Gene detail

Detail information of MD01G1104900 Annotation

Gene ID	Annotation
MD01G1104900	pumilio 4

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	CFinderM0164	syntaxin 16 intracellular protein transport vacuolar transport regulation of defense response to fungus GPI anchor metabolic process mRNA binding SNAP receptor activity hydrolase activity protein secretion

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD01G1104900	mRNA	Chr01	21801712	21808713	+

Sequences

CDS:

MD01G1104900

TCTCCTCTCTTCCCGCCTCGCCCCCACCAAAACTCCCGTCTCTCTCTCTCTCCAGTCTCTTTCTCTCTCTAAAATTAAAAGCGGCCGTTTCGAAAGGATATCAGGCCCACGCGATCTCATCCCAAACCTCAGCTTCCCTCTCTCCCCCCTCTCTCTGTAAACTTCTCTCTAACCCTTGGAATTGTTCCGAAATTCTTTCCTAGATTTTTGATCAAGAAAAGCTTCAGCTTCTCGTACATTCAATCGTATATACGAATATACACAAATATATATATATATATTATATATACACATTATATTCTTTCTGTACATATAGCAATTGGATTGTTGGTGGAGCTTTCTCAGCGATCAATTCCGCGACTCGCCCGAGGAATTGTTCGGGATTTGATTGTATTGATCGATGTGAGGATTTCTGCTCACGCTTCAAGAGTTGTGGAGATGGCTACGGGGAGTAACATAGATATGCTATCAACCCTAGATAATAATCTGCAAGGATCCAATGGGAATTTAGAAGATGCTTTACAGAGTGAGCTTGAATTGATTCTGAGAGAGCAGCGCAATCAGCATGCCATTCATCGGGAGAGGGACATGAATATGTATAGGAGCGGCAGTGCCCCGCCAACTGTTGAGGGTTCGCTAACTGCTGTGGGTAGTCTCTTTAGGAACTCAGATTTTAGGGATGTGACTAGTAGGATTAGTAATAACAATGGGGTTTTGTCCGAAGATGAGATTCGATCTCATCCTGCTTATCTTTCGTACTACTATTCGCATGATAATATTAACCCAAGATTGCCTCCACCGTCGTTGTCGAGAGAGGATTGGCGTGTTGCACAAAGGTTTCAGGGGGGCGGGTCTTCTTTTGAAGGCATTGGGGACTGGAGGAGGAAGAAGTTGGCTGATGATGGTGATAGTTTGTCGCTGTTTTCCACACAGTTGGGACTACAAAAGGCAGAGGATGAGTTGATGGGATTGAGGAATGCTAAAGGTTGCAATCTCCCTAAACAGACATCATCTGAGTGGCTTGATAGAAGCTCAGATGGTTTGATTGGTTTGTCGACAACTGGGTTTGGTGGAAGGAGAAAGAGTTTTGCTGACATTTTACAGGAAGGACTTGATCAAACTGCGTCCTTGTCAGGTCCCCTGTCAAGGCCATCAAGTCATAACACTTTTGGTGATATCATGGATCCCACAGGCATGACTGATCCCCATCCAGTTGGGTTATGTAATGGAGTGGAGTCTGCAGAGGGTATGCATAATGGAGCAGCTTCACATGGCCTGGTGGGAGTTCGGAGCCATGGCCCAATGGCTTCTCATTCCTTTGCATCTGCTGTGGGTCCTTCTTTGCCAAGAAGCAGAACCCCTGAACAACTATTTGGCAGGTCCACCAGTTCTGGTCTCCTCCCTGTAGGGAGTAGAGTATTCCCTACCGAGAGGAAGAATGTTGCTAGTCCAGATATTAAAAATGATCGTTCTTCCAGCATGAATGATCTGGCGGATATTTCAGCCAATTTTTCTAGCTTAAGCCTATCAAAAATTAGACCTGTAGATGATGATAGATATATTCAGTCGCAGCTTCATGTGGATCTTGAAAATCAGCATGATTTTCTGTTTAAGATGCCAAATGGGCATCAGAGGCTGCAGCAGGAACTGTTAGAGAAGGCAAATGCTGAAATTTTTTCTCTTCCTACTAATCATGCTCATCTAGCAAAGAAAAATGGAATCATAACAAACCGTACTACATCCTCTGGGCAAGCTAATTTTTCAAGAAGAACTTCTTCTCCCAGTCTGTACTCAAAAGGGAGTTCTTCAGGCTTTGGAGCTTTGGAAGGATCTAGTGTTCATTACCAAGAAGCAAATCCACCAGGTATGGACTTTGATGGGCATGTTGCCGGGGCCTATCCTGTAAATCTGAAGTTGAATATGTCAAGTGATAATCATCTTGGTGCAGTAGCTATTGGTGATGAACAAAGTCTGAACAGACTGGGAAACAAAGTAGGGCCTGGTCTTCATTCTTCTGTTATGGACCCATCTTATATTCAGTTTTTGCAAAGAACTGATTATGCAGCACGTAATGTAACTAATCCAAGTGGTTATCCTCTGAGCAAAAACCACTTTGGCACTTTGCATGGAGACTTAGAGGGGCTTCAGAAGGCATATCTTGAGGCATTGCTTGCTCAAAGGAAGCAACAGTATGATTTGTCAATTTTAGGTAAATCTGGCGGTTTTAATCATGGTTATTATGGGAACCCACCATATGGGCTTGGCATGTATCCAGGAAATCCGATGGCAAATTCGCTTCATCCTTCTATTGGGTATGGTAGTCCAATGTTTGAGAGTGAGAAGATTGCCCGCTTTAATTCTATGTTGAGAAGTTCAATGGGAGGGTCGGTTAGCTCCTGGAACTCAGATATTGGAAACAACCTAGAAGGACGACATGTATCATCATTATTAGATGAATTCAAGAACAATAAGAACAAGTCTTTTGAATTTGCGGACATTGTTGATCACGTAATTGAATTCAGTACCGACCAGTATGGAAGTCGCTTTATTCAGCAGAAACTAGAAACAGCCACTGTGGAAGAAAAAATGAAGATATTTCCAGAGATTATTCCTCATGCTCGCGCCTTGATGACTGATGTATTCGGAAATTATGTCGTACAGAAATTTTTTGAGCATGGTACAGAAAGCCAAAGAAAAGAGTTAACCAGCCAACTTACTGGCCATGTTTTGCCTCTCAGTCTTCAAATGTATGGTTGTAGAGTGATCCAGAAGGCTTTGGAAGTGGTTGATGTGAATCATCAGGCACAGATGGTGTCGGAGCTTGATGGTTCAATCATGAAATGCGTCCGTGATCAGAATGGGAATCATGTCATTCAGAAGTGTATAGAATGTATCCCTCAAGATAAAATTCAATTTATAATTTCATCCTTCTATGGGCAAGTTGTCACACTATCCACTCATCCTTATGGATGCCGTGTTATACAGAGGGTTCTGGAACATTGCAATGATTCAAACACACAACAAATAATCATGGATGAAATCATGCAATCTGTATGCATTTTGGCACAAGATCAATATGGAAATTACGTCATTCAGCACGTCCTTGAACATGGTAAACCGCATGAACGGACTGCAATTATCCACAAGCTCGCAGGACAAATTGTGAAGATGAGTCAGCAGAAGTTTGCTTCTAATGTTGTGGAGAAGTGCTTAACTTTTGGGAATGCTGATGAGCGCCAGTTTTTAGTGAATGAGATGCTGGGTTCAACTGATGAAAATGAGCCCTTACAGGCCATGATGAAAGATCCCTTTGGAAACTACGTTGTGCAGAAGGTTCTTGAGACTTGTGATGATCAGAGTCTTGAGTTGATTCTTTCTCGCATTAAGGTTCATTTGACTGCCCTGAAGAAGTATACCTACGGCAAACATATCGTTTCTCGTGTCGAGAAACTCATCACAACTGGAGAAAGGCGCATAGGGTTGTCAGCCTCGTGTTCTTCTTGAGGCACCCAATCTGGAGTGAGCAGAAGGCATTTTTCCTATTGCCACCATGAATAAGTATGCACCTTGTACAGCTAACATGGACAGTGACCTTAGCAAGTTCGTTCAGTTGTTCGTATAAATACACAAAGAAGCTATAGTTGTAAATAAGCATGGAATCCGGCGCCCCCTGCGATATAATGTTTTTGTCTATCCCCCTCCTAGTATATATTTTGGCTCGCCGGTTCTAATCTGACCAGGAAAACTCGGCATGGAAGAGGGTCAGTCCTTGGGCTCGAGAATTTACCGGTACAAGGTTCGTTGTCTATTTTACAGTCTCTAGTGTAAATGGTTAATAGCAATTTGAAAGAGAGGGTAAATAGGGAGTGTTCATATATGCTGGGGCTTTCGACTTTGAAAACTACTTGTGTAAATACACCTGCAATTTTCTCGAGGAGATATATATATTACTTGTCTTTTGCAGATATCTTGTTCTTTCCTTTGTTCCTTCATTT

