Gene detail

Detail information of MD05G1274200 Annotation

Gene ID	Annotation
MD05G1274200	cleavage and polyadenylation specificity factor 30

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
MD05G1274200	mRNA	Chr05	40886354	40898911	+

Sequences

CDS:

MD05G1274200

TTTCTCGTTTGGGCCAGACTGCTACTTTCTTTCCAACCCGAATTGGACGCAACGAGAACCCAAACCCGGATGCCCGCCGAAATGTTTGACCCCGACCGCCCTAAACTAAACCTTCCTCCTCTGCGCTTCCTGGAGTTGGCGCACTTTGTTGCTCCCTCGCATCTCTCTCTCCTCTCTCATCACAATCTGTTAGACCCTAATTATCTGATCAAACCCCCAAATCCCAAATCTCCCAAACATCCACCCACCCTCACACCCAGACGAATACTAAGCTCGCCCAATGGAGGACTCGGACGGAGTCCTCAACTTCGACTTCGAGGGCGGCCTCGATGCCGCCGCCACCGTCTCGGCCACTGCGGGCCCCGCCAACACGGGCCCAGCATCTAATTATTCCGTGATGCAATCAGACTCCGCCGTCACCGGGGCCGGCGGGGCGGGCTCCAACCAGGCTGCTGTGGCGCAGCAGCCCAATCAGAATGCGAACCGGATGGGTGGGCGGAGCTATCGCCAGACGGTGTGTCGTCACTGGCTGCGCAGCCTTTGTATGAAGGGCGAGGCCTGTGGGTTCCTCCACCAATACGACAAGTCGCGCATGCCCGTGTGCCGCTTCTTCCGGTTGTATGGTGAGTGCCGCGAGCAGGACTGCGTGTACAAGCACACTAACGAGGACATCAAAGAGTGCAATATGTACAAGTTGGGTTTTTGTCCAAATGGTCCTGATTGCCGGTATAGACACGCAAAGCTGCCGGGACCTCCACCTCCAGTGGAAGAAGTCCTTCAGAAGATCCAGCATTTGAATTCTTACAATTACAACAACTCAAATAAGTTCTATCAACAAAGGAATGCTGGTTTTCCCCAACAAGGAGAGAAATACCAACCTGCACAAGGACCCAACAATTTTGTGGGAAAACCTACTACAGCAGAGTCTGGGAATGTTCAGCAGCAGCAACAGCTTCAACAAACCCAACAACAGGTTGGCCCCGCACAGACACAAAATCTTCCTTCTGGCCTAGCTAATCAGGCAAATAGAAGTGCGTTGCCTTTGCCTCAAGGAACATCTAGGTATTTTATTGTTAAAAGTTGCAACCGTGAAAATTTGGAATTATCTGTACAACAAGGAGTATGGGCAACCCAAAGGAGCAATGAATCCAAACTTAATGAAGCTTTTGACTCTGCTGAAAATGTGATTTTAATTTTCTCAGTCAACCGGACTCGACATTTCCAGGGTTGTGCAAAGATGATGTCCAGAATTGGTGGGTCAGTTGGTGGAGGGAACTGGAAATATGCACACGGAACTGCGCATTACGGGCGAAATTTCTCTGTCAAATGGTTAAAGCTATGTGAACTGTCCTTTCACAAAACTCGTCATTTGAGGAATCCCTACAATGAGAACCTACCAGTGAAGATAAGTAGAGATTGTCAAGAGCTAGAGCAATCCGTCGGTGAGCAGTTGGCTTCCTTGCTTTATCTTGAGCCAGATAGTGAACTTATGGCAATTTCAATTGCGGCAGAATCAAAACGTGAAGAAGAAAAAGCAAAGGGAGTCAATCCAGAGAATGGTGGTGAGAATCCAGACATTGTCCCATTTGAGGACAATGAAGAGGAGGAAGAGGAAGAAAGTGAAGATGAGGAAGATAGCTTCGGTCAGGTTCCCGGAGCAGGAAATGATGGCAGAGGAAGGGGCAGGGGAGGAGTCATGTGGCCACCTCACATGCCTCTACCAAGAGGTGGCAGACCTATGCCCGGGATGCAAGGTTTTCCCCCAGGAATGATGGGTCCTGATGCAATGCCTTATGGCCCTGACGGATTTGTTATGCCAAATCCTTTTGGTATGGGCCCTCGGGGTTTCAATCCGTATGGTCCCAGGTTTTCAGGTGACTTTACAGTGCCCAACCCTGGCATGATGTTCCGTGGACGGCCACAACAACCTGGGTTTCCACCTGGTGGGTTTGGGATTATGGGTCCTGGACGAGCACCATTTATGGGAGGCCCCCATCCAGGCCGAGGTGGTCGGCCAACTGGTATATCTCCAATGTTTCCACCACCCCCGCCACTATTATCTCAAAACCCTAACTGGATGCCGAAGAGAGATCCAAGGGGAGCTTCCAGTGATCGGAGAGGACAAGATATGACAGGTTCGGCTGGGGGACCAGATGATGAGGCACTTTATGGTGCTGGAAACAACTCTAGAAATGATGACAGTGACAGTGAGGATGAGGCCCCGAGGCGGTCGAGGCATGGAGAGGGAAAGAAGAAACGGCGAGACTCGGAAGGAGATGCGACCTCCGAGCACTAGCAGCTCAGCCACTAACGACGAAACCCGTTTTCTTTCTTCGGCTTACCGGTTTCTGAGAAACGATCGGACGAGCCATTCTTGATATATGGATTCTTTTTGGTGCTGAAGGAAACTTGGATGTTTAAACAAGTTTTCCTGATTACATTCTCATACTCTGATGTTTTGTTTCTGTAATTGTATACTGCTAAAGGTGATTAATCGGTTTGTGAAAACTCAGAACTTGATATTCAGAGAGAGCTGGAAGTGTTTTTGGGTTCAAAAACGCACTTGAATCGCTTTTTGAAAGAGGCAAGCGATTTTATTAGAAGTATTTTT

