Gene detail

Detail information of MD09G1109200 Annotation

Gene ID	Annotation
MD09G1109200	Polynucleotidyl transferase

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	CFinderM0375	cobalt/nickel-transporting P-type ATPase D [EC:3.6.3.-] polyglutamine-binding protein 1 peptidylprolyl isomerase domain and WD repeat-containing protein 1 [EC:5.2.1.8] cullin 1 leucyl-tRNA synthetase [EC:6.1.1.4]

Gene structure and chromatin state

more details in UCSC

details of chromatin state

Location

Gene	Type	Chr	Start	End	Strand
MD09G1109200	mRNA	Chr09	8076667	8082387	-

Sequences

CDS:

MD09G1109200

TCGTCTTCCTTCTTCTGCTTCCATCGAGCTAAACAGAAAGCTCCAGAAACACAAAAATGGAGGCGAAAGGAAGAAACCTCAAGATTGCAGTAGTCGCCCTCGCTTCTCTGACAGCTCTCTCCGTCTTCTTCTTTGCGCGGCACCGGAGACGCCGCCGGAACGCAAACTGCCCCCTAAGTCGATGTTATTTACGAGCCGATCACCTCAAGCTGCAGTACGGATTCAAGCGAGTTTTAGCTGACAATTCCTACTCTCCCTTCAAGCATCTGAACTTGAATGGTTCTCCGGAAGATAAGAACTGGAATTCGCATCCTTATGAGGCTGAAATCACGGGATTGGTGGAAAGTTTTCAGCTTGAGGAGTTTCGAAAATGTATTGGAATTACAGAGAAGAATGTGGGGGGTTTGGAAGAAATGAGTGAGTCGTATGAGTGGGTGGAGACCGAGTCGAAGTTGAAGGAACTCGTTGAGGTTTTGAACAAAGAGAAGGTATTTGCTGTTGATACGGAGCAGCATAGTTTTCGGTCTTTTCTCGGTTTTACAGCTCTAATACAGATTTCTACTGAGAAGGAAGATTACTTGGTGGACACGATTGCTCTGCATGATTGCATAAGCCTTCTACGGCCGGTTTTCGCTGATGCTAGTATTTGTAAGGTGTTCCATGGGGCGGATAGTGATGTTCTCTGGCTGCAAAGGGACTTCCATATTTATGTTGTTAATATGTTTGATACTGCAAAGGCTTGTGAAGTTTTGTCAAAGCCGCAGAAGTCACTGGCATATTTGCTTGAATCTTACTGTGGAGTAGTCACTAACAAGTTGTTACAGCGTGAAGACTGGAGACAGCGCCCCTTGTCAATTGAAATGGTACAATATGCTCGTACAGATGCGCACTATCTACTCTATATTGCACGCAGTTTAATTGCTGAGCTGGAAATGCTGGATAACGAAAACAACGGTCCCAATGACAAATTACATTTTGTTCTCGAGGCTAGTCGGCGTTCAAACTCGATATGTTTGCAACTGTACACTAAAGAGATAGAAGCTTCTCCTGGAGAGTCTGCTGCTTCATCAATTTTTAGCCGTCATTTGAACGGCCAAGGAGGGATTTCATCAGTTTCTCCTGAAGTCCAGGATGCTGTGAACAGATTATGTGCATGGAGAGATTTGATGGCTCGTGTACACGATGAGAGCTTAAGATATGTAATATCAGATCAGGCTATTGTTGCCCTTGCAGACAAAGCTCCAACGAACCCTGCAGACATATTAACCACCATTGCTGAAGCTGATTGCAATGCAGATTCAAGTTTTGGTTCTGGCCTCTCATCTCCATCCCCTGTCGTTTACAGTCATTTGGATGACTTTCGTCATCTGCTCCATAACAAAATAGGCAACCCTGATAATTTATTTTCTAAGATTCTTCAAAACTGCCTGGGTCCAAATGGGAGTTGCCCACTGTCCATCTTCAATTATGCTTTACTGGTAGAGTGTAATATGAAAGTGCCACTAACTTCTAGAAAAAATGGGTCGAGAAATTCAAAGCAAGTTGCTCGAAAGTCGTCTCGGCAGCTATTTGTTCAAAAATTTTCTTGTAAAGCTCCAGTTTATCATAATTGCAGGATCTATGCAGATGATGGCCGGTTGCTTTGTTACTGTGACCGCAGGAAGCTTGAATGGTATCTTCGGCAGGATTTGGCAAAACTTGTTGATGAAAATCCACCTGCAATTATGCTTCTTTTTGAGCCCAAAGGCCGTCCAGAAGATGAAGGCAATGATTTTTACATTCAAAGTAAGAAAAATATATGTGTTAGCTGTGGCGAAAGAAATCATTACTTACGCTACCGAATAATTCCCTCATGCTACAGAATGCACTTCCCTGAACATTTGAAAAGCCACCGTTCTCATGATATTGTCCTACTATGTGTGGACTGTCATGAAATTGCTCATGCCTCTGCTGAGAAGTATAAAAAACATATCGCTGCAGAATTTGGGATTCCACTTTTTGTTCGCAGAGTGGTTGACTCAGAACAATCTCAGGCTACATCTGAAGCATCTGTTCCAGAAACAACTTCTGAGGAACCAGGTGTATCTCCTTTACAATTGCGCATTGCTGCTATGGCTCTTCTGCGCCATGGACCAAGAATGCCATCCAGCCGCCGTGAAGAACTGACAGAGATAGTAATGAGGTATTATGGAGGGAGGCAAATATCTGAGGAAGATTTAGAAAACGCTTTGTTGGTTGGCATGAGTCCCAACGAGAGAAGACAATTTGAGAAGAAGAAAGGACTTTCTTTAAAGCATTCTAAGGGGATTATTCAACCAGATGCAGAGCAGGAGAGAACTACAATTACCATGTACACATCTGCCATTGTGAACGCATCGGAAGTTGATCCTCTACTTGATTCATGCACCACTGAAGCAGAAGCATATACCGGAACAGAAAATGGAGATGCTTTCATGCTGAAGGATGCTGATTTGGGGACTGAAGAAGAAGCTTTTGCTGTTGTTGAAAAGAACATGAACTCAGATATAAGTGGAGTTGCTGATAGTCAGTTTATATCTGTTGTAAATGCTGATGGTGACGGTGATGGTGAGAGAGATACACCGAACGGATCAGTTGATTTTAGTCATGCCGGATATGGTGCAACTTCCCACCGTAAACGTAGATCAAAAATGTCACTTTTAGGACATGGTCCACATGGCAAGCAAGTTGTGGATCATCTGCTAAAGGAATATGGTGAAGATGGCGTTTCTCAATTTTGTCAAAGGTGGAGACAAGTATTCGTTGAATCTCTTCATCCTCGTTTTTTACCTGCCGGCTGGGATATAACGCACAGGAGGGACTTCGGCGAATTTAGCGTCTACAATCCTCTCAAGAAGGCTTCTGCTGCTGAATGTTTATGAATCGACAGACCGGTTGCAAGACGAGCCAAAATTATGAGGATTTTGTTCGTCCCTCGATCCTCCTGTCAACCTCCATTCCAAAAGCTGCCTTGTAACCTATTTGTTTATCTTCTAATTTTTTACTTTTGGATTACGAATTTCGCCATCATTTAGCAAACATTCGCTACAATCTCTCTTTAGATCGAACTCATTGGAATATTTCGTATTGGTGTG

