Gene detail

Detail information of MD08G1219500 Annotation

Gene ID	Annotation
MD08G1219500	Protease-associated (PA) RING/U-box zinc finger family 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	CFinderM0109	E3 ubiquitin-protein ligase RNF13 [EC:2.3.2.27]

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD08G1219500	mRNA	Chr08	28214368	28221285	+

Sequences

CDS:

MD08G1219500

GAGTAACTGGAGTTCCCGTAAAATTGAACCATCCCTTTTTATGTATAAATCAATTAGCTGTCAAAAGGGTTCTCTCCTTTTTTCTCAGCTGTTGAAATCAAATCAGAAAATTGCAGAAAAGCATCAAAGTATATATAAAAAAGGGGATTTTAGATGCTTTGTGGATCAGAAAATGGATTTTGTTAAGTTATATTATCAATTTTGCTTCCTTGTTTGTCCTTTTCCCCAACTAGTTGAGAGTTAAATTATCCAAATTGGTACTTTAGGGTTTTGATCGGGGGGATTGATGAGCACTATGAATCTGGCGGTGGTTCTGGTGGCGGTGGCGGTGGTTCTGTTCGGCCGATTTTGCATCACCAAGGCCAATGTGGTGCTGATGGGGAACAACGTCACTCTCTCTTTCGACGACAAGGAAGCTACTTTTGCTCCGGAGGTTAAGGGTTCCGGGGAATGCGGAGTATTGTATTTGGCCGAGCCTCCTCATGCGTGCTCGACATTGACTAATCAAGTCGAACAAGGCACGAATTATAGCTCCCCCTTCGTTTTGATCGTAAGAGGAGGGTGTAGTTTTGAGGATAAAGTTAGAAGAGCACAAAAGGCCGGCTTCAAAGCTGCAATTATCTACGACAATGAAGATAGCAACATCTTGGTTTCAATGGCAGGAAGCTCAGCTGGTATAAAAATATACGCCGTGTTCGTTTCGAAAACTTCTGGTGAACTACTAAAGAAGTACATTGGACTTACTAACATGGAGCTGTGGCTAATTGCAAGCTTTGAGAATACAGCATGGTCAATCATGGCAATCTCTTTCATTTCATTGCTTGCCATGTCTGCAGTGCTGGCTACTTGTTTTTTCGTTCGCAGGCATCGAATAAGACGAGAGAGGCCTCAAGCTTTTCGTGTCCAAGAATTTCATGGGATGAGCAAACGCTTAGTAAAAGCAATGCCAAGTTTGAAATTTACCACTGTTTTAGAGGACAACTGCACATCAAGCACATGTGCTATATGTCTTGAGGACTATAACTTTGGAGAAAAACTCAGGATTCTGCCATGTCGCCATAAGTTTCATGCTTTCTGTGTGGATTCTTGGCTTACTTCATGGAGAACCTTTTGTCCAGTTTGCAAGCGTGATGCAAGAGCTAATACGGGTGATCTACCCGCTTCAGAATCCACACCATTGCTTTCGTCCGGCCCATCCTCCGTGGCATCTTCCGTACTTTCATCTATGAGATCATCAATAGCATCATCTTCAGCAATACAGATAGGACCATCATTGTCACGGAACCCTTCATTGTCTCATTCTCACTCTTATGCTAGCACAGGTCACATTCAGCAGTCTCTTAGGTCCTCCTATCGCCAGTCCCCTTCTATTAGTGCAAGCAGAAGTTCAATGGACCTCCGAAATGCCTCGTCTCAAAGGTCCCATGTTTCCTATTTTGTTTCACCCCATTCCATGGGTTACCCAACTTTATTACCCCCGAATTCAAGATACATGTCTGTTGGACACATTCCAAGCCCTAGCAATGCATCACCAAGCTACATGAGCTCTTCCAATCATCGACAGCATCCACTACATTGTAGTGAATCAGCTGCAACGTTTTCTCCTTTTTCTTCTGCTCAATCTCTTCCTGAATGCTGATCAAGATTTATGAAATAGCTCGAGAGGGAGGTGAACCAAGATGCTTTTCTCCACTCTGACCTCACCTTGTTGCGGTATCGTGATTGAGGTCTATGAATGATGTGAATGCTTGCTATATGCTAGAATTCACACCTGAAATGTTTCTTGTTACCACCTCACATGTATATTAAACCATGTATATAGTTTTAATTTGCAAGATATGTTTAGTCATATATCAGATGTTTATCAGTCGCAAAGTCAAGGAGTGAGTTGTGGTGTGCTGTGTTGGATGTTGCATTTGATAATCGGCAGTGGTGGATACTATTAGGGAGCGTTTGGGATTTCTTTCCAGAATAACTTATGTTTAAAATTTGATCATCAAATGGTTTGGTAAAGTTGTAAAAAGTTGCTTTAAAAATTAAAACTTATGGAGCCTGCAAAAGCACTTTTAATTAAGTGACAGTCCACATCCCTCCAATTTTGTTTTTTATCTTTACTGGGTTTGGTGTAGCTTTCACTAGTTAGCAGTCGACTCCTTTATCTTCAGATTGCAGCTGCAGACCTCTAGGCTCTCATCTGAGAAATTTTACTGCTAACGGCGACTACCTGCTCATCAAGTCATCACTCATCTGCAAAGCTTTATATATGAAGCATATACACCGATGGAAAAGGAATAACGATGTGGAAAATGGATCAAAAGTTATGGCTCTTTGGAATAGTCGTAAACTCGTAATATAGCTATATTACGTGATGGGTATCAAGGAGGCGGTGGCAGGAAATCGTTGTGGCACATATCTTAAGAAGAAGGGATTGGAAAATTCAAGGACCAACTGCACTAAGAAGACAGAAAAGAATCCCAAATTGAACAGAAATATCAAATACGGATACTTTGGTTCTTACAAAGTTTCATGAACTCATTGCGATTCCAGGCATGGTTATGTTAAAGTCCATGAAATTTGTTCGAGTGGTAGAAGGCTGCAACAAGATCTCTGATGCTCTTAACGAGATATTTTACAGGTATAAATTACACCACGGGCACTATTCGTACCTCCAGGCCAGAGACAATAGACGCGGCAACTAGCATCCCATGAAGATCTCTTTGGCAGGGAATGGGTTCAATTTGGAAGCTGTTGACGTAGAACAAATGGCGGAATGGATCGAGGAGGAGATGGAACGTCGGAAGACAAAATGGCGCAATCATAAAAGGGGTATTAATTTCCCATAAAAGTGGCTCAAGCCACTTTTCGCAAAAACGTGTTAAAATAATTCTCCCACAAAAGTGGCTTGAGCCATCTTTTGCAGAAAGTCATCAAAACAGCAGCCTACTAATAAATGGAGTCTTTTGGGGTTTCAAGGGCTTTATTATATGTTAGTTATTTTCATTTTAATTTCCTAAGTCTTTTGAGTTTTCCAAGAGGTTGTAAAAGGCTTATTTAAGCCATGGCTTTGTAATCATTTGGACATCTTTTTATCAATTAATCAAATTATCCTTTGGGATTTCTATCAACTGGTGGACTCCAGTAAACTTTGTTCTACAAGGGATTACGCTGGTAACCCTTTCATTGCTTCGT

