Gene detail

Detail information of Am04G003050.1 Annotation

Gene ID	Annotation
Am04G003050.1	nuclear RNA polymerase D1A

Network

Network Category	Relationship Type
Global Network	Protein-Protein interaction + Coexpression Positive and Negative
Top300 PCC	Coexpression Positive	Coexpression Negative

Location (JBrowse)

Gene	Type	Chr	Start	End	Strand
Am04G003050.1	mRNA	Chr04	7674609	7700450	+

Sequences

CDS:

>Am04G003050.1
ATGGATGATGACTTCGCTCCTGAGCACAAAGTGCCATCTGGTCTTATAACGACCATACAATTTGATGTTTCAACTGGGGAAGATATAGAGCAATTCTCTGCTTTGGAAATAAATACGGCTGGGCAGGTCACTTGTCCTGATTTGGGACTTCCAAATGCATCTTCTGAGTGCACCAAATGTGGTTCAAAAGATAGAAAGTTTTGTGAAGGTCATTTTGGAGTCATCAAGTTTCCTTTTACCATATTACATCCATACTTTATGTCAGAGATTGCAGATATCCTAAACAAGATTTGCCCTGCATGTAAATCTATTCGACGTGAATTACGGATCAAGCGTGCTAAATCACTCTTTGGAATCAGTCGGCCCAATGGTTGCATATATTGTTCTGGAAATGGTATGAGTCGTTATCCAACGATGAAATTCAGAGTTTCGTCCAATGATTTCTTCAGGAGAACTGCAATCATTGTAGAAGTAAACGATATAGGCATAGCCTCAAAGAAGAAGAAAACTTTGGCGCGAGGACTGCCTGCTAATTATTGGGATTTTATCTCTGGAGATGCTCAACAAGATGAAAATCATGTAAATAGAAGGGTTTTATCACCTGTTCAGGTTCAGAATTTGTTGAGTGGTGTTGATCCAAACTTTATTAAGAAGTTTATTCCAAGAATGGATTTGGTTGGTCTCAGTTGCTTCCCGGTGTCACCAAATTGTCATCGTGTGACAGAAGTCAATCATGGATTTTCCAGGGGATATCCGTTGTGTTTTGATAACAGGACCAGGGCTTGTAAGAAATTGGTTGATTTCAGGGGTAATCCAAATGAGTTAAGTTCTCGAGTTTTGGACTGCCTGAGGTTCTCTAAGCTAAATCCTGATAAAACACCAAGTAATATTTTTACTGAAATCCAACAAAAAAAAGTTGCAGAGAATTCTTGCAATTCTTTTGGTTTAAGATGGATGAAAGACGTGGTTCTTGGAAAACGCAATGATAGTTCATTTCGTACTGTGGTTATTGGTGATCCAGAGCTCGAGGTTAATGAAATCGGTATACCTTGTCAGATTGCAGAAAGTTTGCAGGTATCTGAGTATGTGAATAGGCAGAATAAGGAAAATTTGCTTTATTGTTGTGAGCTGCGCTTGTTAGAGAAGGGACAGATAAATGTCAACAGAAAAGGTAGTCCAATTGTTCTGTATAGAAAGGAAGATCTGAAGATAGGAGACATATTTTATAGGCCTCTTGTTGATGGGGACAAAGTGTTGATAAATAGGCCTCCTTCCATACATCAACATTCTATGATTGCTCTCACGGTTAGGGTCCTTCCTATATCTTCTGTAGTATCTATCAACCCACTCTGCTGTTCACCTCTGCGTGGGGATTTTGATGGTGATTGTCTTCATGGATATATTCCACAATCAGTTGATGCAAGAGTAGAGCTCAATGAGCTGGTTGCTTTAGATAGGCAATTGATTAATGGGCAAAGTGGTAGAAATCTGCTTTCACTTTGTCAGGATAGTTTAACTGCTGCATATTTGCTGTTGCAAGACGGAGTCCTCTTGAATGTTTACCAAATGCAGCAGCTTCAAATGCATTGCAATAAAAAATTAACACCACCTGCTATCGTAAAAACTCCTTCGAGTAATTCCCCATTTTGGAGTGGAAAGCAATTGTTCAGCATGCTCTTGCCTTCTAAATTTGACTATTCTTTTCCTTCAAATGATGTTTTTGTTAGTGACGGGGAGGTCATATCTTGTTCCGAGGCTTCTGGGTGGTTACGTGATTCTGACAACAATGTTTTCCAGAGTCTTGTAGAACATATTCAAGGGAAGACTTTAGACATTTTGTATGGTGCGCAGAAAGCTCTTTGTGAGTGGTTGTCTATGACAGGGTTTAGTGTTTCCCTCTCAGACTTGTACCTTTCTTCTGATTCCCATGCACGGAAAAACATGATGGAGGAAATCACCTTTGGCTTACAAGAAGCAGAGCAGGCATGTGATTTCAATCAATTATTGGTGGATTATTATAGTGATTTTCTTTCAGGAAGTCTTCAAGAGACTGAAAATTTTATGACTGTTGACGTGGATTATCTGCATTATGAAAGGCAATTATCTGCGGCTCTCAGTCAAGTGTCAGTTGATGCGTTTAGACAAGTTTTTCGTAACATTCAGAGTTTAGCTGATAAATATGCGTGTAAGGACAATACTTTTCTTACTATGTTTAAGGCTGGAAGCAAGGGTAATTTACTGAAATTAGTGCAGCATTCCATGTGCCTTGGACTGCAACATTCTCTGGTTCGCTTGTCATACAGAATTCCCCGTGAACTCTCATGTGCTGCTTGGAACAACCAAAAGGGGACTTATCCAATGCAGATGTTTTCTGATACTCTTGAACCCTTGCAGTCTTACATTCCACATGCTGTGGTTAAAAGCTCTTTTCTTTCAGGATTGAATCCATTTGAATGTTTTGTTCATTCAGTGACAAATCGAGACAGCTCTTTTAGTGACAATGCAGACCTTCCTGGGACGTTGACCCGTAGACTTATGTTCTTCATGCGTGATTTGTATGATGCATATGATGGAACAGTGAGAAATTTATATGGTAATCAACTTATTCAGTTTTCTTATGATGCTGATGAGGATTCATCTTGTGATAACTGTTTTCGAGAGGATACCATAGGTGCTGAACCAGTGGGAGCACTTTCTGCTTGTGCAATTTCTGAGGCTGCATACAGCGCTTTGGGTCAACCAGTTAGTATACTTGAAACGTCACCTTTACTTAATTTAAAACATGTTCTAGAGTGTGGCTCAAGGAAGAGAGGTGGTGACCAGACTGTGTCTTTATTCTTGTCTGAGAAACTTGGTAAACAGAGAAATGGGTTTGAGTATGCAGCACTAGAAGTCAAGAATTATTTAGAAAGATTGATATTTTCGGACATTGTTTCTACTGTCATGATAATGTTCACCCCACAGTCTTGCAGCCTAGAAAAATACAGTCCATGGGTTTGCCATTTTCATTTAGACGAGGAAAATATAACAAGAAGAAATTTAAAAGTGCACTCTATCATTGACTCTCTTAACCAGCGATATGACTCCTTAAGAAAAGAGTCAAAAGCCACTCTTCCCAATTTGAAAATATCAAGCAAGAAGTGTTATGTAGACAACATGACTAAGGAAGGTCGGGAAACATCTGTAGATAAGGAAAAAGTGGGTCAAGATTGCATCACTGTCACAATTGTTGAAAACCCTAAGAATTCCGTACAACTGGATGCGGTTCGCAACATGATGATACCTTTCCTTCTGGGAGCAGCTATAAAAGGGTTTCTGGAAATCAAGAAGGTTGATATTCTCTGGAAGGATCTGTCAAAAGTATCAAATTGTTATAGTGGTTCTTCTGGTGAGCTATACTTGAGGGTTACTATGTCCAGCGACAGTAACAGTGGCGCATTCTGGGGTGCACTCATAAATCATTGTCACAAGATAATGCCGGTGATTGACTGGACACGAAGTCATCCAGATAACATTCATCATTTCTGCTCAGCCTTTGGAATCGATGCAGGGAAGCAGCATTTTCTGCGTAATTTGGCATCTGCCACATCTGATACGGGCAAGCCAATCCTTCCTAAGCATCTGAATCTTGTTGCTAATAGTCTGTCAGCTAGTGGAGAGTTTGTGGGATTAAATGCCAAAGGCATGGCACGGCAAAGAAAGCACGCATCTGTTTCATCGCCCTTTGTCCAAGCATGCTTTTCTCATCCAGGTAGTTCCTTCTTAAAAGCTGCTAAATCTGGAATCGTGGATAATCTCCAGGGAAGCTTAGATGCGATGGCTTGGGGAAACTGTCTGCCCATAGGGACAAGTGGACAGTTTGATATCATATATTCGGAAAAGGTACAAGAGGTTCCTAAGCCAGTAGATGTGTATAGCTTGCTAATAACCAGTTTTGACCAGCTGAACTATGAGAATAATACCCCCAAGTCTCACACCTATTCGTTCGACAAATGCAATTCTGAGTTTAGGAACAAAAGTAATGGTTATGCCCCGAAAGAGCGTAAGCAGTGGAAAAGTGTTGTAAGAAATGTCATGACTGTAAATGATATTCAGAAGCTCACTTCTGCTTCAAGGTTTATATTGAACAAGTCTCCGATTGATCAGCTACTAAGCGAGAAGGACAAGTTAACAATTATGAAGGTTTTGCATTTTCATCCTCGCAGAGATGAGAAGTTTGGCTCTGGACCACAAGACATAAAGGTTGGATGGCATCCCCAATATAAGGACAGCCGCTGCTTCTTTATAGTACGAAAGGATGGGACTGTTGAAGATTTTTCATACCGCAAATGCATTCTTGGTGCTCTTGATATTATTGATCCAGGAAAATCAAAGATCCAGAAGAAAAAATGGTCGAAAAATGATGGCATGGAAGCTGTATCCTTCCATGTCCAATCACAAGAAGTGTCTGGCATTTGA

