Gene detail

Detail information of MD04G1229800 Annotation

Gene ID	Annotation
MD04G1229800	Transcription factor jumonji (jmj) family protein / zinc finger (C5HC2 type) 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	CFinderM0809	histone demethylase JARID1 [EC:1.14.11.-] signal recognition particle subunit SRP54 [EC:3.6.5.4] Jumonji JMJ signal recognition particle

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD04G1229800	mRNA	Chr04	30997445	31004908	-

Sequences

CDS:

MD04G1229800

TCCCCATTTCCCCCAAAAAAAATTAAAAACCCTAGATCTTAATTTCCAATTGATTTTTCGGAATCCAAAAGGGGAACATTATTATCCCAAGTCCCAACTGTTATCATATCATCTGTTATTTGTCAGCTTTAATAAAAAGATGCTGATTTTGCACCAAACAAAAATTAAATTGCACTGAATCAATCTCCAAGCTTGTTAGGGTTAGGGTTTCTTCCAGCTTTGGAATTTTAGCCCCAAATTTTGGTTCCACAATTTGTGTCCTTCTTTTTCCAGATTTACCCTTGCCCCATGGTTTCTGGATTTTGCTTATATACGAGTCTCAGATGACATTCAAGGCTGTTTGAGAGGCTGTCCTTGATTGTCATTTTCGGTTTTGTTGCTGGTGGTGAATGGAAGTTTGAGCTGGATTAGCTCAGTGGGGATTGTATAATCTTGGATCATCACGATACAAAACCTTTGATTTTCTGCTAAGTTGCCTGAAGCGATTAATAGTCAGATAAAAACAGCGTATTTCATTATGTTGAAGTTCATAAGCCAGAAGATAAGCGATCATCCTACTTCTGTTCTAAATTAATTCATTCTTTCCACGTAGACGAACAGTTTGGAGAATTCTAAATGGGGACAGAACTCATGAGAGTTTGCATGCAAGAGGATAACGATGAGTTTCCTTCTGTTCCACCCGGATTTGAGTCATTTGCATCTTTCAGCTTACAAAGGGCAAATGAAAGTGAGAAACAAGATAGTGAAAACAGAATTAGTTCCTCAGCAACTGCTAGTCCTTCTAAATCACAATCAGTTCAGATGGAGACTGACATTGACACTGGTGGGGTTGCAAAGAGGTCTGTTCGACGCAGACAATGCATAAATCATGGGCAAAATAACAAGTCAGAGGATGAATCTGATTGGGAGCAACTTGAACAAAATTGTCCCCCAAGATCTGTTCTTCCCAAGGGGGTTATACGTGGGTGTCCACAATGTAGTAATTGCCAAAAGGTCTCTGCACGATGGCATCCACTGGAAGGTCAAAGGCCCGACCTTCAGGACGCTCCTGTCTTCAGGCCTTCTGAGGAGGAGTTCAAAGACACATTGAAATATATAGCGAGCATACGCCCAAAAGCTGAACCATATGGTATTTGTCGCATTGTTCCTCCCTCTTCTTGGAAGCCTCCCTGTCCACTCAAGGAAAAGGCTATTTGGGGGACCTCCACATTTTTTACTCGAGTCCAGAGAGTCGATAAACTGCAAAATCGAGATTCAATGAGAAAGGTTCCTAAAAGCCATAGTCATATGAGGAAGAAAAGAAGAAGCACACGGATGGGGACTGATCATCAAAGTGGTGGCAGAGGATCTGGGGATGATGGAGGTTGTGAGGCCGAACGGTTTGGGTTTGAACCTGGTCCAGAGTTTACTCTAGAAACGTTTGAAAGATATGCTGACGACTTCAAGGCTCAATACTTCAGCAAGAACGAACATATTCCTAGTATAGGAGGTAACTTTGCTAAACTTAAAGAGTGCTGGGAGCCATCGGTAGGAAGTATTGAGGGCGAATATTGGCGGATGGTAGAGAGACCTACTGAAGAAATTGAGGTTCTTTATGGTGCTGATCTAGAAACTGGAGTTTTTGGTAGTGGTTTTCCCAAGATGTCCAGTAAGGATGCTTTTCCTTCAGAAGAGCAGTACATAAATTCGGGCTGGAACTTGAACAACTTTCCAAGACTTCCCGGATCTGTTCTTTCTTATGAAAGCAGTGATATATCCGGTGTTCTGGTGCCATGGTTATACATAGGGATGTGCTTTTCTTCCTTTTGCTGGCATGTTGAAGATCACCACTTGTACTCTTTAAATTATATGCATTGGGGTGCTCCAAAGTTGTGGTATGGTATCCCTGGTAGCGATGCCTGTAAATTTGAAGAAGCAATGAGAAAGCACCTCCCTGGCCTATTTGAAGAGCAACCTGACTTGCTTCATAAGCTGGTCACACAGCTTTCACCCTCCATTCTGAAATCTGAAGGGGTACCTGTGTATAGATGTTGTCAGAATGCTGGAGAGTTTGTTTTGACCTTTCCTCGAGCATACCATTCAGGGTTCAACTGTGGTTTTAATTGTGCCGAGGCTGTGAATGTAGCTCCTGTTGATTGGTTGCCCCATGGGCAGATCGCTATAGAGCTATATCAGGAGCAGGGACGAAAGACATCCATTTCTCATGATAAATTGTTGCTTGGGGCAGCAAGGGAAGCGGTGAAAGCACATTGGGAACTCAATTTACTGAAGAAGAATACTCCAGATAACTTACGATGGAAGGATGCATGTGGAAAGGATGGGATATTAGCAAAAACACTAAAGGCACGTGTTGAGATGGAGCGTGTGAGGAGAGAATTTCTCACTAGTTCTTCACAGGCATTGAAGATGGATAACAATTTTGATGCCATCAATGAGAGAGAATGCAGCATATGCTTTTTTGATCTTCATCTGTCAGCAGCTGGTTGTCATCATTGTTCCCCGGATAGATATGCATGCTTAAATCATGCAAAGAAATTCTGCTCATGTGCTTGGAGCGCCAAGTTTTTCCTCTTTCGTTATGATATGGATGAACTAAACATCCTTCTTGAGGCATTGGAAGGAAAGTTGAGTGCAGTATACAGATGGGCTCGACTCGATCTTGGGCTGGCTCTGAGTTCTTATATTTCCAAAGACAATAAAGTTGGTAAGATATCTTATTCCTCCAGAAGTGATATACTTAAAGAGGTTAGCTCAGAGCTGCAAAGCAAAAACTTCAAAGATCCTCTAGGTACAGAAATCCATAAAGAGAGTCCTATGAGTTCAGCCGGGATCATTGGTGAGACTTCCTCGCAGCAGAAGGTGAAAACATTAGAAATTTTTCGTCAAGTTAAAAGAGAAGAATCGGCTCTCAACAGTTCCAAGTCAAGAATGCAGGTTTGCCAGTTGTCTCAAGAGGACATGTCATATGCTGTGACCTCGGATGCAAAGGTATCTGGGACGAATATGGCTTCAGTTGAGGATGTTATACTTCTTAGCGATGATGAAGGAGACGATGACCCAAAGAAGCCACTTTCAACTGTGAGTGACCCTGGTTTTGAGAAAGAACCAATCTTGAATATACCAGGGACTGATGCAGCAGTTATGGGTGAAAAGGTTTTCAGTCCATTACCTGGTGGAGAAAAAAAGGATTCTTCATCTCATCCTGTACACGTGAAAGTTGAACAGGATCATGGTGAACAATTAGGTTCTAATCCACCAAACCTCTCTTTCAAATTAGTTTCTACTAAAGCAGAATGTGGCCCAAACGGTAGTGCCATCTTTGAACACAAAGTTGCTAATTCAAGGAGTGACCCTCAGCTTCCACAGCCATGTGCCAGTATAAAACTAGAGAATGAGGACAAATATGAAAAGATAGGAAGAATTGCCGATACAACTTTAGCAGACAATGTACGAACGACAACTGGAGCCTCATCGTCCAGCCAAAACAATTTGGACCGATATTACCGCCAGAAGGGTCCCCGAATAGCGAAGGTGGTGCGGAGGATCTCCTGCATTGTTGAGCCTCTGGAAATTGGAGTCGTGCTATCTGGAAAGTCATGGTGTAACAGCCAAGCCATTTTTCCAAAAGGATTTAGAAGCCGGGTTAGGCACATCAGTGTTCTGGATCCAACTGTTAGGTGTCACTATGTCTCAGAAGTACTGGATGCTGGACAAGGTGGACCACTGTTCAAGGTTTCTTTGGAGCACTGTCCAGGTGAGGTTTTCATACATAATTCAGCTGGAAGATGCTGGGAAATGGTGAGAGAGAGAGTCAATCAAGAAATCACTAGGCAACATAAATTGGGAAAAATGAACCTTCCTCCTTTGCAGCCACCGGGGAGTATCGATGGCTTTGAAATGTTTGGGTTTACTTCACCAGCTATTGTACAGGCCATAGAGGCAATGGACCGAAATCATGTCTGTTCCGAGTACTGGGACTCTCGCCCCTATTCCCGACCTCAAGTACAGATTCCACAAAAACCTCAATCCAAAGAAAGTAGTGAGAGCTGCAATACAATGTCAAAGGAAAAAAGTGATCAAGAGGCATCCGACAATGATCTCGTCCCTGCTGGAGTCGATACAACACTCAGAAGCCTATTCAAGAAGGCTAACTTGGACGAATTAAACTCACTGCACAGCATTTTAGGTGCGAATCGGCAACCTGCTGGTCGAGGTCTAGTGACACGACTTCTTAATGAAGAGATTCATAGTCGTCCCACATGATGATGCATTCGTTTGTCTCACAAGGATCAGAGACCAAACTTGCTCGGCCCGTTTTTAACTGTAAATTCTACCCACCGATTCGAGGTTATATTGTACATCTTTTACTCAACCTGCTCATTCTTTATGCTATAAAAAAGAAGCGATAGGGAAGAAAAGGCTTATTCTTATGTCGACACTGCCGAGTTTTGTTTTTGTCGGAATGCCTGTTTGTAGCTCGGAAGAAGTTAAAGATTGTTGGTCGATGACTCCA

