	0.803647
SRR768130	whole fruit	no	60 days post anthesis	0.808434
SRR768131	whole fruit	no	87 days post anthesis	0.202838
SRR7343308	immature fruit flesh	no	immature	0
SRR7343309	immature fruit flesh	no	immature	1.44759
SRR6320494	ripe fruit flesh	no	mature	0
SRR5405143	ripe fruit peel	no	mature	0
SRR6320572	ripe fruit peel	no	mature	0
SRR7403504	fruit	uninfected	mature	0
SRR7403506	fruit	uninfected	mature	0
SRR7403507	fruit	uninfected	mature	0
SRR7403500	fruit	infected with penicillium expansum	mature	0
SRR7403501	fruit	infected with penicillium expansum	mature	0
SRR7403508	fruit	infected with penicillium expansum	mature	0
SRR7403502	fruit	infected with penicillium expansum	mature	0
SRR7403503	fruit	infected with penicillium expansum	mature	0
SRR7403505	fruit	infected with penicillium expansum	mature	0
SRR1613973	Central seeds	no	20DAPF	0.54219
SRR1613974	Central seeds	no	20DAPF	0.645662
SRR1613975	Central seeds	no	20DAPF	0.606868
SRR1613976	Lateral seeds	no	20DAPF	0.691542
SRR1613977	Lateral seeds	no	20DAPF	0.678993
SRR1613978	Lateral seeds	no	20DAPF	0.346494
SRR3744786	stem	no	mature	0.404877
SRR3744787	stem	no	mature	0.458506
SRR3744772	stem	no	mature	0.457274
SRX765691	seedling shoot apex	no	4-6 week old seedling	1.67043
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	2.54844
SRR1089478	leaf	Virus-free	plantlets	3.25908
SRR1089477	leaf	ASGV-infected	plantlets	2.88918
SRR767660	leaf	uninfected	fully developed	14.1475
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	19.7182
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	18.1991
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	3.0474
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	0
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	9.14008
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	7.76435
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	5.1133
SRR6308182	young leaf	no	immature leaves	2.75178
SRR3744769	leaf	no	mature	1.94105
SRR3744770	leaf	no	mature	2.12771
SRR3744771	leaf	no	mature	2.59917
SRR5405145	leaf	no	mature	11.6725
SRR6320561	leaf	no	mature	7.26234