Protein:

Gene family

Gene family	Subfamily
Ubiquitin Family	RING

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT1G71980.1	1	Protease-associated (PA) RING/U-box zinc finger family protein
Rubus occidentalis	Ro05_G16273	1	-
Vitis vinifera	GSVIVT01034782001	1	Protease-associated (PA) RING/U-box zinc finger family protein
Solanum lycopersicum	Solyc11g019930.1.1	1	Protease-associated (PA) RING/U-box zinc finger family protein
Populus trichocarpa	Potri.019G082500.1	1	Protease-associated (PA) RING/U-box zinc finger family protein
Nicotiana benthamiana	Niben101Scf00016g01010.1	1	RING finger protein 148
Oryza sativa	LOC_Os03g07130.1	1	"RING finger protein 13, putative, expressed"
Oryza sativa	LOC_Os08g01360.3	1	"RING finger protein 13, putative, expressed"
Zea mays	GRMZM2G003656_P01	1	RING finger protein 13;

Gene Ontology

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

KEGG

KO	Description	Enzyme
K15692	E3 ubiquitin-protein ligase RNF13	EC:2.3.2.27

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF13639.2	zf-RING_2	237	280	8.20E-12

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	3.8341
SRR5252888	dormant buds	no	dormant buds(0 month)	6.91937
SRR5252889	dormant buds	no	dormant buds(0 month)	7.69968
SRR5252886	dormant buds	no	dormant buds(1 months)	8.1911
SRR5252887	dormant buds	no	dormant buds(1 months)	5.35725
SRR5252884	dormant buds	no	dormant buds(2 months)	7.96733
SRR5252882	dormant buds	no	dormant buds(3 months)	9.9751
SRR5252883	dormant buds	no	dormant buds(3 months)	5.93151
SRR5252880	dormant buds	no	dormant buds(4 months)	8.83124
SRR5252881	dormant buds	no	dormant buds(4 months)	6.83192
SRR5252878	bud break	no	bud break	8.04984
SRR5252879	bud break	no	bud break	5.61594
SRR3744766	flower	no	mature	5.80533
SRR3744767	flower	no	mature	7.04579
SRR3744768	flower	no	mature	6.72328
SRR6308190	stigmas	no	open flowers	4.42665
SRR6308181	styles	no	open flowers	4.03492
SRR6308188	filaments	no	open flowers	3.54857
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	6.07864
SRR6308192	pollen	no	open flowers	17.8798
SRR6308191	petals	no	open flowers	2.42125
SRR6308194	sepals	no	open flowers	4.00229
SRR6308193	receptacles	no	open flowers	4.88017
SRR6308189	ovaries	no	open flowers	4.89333
SRR3384922	fruit	no	1 week after full bloom	3.16271
SRR3384921	fruit	no	2 week after full bloom	4.29289
SRR3384920	fruit	no	3 week after full bloom	4.5216
SRR3384919	fruit	no	4 week after full bloom	5.87915
SRR3384923	fruit	no	5 week after full bloom	5.73815
SRR3384918	fruit	no	6 week after full bloom	6.31755
SRR3384917	fruit	no	8 week after full bloom	5.5739
SRR3384916	fruit	no	10 week after full bloom	6.88987
SRR3384915	fruit	no	12 week after full bloom	7.03567
SRR3384914	fruit	no	14 week after full bloom	6.79841
SRR3384913	fruit	no	16 week after full bloom	5.81277
SRR3384912	fruit	no	18 week after full bloom	6.15078
SRR3384911	fruit	no	19 week after full bloom	5.76585
SRR3384910	fruit	no	20 week after full bloom	4.7862
SRR768128	whole fruit	no	25 days post anthesis	5.57168
SRR768129	whole fruit	no	35 days post anthesis	7.38214
SRR768130	whole fruit	no	60 days post anthesis	8.36275
SRR768131	whole fruit	no	87 days post anthesis	9.4001
SRR7343308	immature fruit flesh	no	immature	8.2969
SRR7343309	immature fruit flesh	no	immature	6.35324
SRR6320494	ripe fruit flesh	no	mature	5.84358
SRR5405143	ripe fruit peel	no	mature	3.79271
SRR6320572	ripe fruit peel	no	mature	5.59776
SRR7403504	fruit	uninfected	mature	6.71472
SRR7403506	fruit	uninfected	mature	6.87192
SRR7403507	fruit	uninfected	mature	6.88108
SRR7403500	fruit	infected with penicillium expansum	mature	0.902002
SRR7403501	fruit	infected with penicillium expansum	mature	0.856673
SRR7403508	fruit	infected with penicillium expansum	mature	0.694765
SRR7403502	fruit	infected with penicillium expansum	mature	1.07431
SRR7403503	fruit	infected with penicillium expansum	mature	1.69988
SRR7403505	fruit	infected with penicillium expansum	mature	1.04862
SRR1613973	Central seeds	no	20DAPF	4.88796
SRR1613974	Central seeds	no	20DAPF	5.4557
SRR1613975	Central seeds	no	20DAPF	4.58726
SRR1613976	Lateral seeds	no	20DAPF	4.06158
SRR1613977	Lateral seeds	no	20DAPF	4.53745
SRR1613978	Lateral seeds	no	20DAPF	5.03946
SRR3744786	stem	no	mature	5.25277
SRR3744787	stem	no	mature	4.90009
SRR3744772	stem	no	mature	4.9099
SRX765691	seedling shoot apex	no	4-6 week old seedling	5.25546
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	4.34484
SRR1089478	leaf	Virus-free	plantlets	2.13131
SRR1089477	leaf	ASGV-infected	plantlets	2.93073
SRR767660	leaf	uninfected	fully developed	2.80221
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	7.94911
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	3.0723
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	3.80975
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	6.17781
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	2.24502
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	4.10767
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	3.13355
SRR6308182	young leaf	no	immature leaves	4.90142
SRR3744769	leaf	no	mature	5.76436
SRR3744770	leaf	no	mature	6.33684
SRR3744771	leaf	no	mature	6.4841
SRR5405145	leaf	no	mature	9.11971
SRR6320561	leaf	no	mature	8.08766