Gene detail

Detail information of GWHGAAZE028274

Functional Annotation

Database	Orthologs	E value	Annotation
Nr	CDP06311.1	3.3881E-125	unnamed protein product [Coffea canephora]
COG	YP_684650.1	5E-22	DNA-directed RNA polymerase subunit A'
Swissprot	tr\|P18616\|NRPB1_ARATH	7E-16	DNA-directed RNA polymerase II subunit 1
trEMBL	tr\|A0A068UCW6\|A0A068UCW6_COFCA	1E-125	DNA-directed RNA polymerase {ECO:0000256\|RuleBase:RU004279}
TAIR10	AT5G60040.2	1E-76	nuclear RNA polymerase C1

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000008	gene	49463672	49473070	+
GWHAAZE00000008	mRNA	49463672	49473070	+
GWHAAZE00000008	exon	49463672	49463788	+
GWHAAZE00000008	exon	49464735	49464847	+
GWHAAZE00000008	exon	49464945	49465074	+
GWHAAZE00000008	exon	49465856	49465970	+
GWHAAZE00000008	exon	49469635	49469862	+
GWHAAZE00000008	exon	49472080	49472264	+
GWHAAZE00000008	exon	49472891	49473070	+
GWHAAZE00000008	five_prime_UTR	49463672	49463788	+
GWHAAZE00000008	five_prime_UTR	49464735	49464776	+
GWHAAZE00000008	CDS	49464777	49464847	+
GWHAAZE00000008	CDS	49464945	49465074	+
GWHAAZE00000008	CDS	49465856	49465970	+
GWHAAZE00000008	CDS	49469635	49469862	+
GWHAAZE00000008	CDS	49472080	49472264	+
GWHAAZE00000008	CDS	49472891	49473070	+

Transcript Sequence
>GWHTAAZE028308 CTTGTTTCTCCACTCTAAAAAACCCACCTGCTCACTCCTCCCTCTCTCTCGCACCAATCTCTCCTCCACCATCAACCTTAACCTAGGCTTTCGTTGTTTGCATTCATCCATAGCCAGATCATCTCTCTTTCTGTCGACTCTGATAGCTTATAATTGACGATGAGGAGAGTCCAAGATACAATTCAATTCACCAAAGAACCCTACGTCGAAGATGTTGGGCCCCGAAAAATTAAAAGCATTTGCTTCTCTACTTTATCCGAATCTGAAATTTTCAAAAGTGCTGAAGTCCAAGTTTATCGAGGTGTTTATTATGACCCCCAGAAGAAGCCTTTTGAATGTGGCCTGTTGGATTCTCGAATGGGCCCTGCAAGCAAGCAAGGCTTTTGTACAACGTGCCATGGAAGTTTTCGTGATTGCCCAGGGCACTATGGTTACTTGACTCTTACGCTTCCAGTTTATAATGTTGGTTATTTAGTTATTAATGCTGTTTCTGACCTTGGTTTTTTGTTATTTTTCTTTCAACAGAGTTGTGCTCGTATACTCTTGGCGGAGAAAGACCGTGTAGACTTCTTGAAAAAGATGAGAAACCCAAAATTGGAGCCTTTGAAGAAGAGTGAGCTTTTCAAAAAGATAGTGAAAAGGTGCACTGCGTTGGCAAGTAGCAAAAAGGCTGTGAAATGTCCCCGTTGTGATTATATAAATGGTTTGGTGAAAAAGGCTGTTGGTGCAGTCGGAGTCTTTCATGATCGTACTAGAGTTATAGATGATAGTCTAGAAGAATGCAAGGTGGCTATTTCTCACACAAAGGAATCCAAGGCGTCAGTCAGTATCAGTGGTGCTCTACTGCCTGATAGAGTTCTTGATCTTTTCAAGAGGATGATTGATGAGGATTGTGAGATGCTTTATCTTAGTGATAGACCAGAGAAGCTCATCGTGACAAATATTGCAGTACCTCCAATTGCTATTCGCCCTTCTGTCTTTGTCGATGGTGGAACACAGAGGTGTCATCTCAACCCTCAAACTATATCCTTTCTTTTCATTATTGTTTCCCTTTTTTCCTTTGAGTAG

Network for GWHGAAZE028274

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
PF04997.13	RNA_pol_Rpb1_1	22	279	5.90E-37

Protein Sequence

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K03018	RPC1, POLR3A	RNA polymerase	map03020
K03018	RPC1, POLR3A	Cytosolic DNA-sensing pathway	map04623