Protein:

>Am04G003050.1
MDDDFAPEHKVPSGLITTIQFDVSTGEDIEQFSALEINTAGQVTCPDLGLPNASSECTKCGSKDRKFCEGHFGVIKFPFTILHPYFMSEIADILNKICPACKSIRRELRIKRAKSLFGISRPNGCIYCSGNGMSRYPTMKFRVSSNDFFRRTAIIVEVNDIGIASKKKKTLARGLPANYWDFISGDAQQDENHVNRRVLSPVQVQNLLSGVDPNFIKKFIPRMDLVGLSCFPVSPNCHRVTEVNHGFSRGYPLCFDNRTRACKKLVDFRGNPNELSSRVLDCLRFSKLNPDKTPSNIFTEIQQKKVAENSCNSFGLRWMKDVVLGKRNDSSFRTVVIGDPELEVNEIGIPCQIAESLQVSEYVNRQNKENLLYCCELRLLEKGQINVNRKGSPIVLYRKEDLKIGDIFYRPLVDGDKVLINRPPSIHQHSMIALTVRVLPISSVVSINPLCCSPLRGDFDGDCLHGYIPQSVDARVELNELVALDRQLINGQSGRNLLSLCQDSLTAAYLLLQDGVLLNVYQMQQLQMHCNKKLTPPAIVKTPSSNSPFWSGKQLFSMLLPSKFDYSFPSNDVFVSDGEVISCSEASGWLRDSDNNVFQSLVEHIQGKTLDILYGAQKALCEWLSMTGFSVSLSDLYLSSDSHARKNMMEEITFGLQEAEQACDFNQLLVDYYSDFLSGSLQETENFMTVDVDYLHYERQLSAALSQVSVDAFRQVFRNIQSLADKYACKDNTFLTMFKAGSKGNLLKLVQHSMCLGLQHSLVRLSYRIPRELSCAAWNNQKGTYPMQMFSDTLEPLQSYIPHAVVKSSFLSGLNPFECFVHSVTNRDSSFSDNADLPGTLTRRLMFFMRDLYDAYDGTVRNLYGNQLIQFSYDADEDSSCDNCFREDTIGAEPVGALSACAISEAAYSALGQPVSILETSPLLNLKHVLECGSRKRGGDQTVSLFLSEKLGKQRNGFEYAALEVKNYLERLIFSDIVSTVMIMFTPQSCSLEKYSPWVCHFHLDEENITRRNLKVHSIIDSLNQRYDSLRKESKATLPNLKISSKKCYVDNMTKEGRETSVDKEKVGQDCITVTIVENPKNSVQLDAVRNMMIPFLLGAAIKGFLEIKKVDILWKDLSKVSNCYSGSSGELYLRVTMSSDSNSGAFWGALINHCHKIMPVIDWTRSHPDNIHHFCSAFGIDAGKQHFLRNLASATSDTGKPILPKHLNLVANSLSASGEFVGLNAKGMARQRKHASVSSPFVQACFSHPGSSFLKAAKSGIVDNLQGSLDAMAWGNCLPIGTSGQFDIIYSEKVQEVPKPVDVYSLLITSFDQLNYENNTPKSHTYSFDKCNSEFRNKSNGYAPKERKQWKSVVRNVMTVNDIQKLTSASRFILNKSPIDQLLSEKDKLTIMKVLHFHPRRDEKFGSGPQDIKVGWHPQYKDSRCFFIVRKDGTVEDFSYRKCILGALDIIDPGKSKIQKKKWSKNDGMEAVSFHVQSQEVSGI*