Protein:

Gene family

Gene family	Subfamily
--	--

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Arabidopsis thaliana	AT1G30460.1	1	ATCPSF30;CPSF30\|ARABIDOPSIS THALIANA CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR 30;cleavage and polyadenylation specificity factor 30
Prunus persica	Prupe.4G089500.1.p	1	cleavage and polyadenylation specificity factor 30
Pyrus communis	PCP033430.1	1	-
Rosa multiflora	Rmu_sc0000012.1_g000002.1	1	-
Rubus occidentalis	Ro03_G16166	1	-
Fragaria vesca	mrna28948.1	1	cleavage and polyadenylation specificity factor 30
Vitis vinifera	GSVIVT01021617001	1	cleavage and polyadenylation specificity factor 30
Solanum lycopersicum	Solyc02g070240.2.1	1	cleavage and polyadenylation specificity factor 30
Populus trichocarpa	Potri.001G357800.1	1	cleavage and polyadenylation specificity factor 30
Nicotiana benthamiana	Niben101Scf01281g07004.1	1	cleavage and polyadenylation specificity factor 30 LENGTH=631
Nicotiana benthamiana	Niben101Scf05387g08003.1	1	cleavage and polyadenylation specificity factor 30 LENGTH=631
Oryza sativa	LOC_Os06g46400.1	1	"ATCPSF30/CPSF30, putative, expressed"

Gene Ontology

GO term	Description	Category
GO:0046872	metal ion binding	molecular_function

KEGG

KO	Description	Enzyme
K14404	cleavage and polyadenylation specificity factor subunit 4	-

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF04146.11	YTH	260	394	2.10E-46

