Gene detail

Detail information of GWHGAAZE010150

Functional Annotation

Database	Orthologs	Annotation
Nr	ADD31154.1	RNA polymerase beta'' subunit protein (chloroplast) [Lonicera japonica]
Swissprot	tr\|Q68S16\|RPOC2_PANGI	DNA-directed RNA polymerase subunit beta'' {ECO:0000255\|HAMAP-Rule:MF_01324}
trEMBL	tr\|D3WBT7\|D3WBT7_LONJA	DNA-directed RNA polymerase subunit beta'' {ECO:0000256\|HAMAP-Rule:MF_01324}
TAIR10	ATCG00170.1	DNA-directed RNA polymerase family protein

Location And Transcript Sequence (JBrowse)

Scaffold	Type	Start	End	Strand
GWHAAZE00000002	gene	123807135	123812911	+
GWHAAZE00000002	mRNA	123807135	123812911	+
GWHAAZE00000002	exon	123807135	123808559	+
GWHAAZE00000002	exon	123808642	123808725	+
GWHAAZE00000002	exon	123808843	123809168	+
GWHAAZE00000002	exon	123809300	123811329	+
GWHAAZE00000002	exon	123812712	123812911	+
GWHAAZE00000002	CDS	123807135	123808559	+
GWHAAZE00000002	CDS	123808642	123808725	+
GWHAAZE00000002	CDS	123808843	123809168	+
GWHAAZE00000002	CDS	123809300	123811329	+
GWHAAZE00000002	CDS	123812712	123812911	+