Promoter(3k):

>AM04G003050.1
TTTGGAGATTAACCCAAACACAACAAGCAATAGAGCATTGAGAAAATTTTAATATAGTTTTATATTTATTTTTTAATATAGTTTAAAATTTGGATTGACATTGAATTTTTGTTTTTACTTAGAAATGATAGTCATTATATTTAATATTTCGTAACTTAAGGAAGAAATAGTTACTAATATTATCCTCATCGAACTTTTTTTTTTTATCATGCATCATTGTGTATATATTTTAATGATCAACTTCATGAAAGTTTCAATTGTTGAATTCCAGTAATTCTCTTGTACCAATGTAGTAAGAATTGGACCGATTGGTTCAATTTGAGTCGGAGTATAGTTGAACCGGCCAGAATTGGATTGAACCGCTAATTATCCCAGGTTAAACTGTTCGAAATATGTTATTTAATTTTTTATTTATTTTTTCTCTAAAATTTAATACTTTTTTAGTTTTTATTTTTTTATAGTCATCTACTTCAACCAATGGTAAAAACATTGTCTTGTACACTATTTAAATTTAAAAAATAAATTTAAAATTTATGTTAATTTAAAATTCTGAGCCAGTTGTCCTGCCCTTTGAGGCACCTACAATGAACAATGAATTAGTCACTGCTGTCCGTGCGGTGGATACTCGGGTTTACCCAAAAAGTGCAACTTCTTCTTTCTCTTTTGTAACAAAAAAAAGGTGCAACTTCTTCCTTATTTTTCTCAGTCACATATTTGAGTTATTGAATTCAATTTAAATTTAAAATTTCTTTTTTTACAGCAATTTAAATTTAAAATTTCAATTATTCAATTAAGATAAAAATAAAAAACAATAAGAACCCAAAAACTTATTTATTGAATACAATTCTCTTTTTTAAACACTTTGCATTTTTATAGCTTGTTGGGTAGATACTATAAATTAATAACCTACTCTACTTTTTTTTTTGACAAAGATTAACTTACTCTACTATCAGCTAGTAGTTTGGTTTATTTGCTACTAGTACTATCAAGTAATTTACGAGTAATTATTTAGGTAAAATGTTTCGGCTATTAATCAACTTGCTTTTTTTACAGTTTTTTAGGGCATAGATTAAAAATTGTGAAAAAGTAGGTTGGTTAATAACCTATAAAACTTAGTTAATTGGTGTTGTAATTTGATTTTTGGCTATTTTTGTTTAAAATATTTTGGCTAAATAACATTACTAATTTATCGACCAATGTGGAAGTACATTACTGTTGATGCTGACGTGGCCTGAGCAAAAGAGAGGACGCCTCGGGGTTTGTGAGGTCAGTATCGTAAAAGTAAAGCAAAGACAAGGGTAATATGACTGACCTAGAGACCCGTACCCAAAAATAAAAAAGCTTTTCTGGCCTTTTTCTCCCGGCCTCGGTACAAGTCCTTTCCCTTCTCCTCTCCTCAACTCGGCGTTTGTCTCGTGTTTCCTTGGAAAGCGACCGGCGGCGTTTTACTTCACTTTTCATTTGTTTTCGCTGCTCACTTTCCCGTGCAAACTCGAACTCTTAACTCTTTCTCTTCTCCTATTCGTTCTTCTCTCTGCGATTTCTGGAACAGCGAAACCGAAGCTCATTCACCTCATCAGTACTGTGAACCGCGTCTCCGCATTCTTTCGTTTCATCGCTCAAGTGAGTCAAAACTGAAAACCTCTAACTCTCTCTTCTAATCTTTCTTCTATTTCTTGAAACTCATTCAATCGCTTTATTTTGAGCTGTTCTCTGTGCTGCGTTATAAAGTTTGTTGCAATCTGCGTGATCCTTTTCTGCATGTTATATGATCGTGCTTTTCCATGGTTCAGGAATGGTTTTCCTGACAATGTGCCATCACTTTTCACTCATTACTGATAATTTTTATTTTCTTTGATTTCTTTGCTAATCCATCTTCTATGCTTAACGACATTAATTAATTAATTAATTAGGAATTAGGATTATGGAGTCGGTTGTGTTTAGTATATTCGCTTCAAATTTTAATGCTGAATGACGTATTCTGTGATTCTCAGGACATTAACTTTAATGCTTTCTTTTTGCAGGTTATCAGGAAATCTTTTGGTTCCTTCTGGCACAGAGTGATACAATTAGGTTCTTCCCACAAGTGGCATATACTAGAGCGCAGCTTATCACTGCTCTCGACTTTTGTAAGTATTTTTGTCAAAAAATAAAAGAGTTTTGTAAGTATATTAGCTTATTAGGTTATATACTTTCGGTACTTTCTTAGAGTCTCCATCCGAATCTAAAAAAGTTATGCATCACAAAGTTGCTTGTAAAATACGGTTGAGTTGGAATTTTATTGTCTCTACTTACTTTAGCTACTTTTGGAAATGGTAAGACGCTGTAGAGAGATTCCCTCTTAGGGAAATTCAGGGTGTATGTCTACTTCATCATTGGTTTCTAAGTTACAAATGTCTCTTTCAGGAAATCTTTCTAACATGAATTTGGTTCGTCCTTGCTATATTATTTGATTTTTTGATACACATCCGGCATGTATTGGGTGCACAAGGATATATCCTTTTTCTTTTCAAATTATGCTATTGTAAAAGGTTTAGCTACATCTTGGTTAAGCATCCAAAGGAGCTTGTAGGAGCTAAATACAGGCCAGTCCATGCAAAAAGGGACAATTCTACTACTGATTTGTTCAGTTGAAATGAATTGCTACTTCGTCTTTATTAAAATTTGTGTCGGACTTGATGTGTTTTTTTTCCCTTCTCGCAGTAATTTGTGGAATTTTATTGATAACATAGTTAGAATGTTCTGAAAAATGCATTTATCTTTTGTTTTAAATATTTGATTTTTTATTTAAAATAATTTTCATTAAATTGTCCTCCTATACTCGTTCCAATCTGACTAAGCTACCAAACATACAAGTTCAGCTACCAAACATACAAGTTCAACTTTAGACAATTTTTACTCACTTGTTCTTTGGGCTCATTTTGTGAGCACTGTTATTAATACTTTGCAAATGAACAGGCTGCTTGAAATATTCTGCTGAGTTTAAGGTTACCAAGTTCC

