Gene detail

Detail information of GWHGAAZE013819

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	XP_010266149.1	5.91855E-88	PREDICTED: small nuclear ribonucleoprotein Sm D3-like [Nelumbo nucifera]
Swissprot	tr\|Q43582\|LSM4_TOBAC	7E-15	Probable U6 snRNA-associated Sm-like protein LSm4
trEMBL	tr\|A0A068UJI5\|A0A068UJI5_COFCA	6E-87	Coffea canephora DH200=94 genomic scaffold, scaffold_32 {ECO:0000313\|EMBL:CDP08394.1}
TAIR10	AT1G20580.1	3E-50	Small nuclear ribonucleoprotein family protein

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000004	gene	1073285	1076083	-
GWHAAZE00000004	mRNA	1073285	1076083	-
GWHAAZE00000004	exon	1075820	1076083	-
GWHAAZE00000004	exon	1074765	1074817	-
GWHAAZE00000004	exon	1074623	1074689	-
GWHAAZE00000004	exon	1074481	1074537	-
GWHAAZE00000004	exon	1073285	1073598	-
GWHAAZE00000004	five_prime_UTR	1075979	1076083	-
GWHAAZE00000004	CDS	1075820	1075978	-
GWHAAZE00000004	CDS	1074765	1074817	-
GWHAAZE00000004	CDS	1074623	1074689	-
GWHAAZE00000004	CDS	1074481	1074537	-
GWHAAZE00000004	CDS	1073533	1073598	-
GWHAAZE00000004	three_prime_UTR	1073285	1073532	-

Transcript Sequence
>GWHTAAZE013833 GTCCTGTACAAGCGGTCCCAAAGTTCGCGCAGGGTTAAGTAGTAAAGGATTTATTAGGGTTTTGCAGAGAAGGGAAGGAGAGCGAAGTTAAGGGTTAACGTAGAAATGAGCAGGAGCTTGGGTATACCGGTGAAGCTACTGCACGAGGCTGCTGGTCACGTGGTCACGGTTGAACTCAAGAGCGGTGAGCTCTACAGAGGCAGCATGATCGAGTGCGAAGACAACTGGAATTGCCAACTCGAAAATATTACTTTCACCGCCAAGGATGGGAAGATCTCACAACTTGAGCATGTTTTTATCCGAGGCAGCAAAGTCAGGTTTATGGTGATTCCGGACATGCTCAAGAATGCTCCAATGTTCAAGCGTTTGGAAGCAAGAATCAAGGGCAAGGGATCATCACTGGGAGTTGGCAGGGGTCGTGCTGTTGCAATGCGAGCTAGAGCTCAGGCTGCTGGTCGTGGAGGAGCTGCTCCTGGTAGGGGTGTTGTGCCCCCAGTACGGAGGTAAATCCATCCCCCAGGTGGGATGTTTTGACCTCCTTGCTTTGACGTTGATATCTTCATTAGTTGTATTGTTTGAATGAGCGTTCATTTTGTTTAGATCTTTAAAGTTTGTGATTTTGTAATCTAAAAAGTTGGGTGTAATAATAGGAAAGGTAGCTTTCTAGCTGGTATTTGTTGCAATGATATTTTAGTTTCTCGAACTTTTGCAACTTCTAAATGTGATATCTTGTTTAGATCTTTTTTCTTCTTATA

Network for GWHGAAZE013819

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
PF01423.23	LSM	11	74	2.80E-15

Protein Sequence

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K11088	SNRPD3, SMD3	Spliceosome	map03040
K11088	SNRPD3, SMD3	Mitophagy - yeast	map04139

Gene Ontology

GO term	Ontology	Name
GO:0000387	biological_process	spliceosomal snRNP assembly
GO:0005681	cellular_component	spliceosomal complex