Transcript Sequence
>GWHTAAZE010162 ATGAAATCAATCTTGGAAATCTATCATCCCACCCTTTTTACTAGCCAAGGCTTCGATACATTTCGAAATCGAGAGATCTCTACTGGCGCAGGTGCTATCCGAGAACAATTAGCCGATCTAGATTTACGAATTATTGTAGATTATTCGTTGGTAGAATGGAAAGAGTTGGGGGAAGAAGGGCTTACAGGGAATGAATGGGAAGATCGAAAAGTTGGAAGAAGAAAACATTTTTTGGCTAGACGCATGGAATTAGCTAAGCATTTTATTCGAACAAATATAGAACCAGAATGGATGGTTTTGTGTCTATTACCAGTTCTTCCTCCTGAGTTGAGACCGCTTTTTCGGACAGATAGTAGTAGGCTAGTGAGGTCGGATATTAATGAACTCTATAGACGAGTTATCTATCGGAACAATACTCTTACTGATCTATTAACAACAAGTCGATTTGCGCCGGGAGAATTAGTAATGTGTCAGGAGAAATTGGTACAAGAAGCCGTGGATTCACTTCTTGATAATGGAATAGGCGGGCAACCAACGAAGGACGGTTCTAATCAAGTTTACAAGTCGTTTTCAGATAGAATTGCAGGTAAAGAGGGAAGATTTCGTGAGACTCTGCTTGGCAAACGAGTCGATTATTCAGGGCGTTCCGTTATTGTCGTGGGCCCTTCACTTTCATTACATCGATGTGGATTGCCTCGCGAAATAGCAATAGAACTTTTCCAGACATTTGTAATTCGTGGTCTAATTAGACAGCATCTTGCTTCGAACATACGAGTTGCCAAGAGTCAAATTCGGGAAAAAGAACCGATTGTATGGGAAATACTTCAGGAAGTTATGCAGGGGCATCCGGTATTGCTGAATAGAGCGCCCACTCTGCATAGATTAGGCATACAAGCATTTCAGCCCGTTTTAGTGGAAGGGCGTGCTATTTGTTTACATCCGTTAGTTTGTAAAGGATTCAATGCAGACTTTGACGGGGATCAAATGGCTGTTCATGTGCCTTTATCTTTAGAGGCTCAAGCAGAGGCACGTTTACTTATGTTTTCTCATCTGAATCTTTTGTCTCCAGCTATTGGGAATCCCATTTCCGTACCAACCCAAGATATGCTTATTGGACTCTATGTCTTAACGAGGGGGAATCGTCGAGGTGTTTGTGTAAATAGGTATAATCCATGGAATTGCAGAAACTATCAAAATGAAAGACTTTTCGATAATAACTATAAGTATACGAAAGAAAAAGAACCCCTTTTTTCTAATTCCTATGATGCAATTGGGGCTTATCGGCAGAAACGAATCAATTTAGATAGTCCTTTGTGGCTACGGTGGCGATTAGACCAACGCGTTATTGCTACAAGAGAAGCTCCCATCGAAGTGCACTATGAATCTTTGGGTACCTATTATGAGATTTATGGACACTATCTAATAAAGCCATACAAGGGTTTTGTCAGGCCTGCTCATAGGGTCCCTAATCATATGGCACCTAATTCTATGATAGCGGTGGAAATTCAGAATATGGAGGTACTTATGGCAGAACGGGCCAATCTGGTCTTTCACAATAAAGTGATAGACGGAACTGCCATCAAACGACTTATTAGTCGATTAATAGATCATTTCGGAATGGCATATACATCACACATCCTGGATCAAGTAAAGACTCTGGGTTTTCAACAAGCTACCGCTACATCCATTTCATTAGGAATTGATGATCTTTTAACAATACCTTCTAAGAGATGGCTAGTTCAAGATGCTGAACAACAAAGTTTGATTTTGGAAAAACACCATCATTATGGGAATGTACACGCGGTAGAAAAATTACGTCAATCCATTGAGATCTGGTATGAGAGGATTAATGTCGGACCCCAAGGACAAATGATTGATTTACCCATTCAAAGCAATTTACGCGAAGGGCTCTCTTTAACAGAATATATAATTTCTTGTTACGGAGCCCGCAAGGGGGTTGTGGATACTGCTGTACGAACCTCGGATGCTGGATATCTCACGCGAAGACTTGTTGAAGTAGTTCAACACATTGTTGTACGTCGAACAGATTGTGGGACCGCCCAAGGTATTTCTGTGAGTCCTCGAAATGGGACGATGGCGGAAAGTATTTTGATCCAAACATTAATAGGTCGTGTATTAGCGGATGATATATATATGGGTCCACGATGCATTGCCGCCAGAAATCAAGATATTGGAATTGGGCTTGTCAACCGATTCATAACCTTTCGAGCACAACCAATATCTATACGAACTCCCTTTACTTGTAGGAGTACATCTTGGATCTGTCGATTATGTTATGGCCGGAGTCCTACTCATGGTGACCTGGTCGAGTTGGGAGAAGCTGTCGGTATTATTGCAGGCCAATCTATTGGAGAACCGGGTACTCAATTAACATTAAGAACTTTTCATACCGGTGGAGTATTCACGGGGGGTACTGCAGAATATGTACGAGCCCCCTCTAATGGAAAAATCAAATTCAATGAGGATTTGATTCATCCAACACGTACACGTCACGGGTATCCTGCTTTTCTATGTTCGATAGACTTGTATGTAACTATTGAAAGTGAAGATATTATACATAATGTGAATATTCCACCCAAAAGTTTTCTTTTAGTTCAAAACGAGCAATATGTAGAATCAGAACAAGTGATTGCTGAGATTCGCGCAGGAACATCCACTTTGAATTTTAAGGAGAAGGTTCGAAAACATATTTATTCTGACTCAGGGGGAGAAATGCACTGGAATACCGATGTGTATCATGCACCCGAATTTACATATGGTAATGTTCATCTCTTACCAAAAACAAGTCATTTATGGGTATTATTAGGACAGCCATGCAGATCTAGTCTAGTCTCCCTTTCGAGCCACAAGGATCAAGATCAAATGAACGCTCATTCTCTTTCTGTCAAGCGAAAATATATTTCTAACCCTTCCGTAACTAATGATCAAGCGAGACACAAATTCTTTAGTTCGGATTTTTATGGTCAAAAAGAAGATAGGATTCCTGATTATTCAGAACTTACTCGAATCATATGTATTGGTCGTTGTAATCTCATATATCCGGCCATTCTCCACGAGAATTCTGATTTATTGGCAAAAAGGCGAAGAAATAGATTCATCATTCCACTCCAATCGATTCAAGAAGGCGAGAACGAACTAATGCTCTCTTCAGGTATCACAATTGAAATGCCCATAAATGGTATTTTCCGTAGAAATAGTATTCTTGCTTATTTCGACGATCCTCAATACAGAAGAAAGGGTTCGGGAATTACTAAATATGGGATTCTAGAGGTGGATTCAATCCTCAAAAAAGAGGATTTGGATGAGTATCGAGAAGTCGAGGAATTTAGTCCAAAAAATCAAATGAAAGTAGATCGATTCTTTTTCATTCCCGAGGAAGTGCATATCTTATCCGAATCTTCTTCCCTAATGGTACAGAACAATAGTATTATTGGGGTAGATACACAAATGACTTTAACTACAAGAAGCCGAGCAGCCGGGTTGGTACGAGTGGAGAGAAAAAAAAACAGAATTGAACTTAAAATCTTTTCTGGAGATATCCATTTTCCTGGAGAGACAGATAAGATATCCCGACATAGTGGCGTCTTGATACCACAAGGTATGGGAAAAAAAAATTCCAAGAAATCCATGAAAGATTGGATCTATGTCCAACGGATCACACCTACCCCCAAGAAGTATTTTGTTTTGGTTCGACCTGTAGTCACATATGAAATAACGGACGGTATAAATTTAGCAACACTTTTCCCCCCAGATCTGTTGCAGGAAAGGGATAATGTGCAACTTCGAATTGTCAATTATATCCTTTATGGAAATGGCAAATCAATTCGGGGAATTTCTGACACAACGAGTTTTCAAGAAACTGCTCGAGTTTTAGCAAAAGCAGCTCTCCGGGGTCGTATCGATTGGTTGAAAGGCTTGAAAGCAAACGTTGTTCTGGGCGGAATGATACCAGTTGGTACGGGATTCAAAGGCTTAGTGCATCCTTCAAGGAAACATAACAACATTCCTTGGAAACCAAAAGAAGAATCTATTCGAGGGAAATGA

