Gene detail

Detail information of GWHGAAZE029928

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	XP_010270536.1	0	PREDICTED: polyadenylate-binding protein 2-like isoform X1 [Nelumbo nucifera]
COG	YP_005007227.1	1E-12	RNP-1 like RNA-binding protein
Swissprot	tr\|P42731\|PABP2_ARATH	0	Polyadenylate-binding protein 2
trEMBL	tr\|K4B303\|K4B303_SOLLC	0	Uncharacterized protein {ECO:0000313\|EnsemblPlants:Solyc01g107870.2.1}
TAIR10	AT4G34110.1	0	poly(A) binding protein 2

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000009	gene	35506671	35514844	+
GWHAAZE00000009	mRNA	35506671	35514844	+
GWHAAZE00000009	exon	35506671	35506899	+
GWHAAZE00000009	exon	35510326	35510408	+
GWHAAZE00000009	exon	35510979	35511635	+
GWHAAZE00000009	exon	35511734	35511811	+
GWHAAZE00000009	exon	35511887	35511976	+
GWHAAZE00000009	exon	35512161	35512298	+
GWHAAZE00000009	exon	35512612	35512785	+
GWHAAZE00000009	exon	35513345	35513524	+
GWHAAZE00000009	exon	35514584	35514844	+
GWHAAZE00000009	CDS	35506671	35506899	+
GWHAAZE00000009	CDS	35510326	35510408	+
GWHAAZE00000009	CDS	35510979	35511635	+
GWHAAZE00000009	CDS	35511734	35511811	+
GWHAAZE00000009	CDS	35511887	35511976	+
GWHAAZE00000009	CDS	35512161	35512298	+
GWHAAZE00000009	CDS	35512612	35512785	+
GWHAAZE00000009	CDS	35513345	35513524	+
GWHAAZE00000009	CDS	35514584	35514844	+

Transcript Sequence
>GWHTAAZE029962 ATGGCGCAGGTTCAACAAGCTCAACAGCCTCAGGCGGTGAATGGAGGCGGGAATCAGTTTGTGCCGACGTCACTGTATGTCGGTGACCTCGAGTGGAGTGTGACTGATTCGCAGCTTTATGATCTGTTTAACCAGCTAGGTCAGGTGGTTTCGGTTAGGGTTTGTAGGGATTTGTCTACTCGGAGGTCACTTGGCTATGGTTATGTCAACTATGCCAATCCGCAAGATGCTGCGAGGGCAATGGAGGTGCTGAACTTTACTCCTGTTAATGGAAAATCCATTAGGATAATGTATTCTCATCGGGATCCTAGTAATTTGGACAAGGCAATTGACCACAAAGCTCTGCATGACACATTTTCTGCATTTGGGAATATTCTCTCCTGCAAGATAGCTACAGACAACTCTGGTGAGTCAAAGGGCTATGGTTTTGTTCAATATGAGAGCGAGGAAGCTGCCCAAACAGCTATTGAGAAGCTGAATGGTATGCTGTTGAATGATAAGCAAGTATACGTTGGACCCTTTCTTCGCAAACAGGAAAGAGAAATGGCTGTTGACAAGACAAAATTTACTAACGTATATGTAAAGAATCTATCCGAATCAACCACAGAAGAGGATTTAAAAAAAGCGTTTGGTGAATTTGGACCAATCACTAGTGTCGTCGTAATGAGGGATGGGGATGGAAAGTCTAAGTGCTTCGGATTTGTCAACTTCGAGGATGCGGAAGATGCTGCTAGATCTGTCGAGGCTCTTAATGGACAAAAGTTTGATCAGAAGGAGTGGTATGTTGGGAAAGCCCAGAAAAAATCTGAGAGGGAACAAGCATTAAAAGGTCAATTCGAGCAGACTGTGAAGGAGGCAGTGGACAAATCACAAGGGCTGAACTTGTACATCAAAAATCTAGAAGATACCATTGGTGATGATAAGTTAATGGAAATGTTCTCTCAATTTGGTACAATAACTTCATGCAAGGTTATGAGAGATCCTAATGGAACGAGTAAAGGGTCGGGTTTTGTTGCATTTTCAACTCCTGAGGAGGCTTCTAAAGCTCTGTCAGAGATGAATGGCAAGATGGTTGCTAACAAACCACTTTATGTCGCACTTGCACAGCGTAAAGAAGATAGAAGGGCAAGATTGCAGGCACAATTTTCTCAGATGCGACCAATTGCAATGGCATCTTCTGTCCCTCCTCGTATGCCAATGTTCCCTCCTGGAGGTCCAGGCCTAGGGCAACAAGTATTCTATGGACAAGCCCCTCCTGCTTTCATTCCTCCCCAACCTGGCTTTGGGTATCAGCAGCAACTCGTTCCAGGTATGAGGCCTGGTGGGGCCCCAATGCAGAACTTTTTTGTTCCAATGGGTGCTCAGCAAGGGCAGCATCCAGGTGGCCGACGTTCAGGAGCTGTGCCTGGGCAGCAGGGCCAACAGCCTGTCCCACTAATGCAGCATCAGATGCTTCCAAGGGGTCGCGTGTATCGTTACCCTCCAGGTCGTGGGCTCCCAGATGTTTCCATGCCAGGTATGGGCGGAGGCATGCAGTTGCGTGGGGATGCAGGCGGCATGTCTAAGCCAATTCCAATTGGAGCTTTGGCTTCTGCCCTTGCAAATTCTACACCTGCGGAGCAGCGAACGATGCTTGGTGAAAACTTGTACCCACTAGTGGAGCAGCTGGAAGGTGAAGCAGCGGCCAAGGTGACGGGTATGCTTCTGGAAATGGATCAGACGGAGGTGCTGCACTTGCTGGAGTCCCCTGAAGCTCTTAAAGCTAAAGTAGCCGAGGCTATGGAGGTCCTTAGGAATGTCAGTCAGCAGCAGCAGGCAGCCAGTAATTCCCCGTCTGCTGCTGATCAATTGGCCGCATTGTCATTGAGCGATGATGGCCTTGTTTCTTAA