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	29.953
	SRR3591706	second leaf	20.626
	SRR3591707	mature leaf	16.483
	SRR3591708	Shoot apex	63.107
	SRR3591709	Stem	24.788
	SRR3591710	White floral bud	26.590
	SRR3591711	White flower	35.489
	SRR3591712	Green floral bud	35.737
	SRR3591713	Yellow flower	25.036
SRP173429	SRR8316895	Juvenile bud stage	25.217
	SRR8316896	Juvenile bud stage	31.905
	SRR8316897	Juvenile bud stage	13.351
	SRR8316894	Third green stage	10.304
	SRR8316900	Third green stage	32.043
	SRR8316901	Third green stage	31.316
	SRR8316898	Complete white stage	9.321
	SRR8316899	Complete white stage	42.382
	SRR8316903	Complete white stage	10.414
	SRR8316902	Silver flowering stage	10.988
	SRR8316904	Silver flowering stage	10.885
	SRR8316905	Silver flowering stage	5.032
	SRR8316906	Gold flowering stage	18.718
	SRR8316907	Gold flowering stage	21.931
	SRR8316908	Gold flowering stage	25.273
SRP132670	SRR6706286	Control	17.483
	SRR6706287	Light intensity 50%	17.677
	SRR6706288	Light intensity 20%	20.386
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	38.792
	CNS0095593	Slightly white alabastrum(diploid) 2	47.568
	CNS0095594	Slightly white alabastrum(diploid) 3	36.313
	CNS0095595	Whole white alabastrum(diploid) 2	32.161
	CNS0095596	Whole white alabastrum(diploid) 3	31.199
	CNS0095597	Whole white alabastrum(diploid) 4	25.696
	CNS0095598	Silvery flower (diploied) 1	36.050
	CNS0095599	Silvery flower (diploied) 2	26.844
	CNS0095600	Silvery flower (diploied) 3	23.044
	CNS0095601	Golden flower (diploid) 1	29.007
	CNS0095602	Golden flower (diploid) 2	25.968
	CNS0095603	Golden flower (diploid) 3	23.004
	CNS0095604	Slightly white alabastrum(tetraploid) 1	29.393
	CNS0095605	Slightly white alabastrum(tetraploid) 2	33.848
	CNS0095606	Slightly white alabastrum(tetraploid) 3	55.950
	CNS0095607	Whole white alabastrum(tetraploid) 1	18.437
	CNS0095608	Whole white alabastrum(tetraploid) 2	17.120
	CNS0095609	Whole white alabastrum(tetraploid) 3	29.845
	CNS0095610	Silvery flower (tetraploid) 1	25.475
	CNS0095611	Silvery flower (tetraploid) 2	26.108
	CNS0095612	Silvery flower (tetraploid) 3	18.755
	CNS0095613	Golden flower (tetraploid) 1	20.036
	CNS0095614	Golden flower (tetraploid) 2	24.486
	CNS0095615	Golden flower (tetraploid) 3	9.886
CRA001975	CRR073297	Stem 1	32.683
	CRR073298	Stem 2	31.870
	CRR073299	Stem 3	41.474
	CRR073300	Leaf 1	33.987
	CRR073301	Leaf 2	34.725
	CRR073302	Leaf 3	39.332
	CRR073303	Juvenile bud 1	32.211
	CRR073304	Juvenile bud 2	21.241
	CRR073305	Juvenile bud 3	25.727
	CRR073306	Third green 1	3.538
	CRR073307	Third green 2	4.514
	CRR073308	Third green 3	7.127
	CRR073309	Second white 1	11.531
	CRR073310	Second white 2	10.480
	CRR073311	Second white 3	7.165
	CRR073312	Silver flowering 1	10.320
	CRR073313	Silver flowering 2	12.486
	CRR073314	Silver flowering 3	9.313
	CRR073315	Gold flowering 1	27.618
	CRR073316	Gold flowering 2	29.667
	CRR073317	Gold flowering 3	23.047
	CRR073318	Tawny withering 1	40.934
	CRR073319	Tawny withering 2	38.531
	CRR073320	Tawny withering 3	37.266