Protein:

Gene family

Gene family	Subfamily
Transcription Factors Family	Jumonji
Epigenetic Regulators	JMJ

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT1G08620.2	1	PKDM7D\|Transcription factor jumonji (jmj) family protein / zinc finger (C5HC2 type) family protein
Arabidopsis thaliana	AT1G08620.1	1	PKDM7D\|Transcription factor jumonji (jmj) family protein / zinc finger (C5HC2 type) family protein
Pyrus communis	PCP000657.1	1	-
Pyrus x bretschneideri	Pbr036611.1	1	-
Fragaria vesca	mrna16665.1	1	Transcription factor jumonji (jmj) family protein / zinc finger (C5HC2 type) family protein
Vitis vinifera	GSVIVT01023517001	1	Transcription factor jumonji (jmj) family protein / zinc finger (C5HC2 type) family protein
Populus trichocarpa	Potri.019G018700.5	1	Transcription factor jumonji (jmj) family protein / zinc finger (C5HC2 type) family protein
Populus trichocarpa	Potri.013G046700.1	0.632	Transcription factor jumonji (jmj) family protein / zinc finger (C5HC2 type) family protein
Nicotiana benthamiana	Niben101Scf03435g00002.1	1	Lysine-specific demethylase 5A
Nicotiana benthamiana	Niben101Scf09658g00022.1	0.831	Lysine-specific demethylase 5A
Oryza sativa	LOC_Os05g10770.1	1	"transcription factor jumonji, putative, expressed"
Zea mays	GRMZM2G156910_P01	1	-

Gene Ontology

GO term	Description	Category
GO:0005634	nucleus	cellular component
GO:0005515	protein binding	molecular_function

KEGG

KO	Description	Enzyme
K11446	histone demethylase JARID1	EC:1.14.11.-

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF02373.18	JmjC	387	503	1.90E-45
PF02928.12	zf-C5HC2	610	661	1.40E-13