Gene Ontology

GO term	Ontology	Name
GO:0006351	biological_process	transcription, DNA-templated
GO:0003677	molecular_function	DNA binding
GO:0003899	molecular_function	DNA-directed 5'-3' RNA polymerase activity

Expression pattern

Expression pattern detail

SRP	Sample	Description	TPM
SRP075780	SRR3591705	youngest leaf	6.575
	SRR3591706	second leaf	1.378
	SRR3591707	mature leaf	2.608
	SRR3591708	Shoot apex	4.239
	SRR3591709	Stem	3.443
	SRR3591710	White floral bud	4.311
	SRR3591711	White flower	6.188
	SRR3591712	Green floral bud	5.037
	SRR3591713	Yellow flower	4.110
SRP173429	SRR8316895	Juvenile bud stage	3.693
	SRR8316896	Juvenile bud stage	5.043
	SRR8316897	Juvenile bud stage	1.300
	SRR8316894	Third green stage	2.739
	SRR8316900	Third green stage	4.349
	SRR8316901	Third green stage	4.635
	SRR8316898	Complete white stage	0.806
	SRR8316899	Complete white stage	4.057
	SRR8316903	Complete white stage	2.600
	SRR8316902	Silver flowering stage	1.364
	SRR8316904	Silver flowering stage	3.431
	SRR8316905	Silver flowering stage	1.447
	SRR8316906	Gold flowering stage	4.004
	SRR8316907	Gold flowering stage	3.381
	SRR8316908	Gold flowering stage	3.224
SRP132670	SRR6706286	Control	3.033
	SRR6706287	Light intensity 50%	4.106
	SRR6706288	Light intensity 20%	4.347
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	0.556
	CNS0095593	Slightly white alabastrum(diploid) 2	0.684
	CNS0095594	Slightly white alabastrum(diploid) 3	0.868
	CNS0095595	Whole white alabastrum(diploid) 2	0.832
	CNS0095596	Whole white alabastrum(diploid) 3	1.364
	CNS0095597	Whole white alabastrum(diploid) 4	1.088
	CNS0095598	Silvery flower (diploied) 1	2.323
	CNS0095599	Silvery flower (diploied) 2	1.672
	CNS0095600	Silvery flower (diploied) 3	4.805
	CNS0095601	Golden flower (diploid) 1	1.657
	CNS0095602	Golden flower (diploid) 2	3.352
	CNS0095603	Golden flower (diploid) 3	4.037
	CNS0095604	Slightly white alabastrum(tetraploid) 1	1.600
	CNS0095605	Slightly white alabastrum(tetraploid) 2	1.717
	CNS0095606	Slightly white alabastrum(tetraploid) 3	6.421
	CNS0095607	Whole white alabastrum(tetraploid) 1	1.507
	CNS0095608	Whole white alabastrum(tetraploid) 2	0.892
	CNS0095609	Whole white alabastrum(tetraploid) 3	3.245
	CNS0095610	Silvery flower (tetraploid) 1	3.877
	CNS0095611	Silvery flower (tetraploid) 2	5.920
	CNS0095612	Silvery flower (tetraploid) 3	2.008
	CNS0095613	Golden flower (tetraploid) 1	0.790
	CNS0095614	Golden flower (tetraploid) 2	1.653
	CNS0095615	Golden flower (tetraploid) 3	3.172
CRA001975	CRR073297	Stem 1	5.862
	CRR073298	Stem 2	4.024
	CRR073299	Stem 3	2.897
	CRR073300	Leaf 1	3.584
	CRR073301	Leaf 2	3.169
	CRR073302	Leaf 3	1.539
	CRR073303	Juvenile bud 1	1.043
	CRR073304	Juvenile bud 2	1.612
	CRR073305	Juvenile bud 3	3.314
	CRR073306	Third green 1	0.343
	CRR073307	Third green 2	0.299
	CRR073308	Third green 3	0.219
	CRR073309	Second white 1	0.242
	CRR073310	Second white 2	2.392
	CRR073311	Second white 3	0.952
	CRR073312	Silver flowering 1	1.572
	CRR073313	Silver flowering 2	0.342
	CRR073314	Silver flowering 3	0.529
	CRR073315	Gold flowering 1	0.432
	CRR073316	Gold flowering 2	1.706
	CRR073317	Gold flowering 3	0.803
	CRR073318	Tawny withering 1	1.251
	CRR073319	Tawny withering 2	0.229
	CRR073320	Tawny withering 3	0.840