Protein:

Gene family

Gene family	Subfamily
--	--

Orthologous genes

Species	Gene ID	Score of Inparanoid	Annotation
Prunus persica	Prupe.3G217000.1.p	1	"Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain"
Pyrus communis	PCP044246.1	1	-
Pyrus x bretschneideri	Pbr018105.1	1	-
Rubus occidentalis	Ro06_G06748	1	-
Fragaria vesca	mrna23780.1	1	"Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain"
Vitis vinifera	GSVIVT01030425001	1	"Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain"
Solanum lycopersicum	Solyc07g052340.2.1	1	"Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain"
Populus trichocarpa	Potri.002G229000.1	1	"Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain"
Nicotiana benthamiana	Niben101Scf03723g02009.1	1	Exonuclease 3'-5' domain-containing protein 2
Oryza sativa	LOC_Os07g32890.1	1	"3'-5' exonuclease, putative, expressed"
Zea mays	GRMZM2G048819_P01	1	"Polynucleotidyl transferase, ribonuclease H fold protein with HRDC domain "

Gene Ontology

GO term	Description	Category
GO:0003676	nucleic acid binding	molecular_function
GO:0006139	nucleobase-containing compound metabolic process	biological_process
GO:0008408	3'-5' exonuclease activity	molecular_function
GO:0000166	nucleotide binding	molecular_function
GO:0005622	intracellular	cellular component

KEGG

KO	Description	Enzyme
K12951	cobalt/nickel-transporting P-type ATPase D	EC:3.6.3.-

Pfam domain

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF01612.16	DNA_pol_A_exo1	124	291	8.10E-46
PF00570.19	HRDC	360	404	5.10E-08