Network for GWHGAAZE010150

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	86	205	7.70E-29
PF00623.21	RNA_pol_Rpb1_2	207	258	1.70E-07
PF00623.21	RNA_pol_Rpb1_2	257	347	1.10E-26
PF04983.19	RNA_pol_Rpb1_3	352	570	6.20E-15
PF04998.18	RNA_pol_Rpb1_5	636	825	5.30E-40

Protein Sequence

>GWHPAAZE010156
MKSILEIYHPTLFTSQGFDTFRNREISTGAGAIREQLADLDLRIIVDYSLVEWKELGEEGLTGNEWEDRKVGRRKHFLARRMELAKHFIRTNIEPEWMVLCLLPVLPPELRPLFRTDSSRLVRSDINELYRRVIYRNNTLTDLLTTSRFAPGELVMCQEKLVQEAVDSLLDNGIGGQPTKDGSNQVYKSFSDRIAGKEGRFRETLLGKRVDYSGRSVIVVGPSLSLHRCGLPREIAIELFQTFVIRGLIRQHLASNIRVAKSQIREKEPIVWEILQEVMQGHPVLLNRAPTLHRLGIQAFQPVLVEGRAICLHPLVCKGFNADFDGDQMAVHVPLSLEAQAEARLLMFSHLNLLSPAIGNPISVPTQDMLIGLYVLTRGNRRGVCVNRYNPWNCRNYQNERLFDNNYKYTKEKEPLFSNSYDAIGAYRQKRINLDSPLWLRWRLDQRVIATREAPIEVHYESLGTYYEIYGHYLIKPYKGFVRPAHRVPNHMAPNSMIAVEIQNMEVLMAERANLVFHNKVIDGTAIKRLISRLIDHFGMAYTSHILDQVKTLGFQQATATSISLGIDDLLTIPSKRWLVQDAEQQSLILEKHHHYGNVHAVEKLRQSIEIWYERINVGPQGQMIDLPIQSNLREGLSLTEYIISCYGARKGVVDTAVRTSDAGYLTRRLVEVVQHIVVRRTDCGTAQGISVSPRNGTMAESILIQTLIGRVLADDIYMGPRCIAARNQDIGIGLVNRFITFRAQPISIRTPFTCRSTSWICRLCYGRSPTHGDLVELGEAVGIIAGQSIGEPGTQLTLRTFHTGGVFTGGTAEYVRAPSNGKIKFNEDLIHPTRTRHGYPAFLCSIDLYVTIESEDIIHNVNIPPKSFLLVQNEQYVESEQVIAEIRAGTSTLNFKEKVRKHIYSDSGGEMHWNTDVYHAPEFTYGNVHLLPKTSHLWVLLGQPCRSSLVSLSSHKDQDQMNAHSLSVKRKYISNPSVTNDQARHKFFSSDFYGQKEDRIPDYSELTRIICIGRCNLIYPAILHENSDLLAKRRRNRFIIPLQSIQEGENELMLSSGITIEMPINGIFRRNSILAYFDDPQYRRKGSGITKYGILEVDSILKKEDLDEYREVEEFSPKNQMKVDRFFFIPEEVHILSESSSLMVQNNSIIGVDTQMTLTTRSRAAGLVRVERKKNRIELKIFSGDIHFPGETDKISRHSGVLIPQGMGKKNSKKSMKDWIYVQRITPTPKKYFVLVRPVVTYEITDGINLATLFPPDLLQERDNVQLRIVNYILYGNGKSIRGISDTTSFQETARVLAKAALRGRIDWLKGLKANVVLGGMIPVGTGFKGLVHPSRKHNNIPWKPKEESIRGK