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	2.19344
SRR5252888	dormant buds	no	dormant buds(0 month)	7.61998
SRR5252889	dormant buds	no	dormant buds(0 month)	8.58875
SRR5252886	dormant buds	no	dormant buds(1 months)	7.89198
SRR5252887	dormant buds	no	dormant buds(1 months)	8.04007
SRR5252884	dormant buds	no	dormant buds(2 months)	11.3229
SRR5252882	dormant buds	no	dormant buds(3 months)	7.75638
SRR5252883	dormant buds	no	dormant buds(3 months)	7.4409
SRR5252880	dormant buds	no	dormant buds(4 months)	7.0372
SRR5252881	dormant buds	no	dormant buds(4 months)	5.8377
SRR5252878	bud break	no	bud break	8.63246
SRR5252879	bud break	no	bud break	7.50661
SRR3744766	flower	no	mature	5.85847
SRR3744767	flower	no	mature	5.61303
SRR3744768	flower	no	mature	4.73517
SRR6308190	stigmas	no	open flowers	3.90624
SRR6308181	styles	no	open flowers	3.67442
SRR6308188	filaments	no	open flowers	4.15339
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	8.12009
SRR6308192	pollen	no	open flowers	19.8366
SRR6308191	petals	no	open flowers	3.59119
SRR6308194	sepals	no	open flowers	3.28811
SRR6308193	receptacles	no	open flowers	2.39359
SRR6308189	ovaries	no	open flowers	2.7751
SRR3384922	fruit	no	1 week after full bloom	2.24065
SRR3384921	fruit	no	2 week after full bloom	2.38777
SRR3384920	fruit	no	3 week after full bloom	1.44027
SRR3384919	fruit	no	4 week after full bloom	1.74355
SRR3384923	fruit	no	5 week after full bloom	1.42538
SRR3384918	fruit	no	6 week after full bloom	1.92676
SRR3384917	fruit	no	8 week after full bloom	2.12722
SRR3384916	fruit	no	10 week after full bloom	1.97388
SRR3384915	fruit	no	12 week after full bloom	1.32942
SRR3384914	fruit	no	14 week after full bloom	1.56813
SRR3384913	fruit	no	16 week after full bloom	1.68282
SRR3384912	fruit	no	18 week after full bloom	1.44442
SRR3384911	fruit	no	19 week after full bloom	1.57009
SRR3384910	fruit	no	20 week after full bloom	1.60537
SRR768128	whole fruit	no	25 days post anthesis	2.87252
SRR768129	whole fruit	no	35 days post anthesis	1.95714
SRR768130	whole fruit	no	60 days post anthesis	2.31623
SRR768131	whole fruit	no	87 days post anthesis	3.19632
SRR7343308	immature fruit flesh	no	immature	4.91991
SRR7343309	immature fruit flesh	no	immature	4.08786
SRR6320494	ripe fruit flesh	no	mature	1.97514
SRR5405143	ripe fruit peel	no	mature	1.99468
SRR6320572	ripe fruit peel	no	mature	1.29527
SRR7403504	fruit	uninfected	mature	1.6043
SRR7403506	fruit	uninfected	mature	1.60283
SRR7403507	fruit	uninfected	mature	1.5152
SRR7403500	fruit	infected with penicillium expansum	mature	9.29193
SRR7403501	fruit	infected with penicillium expansum	mature	8.52546
SRR7403508	fruit	infected with penicillium expansum	mature	8.87153
SRR7403502	fruit	infected with penicillium expansum	mature	7.37547
SRR7403503	fruit	infected with penicillium expansum	mature	7.84553
SRR7403505	fruit	infected with penicillium expansum	mature	8.25521
SRR1613973	Central seeds	no	20DAPF	4.8499
SRR1613974	Central seeds	no	20DAPF	5.42926
SRR1613975	Central seeds	no	20DAPF	4.4654
SRR1613976	Lateral seeds	no	20DAPF	4.65357
SRR1613977	Lateral seeds	no	20DAPF	4.58441
SRR1613978	Lateral seeds	no	20DAPF	4.99819
SRR3744786	stem	no	mature	3.69476
SRR3744787	stem	no	mature	3.38778
SRR3744772	stem	no	mature	3.39455
SRX765691	seedling shoot apex	no	4-6 week old seedling	4.08372
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	4.57699
SRR1089478	leaf	Virus-free	plantlets	2.18113
SRR1089477	leaf	ASGV-infected	plantlets	2.62892
SRR767660	leaf	uninfected	fully developed	1.53279
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	3.46238
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	2.87514
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	0.879826
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	8.99768
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	2.84656
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	4.35195
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	2.73545
SRR6308182	young leaf	no	immature leaves	3.20918
SRR3744769	leaf	no	mature	4.06767
SRR3744770	leaf	no	mature	3.82826
SRR3744771	leaf	no	mature	3.51352
SRR5405145	leaf	no	mature	4.94358
SRR6320561	leaf	no	mature	2.87017