Expression pattern

SRA Experiment	Tissue	Stress	Stage	FPKM
SRR768136	whole seedling	no	seedling	2.50964
SRR5252888	dormant buds	no	dormant buds(0 month)	7.17713
SRR5252889	dormant buds	no	dormant buds(0 month)	7.22343
SRR5252886	dormant buds	no	dormant buds(1 months)	6.46604
SRR5252887	dormant buds	no	dormant buds(1 months)	4.94793
SRR5252884	dormant buds	no	dormant buds(2 months)	7.18849
SRR5252882	dormant buds	no	dormant buds(3 months)	8.20031
SRR5252883	dormant buds	no	dormant buds(3 months)	6.9566
SRR5252880	dormant buds	no	dormant buds(4 months)	8.62337
SRR5252881	dormant buds	no	dormant buds(4 months)	9.5411
SRR5252878	bud break	no	bud break	6.61965
SRR5252879	bud break	no	bud break	8.22012
SRR3744766	flower	no	mature	2.65481
SRR3744767	flower	no	mature	2.8553
SRR3744768	flower	no	mature	2.65562
SRR6308190	stigmas	no	open flowers	1.85195
SRR6308181	styles	no	open flowers	1.44317
SRR6308188	filaments	no	open flowers	2.95823
SRR6308187	anthers	no	buds 1-3 days prior to flower opening	1.58852
SRR6308192	pollen	no	open flowers	0
SRR6308191	petals	no	open flowers	2.77638
SRR6308194	sepals	no	open flowers	2.17112
SRR6308193	receptacles	no	open flowers	3.08697
SRR6308189	ovaries	no	open flowers	2.47956
SRR3384922	fruit	no	1 week after full bloom	1.26219
SRR3384921	fruit	no	2 week after full bloom	1.00377
SRR3384920	fruit	no	3 week after full bloom	1.0066
SRR3384919	fruit	no	4 week after full bloom	0.657766
SRR3384923	fruit	no	5 week after full bloom	0.90594
SRR3384918	fruit	no	6 week after full bloom	0.984486
SRR3384917	fruit	no	8 week after full bloom	0.936008
SRR3384916	fruit	no	10 week after full bloom	0.855669
SRR3384915	fruit	no	12 week after full bloom	1.14563
SRR3384914	fruit	no	14 week after full bloom	0.878544
SRR3384913	fruit	no	16 week after full bloom	0.730431
SRR3384912	fruit	no	18 week after full bloom	0.628349
SRR3384911	fruit	no	19 week after full bloom	0.82181
SRR3384910	fruit	no	20 week after full bloom	0.922285
SRR768128	whole fruit	no	25 days post anthesis	2.73444
SRR768129	whole fruit	no	35 days post anthesis	0.955443
SRR768130	whole fruit	no	60 days post anthesis	1.88794
SRR768131	whole fruit	no	87 days post anthesis	0.732066
SRR7343308	immature fruit flesh	no	immature	1.82456
SRR7343309	immature fruit flesh	no	immature	1.51629
SRR6320494	ripe fruit flesh	no	mature	1.31622
SRR5405143	ripe fruit peel	no	mature	2.03089
SRR6320572	ripe fruit peel	no	mature	0.893356
SRR7403504	fruit	uninfected	mature	1.23198
SRR7403506	fruit	uninfected	mature	1.18035
SRR7403507	fruit	uninfected	mature	1.04211
SRR7403500	fruit	infected with penicillium expansum	mature	0.296198
SRR7403501	fruit	infected with penicillium expansum	mature	0.549438
SRR7403508	fruit	infected with penicillium expansum	mature	0.316868
SRR7403502	fruit	infected with penicillium expansum	mature	0.643087
SRR7403503	fruit	infected with penicillium expansum	mature	0.649869
SRR7403505	fruit	infected with penicillium expansum	mature	0.584154
SRR1613973	Central seeds	no	20DAPF	1.81336
SRR1613974	Central seeds	no	20DAPF	1.78656
SRR1613975	Central seeds	no	20DAPF	1.59063
SRR1613976	Lateral seeds	no	20DAPF	1.34002
SRR1613977	Lateral seeds	no	20DAPF	1.3397
SRR1613978	Lateral seeds	no	20DAPF	1.74836
SRR3744786	stem	no	mature	3.28202
SRR3744787	stem	no	mature	2.76995
SRR3744772	stem	no	mature	3.69909
SRX765691	seedling shoot apex	no	4-6 week old seedling	3.03837
SRX765683	tree shoot apex	no	Adult (tree), new shoot has 10-12 visible leaves	3.30089
SRR1089478	leaf	Virus-free	plantlets	2.3361
SRR1089477	leaf	ASGV-infected	plantlets	2.50608
SRR767660	leaf	uninfected	fully developed	0.454007
SRR767669	leaf	2 days post infection by Venturia inaequalis	fully developed	2.07881
SRR767670	leaf	4 days post infection by Venturia inaequalis	fully developed	2.01591
SRR767671	leaf	6 days post infection by Venturia inaequalis	fully developed	1.30308
SRR767672	leaf	8 days post infection by Venturia inaequalis	fully developed	0
SRR767673	leaf	10 days post infection by Venturia inaequalis	fully developed	1.11883
SRR767674	leaf	12 days post infection by Venturia inaequalis	fully developed	1.30266
SRR768127	leaf	14 days post infection by Venturia inaequalis	fully developed	1.02892
SRR6308182	young leaf	no	immature leaves	2.5934
SRR3744769	leaf	no	mature	5.10066
SRR3744770	leaf	no	mature	4.34087
SRR3744771	leaf	no	mature	5.32018
SRR5405145	leaf	no	mature	2.03061
SRR6320561	leaf	no	mature	1.96023