Network for GWHGAAZE029928

Network category	Network	Top300 PCC genelist
Coexpression Positive	Network	Top300 PCC genelist
Coexpression Negative	Network	Top300 PCC genelist

Functional Module

Module ID	Function Annotation

Protein Structure

Pfam accession	Pfam name	Alignment start	Alignment end	E-value
PF00076.23	RRM_1	25	95	9.20E-19
PF00076.23	RRM_1	104	169	3.30E-18
PF00076.23	RRM_1	192	260	3.80E-24
PF00076.23	RRM_1	295	363	6.40E-20
PF00658.19	PABP	531	597	1.20E-25

Protein Sequence

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K13126	PABPC	RNA transport	map03013
		mRNA surveillance pathway	map03015
		RNA degradation	map03018

Gene Ontology

GO term	Ontology	Name
GO:0003723	molecular_function	RNA binding
GO:0003676	molecular_function	nucleic acid binding

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	143.401
	SRR3591706	second leaf	70.345
	SRR3591707	mature leaf	70.084
	SRR3591708	Shoot apex	235.224
	SRR3591709	Stem	100.696
	SRR3591710	White floral bud	78.409
	SRR3591711	White flower	85.586
	SRR3591712	Green floral bud	99.401
	SRR3591713	Yellow flower	66.252
SRP173429	SRR8316895	Juvenile bud stage	111.790
	SRR8316896	Juvenile bud stage	144.537
	SRR8316897	Juvenile bud stage	32.319
	SRR8316894	Third green stage	55.851
	SRR8316900	Third green stage	131.141
	SRR8316901	Third green stage	132.244
	SRR8316898	Complete white stage	38.328
	SRR8316899	Complete white stage	143.194
	SRR8316903	Complete white stage	65.745
	SRR8316902	Silver flowering stage	46.363
	SRR8316904	Silver flowering stage	52.386
	SRR8316905	Silver flowering stage	27.066
	SRR8316906	Gold flowering stage	97.820
	SRR8316907	Gold flowering stage	89.147
	SRR8316908	Gold flowering stage	55.950
SRP132670	SRR6706286	Control	88.632
	SRR6706287	Light intensity 50%	92.854
	SRR6706288	Light intensity 20%	100.868
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	136.882
	CNS0095593	Slightly white alabastrum(diploid) 2	137.372
	CNS0095594	Slightly white alabastrum(diploid) 3	128.702
	CNS0095595	Whole white alabastrum(diploid) 2	99.446
	CNS0095596	Whole white alabastrum(diploid) 3	115.105
	CNS0095597	Whole white alabastrum(diploid) 4	90.083
	CNS0095598	Silvery flower (diploied) 1	141.017
	CNS0095599	Silvery flower (diploied) 2	121.352
	CNS0095600	Silvery flower (diploied) 3	114.862
	CNS0095601	Golden flower (diploid) 1	118.361
	CNS0095602	Golden flower (diploid) 2	126.839
	CNS0095603	Golden flower (diploid) 3	128.284
	CNS0095604	Slightly white alabastrum(tetraploid) 1	91.333
	CNS0095605	Slightly white alabastrum(tetraploid) 2	90.982
	CNS0095606	Slightly white alabastrum(tetraploid) 3	120.880
	CNS0095607	Whole white alabastrum(tetraploid) 1	55.598
	CNS0095608	Whole white alabastrum(tetraploid) 2	45.648
	CNS0095609	Whole white alabastrum(tetraploid) 3	76.922
	CNS0095610	Silvery flower (tetraploid) 1	58.136
	CNS0095611	Silvery flower (tetraploid) 2	73.971
	CNS0095612	Silvery flower (tetraploid) 3	48.725
	CNS0095613	Golden flower (tetraploid) 1	46.551
	CNS0095614	Golden flower (tetraploid) 2	62.744
	CNS0095615	Golden flower (tetraploid) 3	53.563
CRA001975	CRR073297	Stem 1	163.220
	CRR073298	Stem 2	150.792
	CRR073299	Stem 3	148.623
	CRR073300	Leaf 1	122.862
	CRR073301	Leaf 2	116.981
	CRR073302	Leaf 3	132.159
	CRR073303	Juvenile bud 1	96.016
	CRR073304	Juvenile bud 2	70.468
	CRR073305	Juvenile bud 3	102.645
	CRR073306	Third green 1	47.600
	CRR073307	Third green 2	41.972
	CRR073308	Third green 3	46.244
	CRR073309	Second white 1	42.646
	CRR073310	Second white 2	47.443
	CRR073311	Second white 3	49.023
	CRR073312	Silver flowering 1	56.262
	CRR073313	Silver flowering 2	53.704
	CRR073314	Silver flowering 3	52.153
	CRR073315	Gold flowering 1	51.656
	CRR073316	Gold flowering 2	81.858
	CRR073317	Gold flowering 3	48.220
	CRR073318	Tawny withering 1	101.935
	CRR073319	Tawny withering 2	85.995
	CRR073320	Tawny withering 3	108.691