Protein:

Gene family

Gene family	Subfamily
--	--

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT3G10360.1	1	APUM4;PUM4\|pumilio 4
Prunus persica	Prupe.2G210200.1.p	1	pumilio 4
Pyrus communis	PCP020471.1	1	-
Pyrus x bretschneideri	Pbr010694.1	1	-
Rosa multiflora	Rmu_sc0001502.1_g000016.1	1	-
Rubus occidentalis	Ro07_G16499	1	-
Fragaria vesca	mrna23179.1	1	pumilio 4
Vitis vinifera	GSVIVT01016236001	1	pumilio 4
Populus trichocarpa	Potri.010G225600.1	1	pumilio 4
Nicotiana benthamiana	Niben101Scf00863g17026.1	1	Pumilio homolog 4
Nicotiana benthamiana	Niben101Scf01519g03013.1	0.753	Pumilio homolog 4
Oryza sativa	LOC_Os02g57390.1	1	"pumilio-family RNA binding protein, putative, expressed"
Zea mays	GRMZM2G123537_P01	1	pumilio 4

Gene Ontology

GO term	Description	Category
GO:0003723	RNA binding	molecular_function

KEGG

KO	Description	Enzyme
--	--	--

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF07990.8	NABP	306	676	8.40E-108

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	2.55216
SRR5252888	dormant buds	no	dormant buds(0 month)	7.9615
SRR5252889	dormant buds	no	dormant buds(0 month)	9.10994
SRR5252886	dormant buds	no	dormant buds(1 months)	9.17156
SRR5252887	dormant buds	no	dormant buds(1 months)	9.48412
SRR5252884	dormant buds	no	dormant buds(2 months)	13.1267
SRR5252882	dormant buds	no	dormant buds(3 months)	10.5069
SRR5252883	dormant buds	no	dormant buds(3 months)	9.72484
SRR5252880	dormant buds	no	dormant buds(4 months)	8.84362
SRR5252881	dormant buds	no	dormant buds(4 months)	9.06816
SRR5252878	bud break	no	bud break	6.45957
SRR5252879	bud break	no	bud break	4.25592
SRR3744766	flower	no	mature	8.97692
SRR3744767	flower	no	mature	8.92212
SRR3744768	flower	no	mature	8.6812
SRR6308190	stigmas	no	open flowers	11.2132
SRR6308181	styles	no	open flowers	8.49373
SRR6308188	filaments	no	open flowers	4.89389
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	35.1325
SRR6308192	pollen	no	open flowers	222.074
SRR6308191	petals	no	open flowers	4.19192
SRR6308194	sepals	no	open flowers	3.48154
SRR6308193	receptacles	no	open flowers	5.64081
SRR6308189	ovaries	no	open flowers	6.98703
SRR3384922	fruit	no	1 week after full bloom	1.83669
SRR3384921	fruit	no	2 week after full bloom	2.07361
SRR3384920	fruit	no	3 week after full bloom	1.71291
SRR3384919	fruit	no	4 week after full bloom	2.85194
SRR3384923	fruit	no	5 week after full bloom	4.00211
SRR3384918	fruit	no	6 week after full bloom	3.01921
SRR3384917	fruit	no	8 week after full bloom	3.18948
SRR3384916	fruit	no	10 week after full bloom	3.45283
SRR3384915	fruit	no	12 week after full bloom	3.04359
SRR3384914	fruit	no	14 week after full bloom	2.17921
SRR3384913	fruit	no	16 week after full bloom	3.03343
SRR3384912	fruit	no	18 week after full bloom	2.60584
SRR3384911	fruit	no	19 week after full bloom	3.08738
SRR3384910	fruit	no	20 week after full bloom	4.25911
SRR768128	whole fruit	no	25 days post anthesis	3.14629
SRR768129	whole fruit	no	35 days post anthesis	2.51279
SRR768130	whole fruit	no	60 days post anthesis	3.07193
SRR768131	whole fruit	no	87 days post anthesis	7.00288
SRR7343308	immature fruit flesh	no	immature	6.52687
SRR7343309	immature fruit flesh	no	immature	5.4621
SRR6320494	ripe fruit flesh	no	mature	7.52026
SRR5405143	ripe fruit peel	no	mature	7.38971
SRR6320572	ripe fruit peel	no	mature	4.41394
SRR7403504	fruit	uninfected	mature	4.68052
SRR7403506	fruit	uninfected	mature	4.71216
SRR7403507	fruit	uninfected	mature	4.93343
SRR7403500	fruit	infected with penicillium expansum	mature	19.7074
SRR7403501	fruit	infected with penicillium expansum	mature	15.5497
SRR7403508	fruit	infected with penicillium expansum	mature	18.2271
SRR7403502	fruit	infected with penicillium expansum	mature	13.8104
SRR7403503	fruit	infected with penicillium expansum	mature	15.1365
SRR7403505	fruit	infected with penicillium expansum	mature	15.5867
SRR1613973	Central seeds	no	20DAPF	10.5574
SRR1613974	Central seeds	no	20DAPF	10.9306
SRR1613975	Central seeds	no	20DAPF	7.72653
SRR1613976	Lateral seeds	no	20DAPF	9.50703
SRR1613977	Lateral seeds	no	20DAPF	9.1341
SRR1613978	Lateral seeds	no	20DAPF	10.6038
SRR3744786	stem	no	mature	7.40569
SRR3744787	stem	no	mature	7.809
SRR3744772	stem	no	mature	7.97443
SRX765691	seedling shoot apex	no	4-6 week old seedling	1.6109
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	1.92334
SRR1089478	leaf	Virus-free	plantlets	1.90703
SRR1089477	leaf	ASGV-infected	plantlets	2.63309
SRR767660	leaf	uninfected	fully developed	0.92914
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	0
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	1.15452
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	0
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	0
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	1.41511
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	1.11839
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	1.67793
SRR6308182	young leaf	no	immature leaves	2.11444
SRR3744769	leaf	no	mature	6.59388
SRR3744770	leaf	no	mature	6.41625
SRR3744771	leaf	no	mature	6.0708
SRR5405145	leaf	no	mature	4.06278
SRR6320561	leaf	no	mature	2.30807