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	4.40882
SRR5252888	dormant buds	no	dormant buds(0 month)	8.03397
SRR5252889	dormant buds	no	dormant buds(0 month)	7.45266
SRR5252886	dormant buds	no	dormant buds(1 months)	7.19472
SRR5252887	dormant buds	no	dormant buds(1 months)	8.02059
SRR5252884	dormant buds	no	dormant buds(2 months)	12.0125
SRR5252882	dormant buds	no	dormant buds(3 months)	12.3807
SRR5252883	dormant buds	no	dormant buds(3 months)	12.4029
SRR5252880	dormant buds	no	dormant buds(4 months)	12.4224
SRR5252881	dormant buds	no	dormant buds(4 months)	12.9036
SRR5252878	bud break	no	bud break	6.55048
SRR5252879	bud break	no	bud break	6.82354
SRR3744766	flower	no	mature	10.3848
SRR3744767	flower	no	mature	9.31292
SRR3744768	flower	no	mature	9.236
SRR6308190	stigmas	no	open flowers	3.46009
SRR6308181	styles	no	open flowers	4.17095
SRR6308188	filaments	no	open flowers	5.49555
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	6.8876
SRR6308192	pollen	no	open flowers	8.45982
SRR6308191	petals	no	open flowers	4.52713
SRR6308194	sepals	no	open flowers	6.72283
SRR6308193	receptacles	no	open flowers	6.18002
SRR6308189	ovaries	no	open flowers	4.28576
SRR3384922	fruit	no	1 week after full bloom	5.32749
SRR3384921	fruit	no	2 week after full bloom	4.3503
SRR3384920	fruit	no	3 week after full bloom	3.02878
SRR3384919	fruit	no	4 week after full bloom	2.93531
SRR3384923	fruit	no	5 week after full bloom	2.79146
SRR3384918	fruit	no	6 week after full bloom	2.52663
SRR3384917	fruit	no	8 week after full bloom	3.48009
SRR3384916	fruit	no	10 week after full bloom	3.26814
SRR3384915	fruit	no	12 week after full bloom	2.93234
SRR3384914	fruit	no	14 week after full bloom	2.8127
SRR3384913	fruit	no	16 week after full bloom	2.53988
SRR3384912	fruit	no	18 week after full bloom	3.83441
SRR3384911	fruit	no	19 week after full bloom	3.28006
SRR3384910	fruit	no	20 week after full bloom	3.89121
SRR768128	whole fruit	no	25 days post anthesis	4.05707
SRR768129	whole fruit	no	35 days post anthesis	2.55765
SRR768130	whole fruit	no	60 days post anthesis	3.0432
SRR768131	whole fruit	no	87 days post anthesis	1.8221
SRR7343308	immature fruit flesh	no	immature	6.06966
SRR7343309	immature fruit flesh	no	immature	4.03583
SRR6320494	ripe fruit flesh	no	mature	4.24124
SRR5405143	ripe fruit peel	no	mature	4.09702
SRR6320572	ripe fruit peel	no	mature	10.3192
SRR7403504	fruit	uninfected	mature	5.55993
SRR7403506	fruit	uninfected	mature	5.78177
SRR7403507	fruit	uninfected	mature	6.38694
SRR7403500	fruit	infected with penicillium expansum	mature	15.9367
SRR7403501	fruit	infected with penicillium expansum	mature	13.2199
SRR7403508	fruit	infected with penicillium expansum	mature	13.5529
SRR7403502	fruit	infected with penicillium expansum	mature	14.5513
SRR7403503	fruit	infected with penicillium expansum	mature	13.275
SRR7403505	fruit	infected with penicillium expansum	mature	12.1185
SRR1613973	Central seeds	no	20DAPF	4.86803
SRR1613974	Central seeds	no	20DAPF	3.88904
SRR1613975	Central seeds	no	20DAPF	4.24486
SRR1613976	Lateral seeds	no	20DAPF	4.69379
SRR1613977	Lateral seeds	no	20DAPF	4.51224
SRR1613978	Lateral seeds	no	20DAPF	4.32351
SRR3744786	stem	no	mature	11.2376
SRR3744787	stem	no	mature	10.4242
SRR3744772	stem	no	mature	10.6493
SRX765691	seedling shoot apex	no	4-6 week old seedling	4.89112
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	5.17209
SRR1089478	leaf	Virus-free	plantlets	3.42398
SRR1089477	leaf	ASGV-infected	plantlets	4.2402
SRR767660	leaf	uninfected	fully developed	2.37738
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	9.64891
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	3.80549
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	1.57471
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	5.35801
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	4.29226
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	6.19877
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	5.4399
SRR6308182	young leaf	no	immature leaves	5.64966
SRR3744769	leaf	no	mature	10.484
SRR3744770	leaf	no	mature	10.0083
SRR3744771	leaf	no	mature	10.8649
SRR5405145	leaf	no	mature	5.44417
SRR6320561	leaf	no	mature	4.26151