Gene detail

Detail information of GWHGAAZE029603

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	CDO97628.1	1.2976E-101	unnamed protein product [Coffea canephora]
Swissprot	tr\|Q9FVW4\|RENT3_ARATH	3E-86	Regulator of nonsense transcripts UPF3
trEMBL	tr\|A0A068TQI7\|A0A068TQI7_COFCA	5E-102	Coffea canephora DH200=94 genomic scaffold, scaffold_1 {ECO:0000313\|EMBL:CDO97628.1}
TAIR10	AT1G33980.1	1E-71	Smg-4/UPF3 family protein

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000009	gene	29779299	29782501	+
GWHAAZE00000009	mRNA	29779299	29782501	+
GWHAAZE00000009	exon	29779299	29779438	+
GWHAAZE00000009	exon	29780475	29780581	+
GWHAAZE00000009	exon	29781727	29781822	+
GWHAAZE00000009	exon	29782157	29782255	+
GWHAAZE00000009	exon	29782401	29782501	+
GWHAAZE00000009	CDS	29779299	29779438	+
GWHAAZE00000009	CDS	29780475	29780581	+
GWHAAZE00000009	CDS	29781727	29781822	+
GWHAAZE00000009	CDS	29782157	29782255	+
GWHAAZE00000009	CDS	29782401	29782501	+

Transcript Sequence
>GWHTAAZE029637 ATGAAGGGGCCGTTGGATCGAACGAAGGCGGTGCTTCGGCACTTGCCGCCGACGATTACAGAGTCTTCGCTGGTGGAACAAATCGACGTTCGCTTCGGCGGTCGGTACAACTGGGTCTCTTTCCGCCCCGGCAAAAGCAGCCCAAAGCAGCAATTATATTCGAGGGCCTACATCGACTTCAAAATGCCAGAGGATGTTATAGAGTTTGCAGAGTTCTTTGGTGGACATGTTTTTGTTAACGAGAAAGGTACTCAGTTTAAAACTATTGTTGAGTACGCTCCTTCACAGCGTGTTCCAAAGCAGTGGCCTAAAAGGGATGGGCGCGAAGGAACTATATATAAAGATCCCGAGTATTTGGAGTTTCTTGAATTAATTGCGAAGCCTGTTGAGAATCTTCCCAGTGCAGAGATACAGTTGGAAAGGAGGGAAGCTGAGCGAGCTGGTGCTTCGAAGGAAGCTCCAATTATTACGCCATTAATGGATTTTGTTCGTCAGAAAAGAGCTGCCAAGGGTGGACCTCGGGTACGACTTAATATTATCTAA

Network for GWHGAAZE029603

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
PF03467.16	Smg4_UPF3	7	168	4.60E-48

Protein Sequence

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K14328	UPF3, RENT3	RNA transport	map03013
K14328	UPF3, RENT3	mRNA surveillance pathway	map03015

Gene Ontology

GO term	Ontology	Name
GO:0003676	molecular_function	nucleic acid binding

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	26.959
	SRR3591706	second leaf	16.312
	SRR3591707	mature leaf	37.670
	SRR3591708	Shoot apex	17.938
	SRR3591709	Stem	34.787
	SRR3591710	White floral bud	32.309
	SRR3591711	White flower	34.544
	SRR3591712	Green floral bud	22.825
	SRR3591713	Yellow flower	26.460
SRP173429	SRR8316895	Juvenile bud stage	13.461
	SRR8316896	Juvenile bud stage	24.666
	SRR8316897	Juvenile bud stage	10.595
	SRR8316894	Third green stage	10.313
	SRR8316900	Third green stage	28.158
	SRR8316901	Third green stage	21.542
	SRR8316898	Complete white stage	15.397
	SRR8316899	Complete white stage	42.151
	SRR8316903	Complete white stage	23.312
	SRR8316902	Silver flowering stage	14.585
	SRR8316904	Silver flowering stage	22.276
	SRR8316905	Silver flowering stage	11.233
	SRR8316906	Gold flowering stage	36.155
	SRR8316907	Gold flowering stage	32.258
	SRR8316908	Gold flowering stage	36.163
SRP132670	SRR6706286	Control	32.902
	SRR6706287	Light intensity 50%	31.829
	SRR6706288	Light intensity 20%	33.330
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	10.237
	CNS0095593	Slightly white alabastrum(diploid) 2	9.818
	CNS0095594	Slightly white alabastrum(diploid) 3	7.720
	CNS0095595	Whole white alabastrum(diploid) 2	11.378
	CNS0095596	Whole white alabastrum(diploid) 3	12.060
	CNS0095597	Whole white alabastrum(diploid) 4	10.941
	CNS0095598	Silvery flower (diploied) 1	21.512
	CNS0095599	Silvery flower (diploied) 2	15.599
	CNS0095600	Silvery flower (diploied) 3	36.410
	CNS0095601	Golden flower (diploid) 1	15.620
	CNS0095602	Golden flower (diploid) 2	36.347
	CNS0095603	Golden flower (diploid) 3	30.801
	CNS0095604	Slightly white alabastrum(tetraploid) 1	16.905
	CNS0095605	Slightly white alabastrum(tetraploid) 2	11.065
	CNS0095606	Slightly white alabastrum(tetraploid) 3	32.498
	CNS0095607	Whole white alabastrum(tetraploid) 1	16.220
	CNS0095608	Whole white alabastrum(tetraploid) 2	12.633
	CNS0095609	Whole white alabastrum(tetraploid) 3	22.411
	CNS0095610	Silvery flower (tetraploid) 1	38.555
	CNS0095611	Silvery flower (tetraploid) 2	39.084
	CNS0095612	Silvery flower (tetraploid) 3	31.794
	CNS0095613	Golden flower (tetraploid) 1	20.451
	CNS0095614	Golden flower (tetraploid) 2	30.887
	CNS0095615	Golden flower (tetraploid) 3	39.500
CRA001975	CRR073297	Stem 1	23.012
	CRR073298	Stem 2	23.056
	CRR073299	Stem 3	25.411
	CRR073300	Leaf 1	29.115
	CRR073301	Leaf 2	24.447
	CRR073302	Leaf 3	23.977
	CRR073303	Juvenile bud 1	28.779
	CRR073304	Juvenile bud 2	25.182
	CRR073305	Juvenile bud 3	34.757
	CRR073306	Third green 1	18.130
	CRR073307	Third green 2	24.390
	CRR073308	Third green 3	21.522
	CRR073309	Second white 1	13.349
	CRR073310	Second white 2	19.453
	CRR073311	Second white 3	18.299
	CRR073312	Silver flowering 1	15.725
	CRR073313	Silver flowering 2	23.926
	CRR073314	Silver flowering 3	20.957
	CRR073315	Gold flowering 1	15.277
	CRR073316	Gold flowering 2	23.910
	CRR073317	Gold flowering 3	14.308
	CRR073318	Tawny withering 1	18.056
	CRR073319	Tawny withering 2	22.395
	CRR073320	Tawny withering 3	25.117