Gene family

Gene family	subfamily
--	--

KEGG pathway

KO	Enzyme	pathway	mapID
K03046	rpoC	RNA polymerase	map03020

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	0.041
	SRR3591706	second leaf	0.118
	SRR3591707	mature leaf	0.143
	SRR3591708	Shoot apex	0.239
	SRR3591709	Stem	0.072
	SRR3591710	White floral bud	0.048
	SRR3591711	White flower	0.069
	SRR3591712	Green floral bud	0.130
	SRR3591713	Yellow flower	0.133
SRP173429	SRR8316895	Juvenile bud stage	1.207
	SRR8316896	Juvenile bud stage	0.546
	SRR8316897	Juvenile bud stage	1.892
	SRR8316894	Third green stage	2.483
	SRR8316900	Third green stage	0.636
	SRR8316901	Third green stage	0.394
	SRR8316898	Complete white stage	0.447
	SRR8316899	Complete white stage	0.130
	SRR8316903	Complete white stage	0.696
	SRR8316902	Silver flowering stage	1.083
	SRR8316904	Silver flowering stage	0.705
	SRR8316905	Silver flowering stage	0.883
	SRR8316906	Gold flowering stage	0.091
	SRR8316907	Gold flowering stage	0.099
	SRR8316908	Gold flowering stage	0.068
SRP132670	SRR6706286	Control	0.107
	SRR6706287	Light intensity 50%	0.113
	SRR6706288	Light intensity 20%	0.076
CNP0000432	CNS0095592	Slightly white alabastrum(diploid) 1	0.741
	CNS0095593	Slightly white alabastrum(diploid) 2	0.495
	CNS0095594	Slightly white alabastrum(diploid) 3	0.515
	CNS0095595	Whole white alabastrum(diploid) 2	1.101
	CNS0095596	Whole white alabastrum(diploid) 3	0.978
	CNS0095597	Whole white alabastrum(diploid) 4	1.038
	CNS0095598	Silvery flower (diploied) 1	0.366
	CNS0095599	Silvery flower (diploied) 2	0.584
	CNS0095600	Silvery flower (diploied) 3	0.540
	CNS0095601	Golden flower (diploid) 1	0.609
	CNS0095602	Golden flower (diploid) 2	0.430
	CNS0095603	Golden flower (diploid) 3	0.342
	CNS0095604	Slightly white alabastrum(tetraploid) 1	0.427
	CNS0095605	Slightly white alabastrum(tetraploid) 2	0.593
	CNS0095606	Slightly white alabastrum(tetraploid) 3	0.214
	CNS0095607	Whole white alabastrum(tetraploid) 1	0.489
	CNS0095608	Whole white alabastrum(tetraploid) 2	0.771
	CNS0095609	Whole white alabastrum(tetraploid) 3	0.435
	CNS0095610	Silvery flower (tetraploid) 1	0.304
	CNS0095611	Silvery flower (tetraploid) 2	0.437
	CNS0095612	Silvery flower (tetraploid) 3	0.222
	CNS0095613	Golden flower (tetraploid) 1	0.582
	CNS0095614	Golden flower (tetraploid) 2	0.321
	CNS0095615	Golden flower (tetraploid) 3	0.173
CRA001975	CRR073297	Stem 1	0.584
	CRR073298	Stem 2	0.649
	CRR073299	Stem 3	0.232
	CRR073300	Leaf 1	0.465
	CRR073301	Leaf 2	0.411
	CRR073302	Leaf 3	0.383
	CRR073303	Juvenile bud 1	0.891
	CRR073304	Juvenile bud 2	0.499
	CRR073305	Juvenile bud 3	0.944
	CRR073306	Third green 1	0.707
	CRR073307	Third green 2	0.142
	CRR073308	Third green 3	0.497
	CRR073309	Second white 1	0.283
	CRR073310	Second white 2	1.500
	CRR073311	Second white 3	2.894
	CRR073312	Silver flowering 1	2.324
	CRR073313	Silver flowering 2	0.409
	CRR073314	Silver flowering 3	0.995
	CRR073315	Gold flowering 1	0.780
	CRR073316	Gold flowering 2	1.307
	CRR073317	Gold flowering 3	0.902
	CRR073318	Tawny withering 1	0.379
	CRR073319	Tawny withering 2	0.410
	CRR073320	Tawny withering 3	0.197