Pfam domain

Pfam accession	Pfam name	Protein start	Protein end	E-value
PF00623.23	RNA_pol_Rpb1_2	325	482	2.90E-32
PF11523.11	DUF3223	1374	1445	2.50E-26
PF04983.21	RNA_pol_Rpb1_3	488	636	6.60E-19
PF05000.20	RNA_pol_Rpb1_4	698	764	1.80E-10
PF04997.15	RNA_pol_Rpb1_1	19	105	1.40E-08

Gene family

Gene family	Subfamily
Epigenetic Regulators	NRPDA1

Gene Ontology

GO term	Description	Category
GO:0046872	metal ion binding	Molecular Function
GO:0140513	nuclear protein-containing complex	Cellular Component
GO:0010495	siRNA-mediated long-distance post-transcriptional gene silencing	Biological Process
GO:0030422	siRNA processing	Biological Process
GO:0016020	membrane	Cellular Component

InterPro

InterPro term	Description
IPR006592	RNA polymerase, N-terminal
IPR000722	RNA polymerase, alpha subunit
IPR038120	RNA polymerase Rpb1, funnel domain superfamily
IPR007083	RNA polymerase Rpb1, domain 4
IPR042102	RNA polymerase Rpb1, domain 3 superfamily
IPR007066	RNA polymerase Rpb1, domain 3
IPR044893	RNA polymerase Rpb1, clamp domain superfamily
IPR045867	DNA-directed RNA polymerase, subunit beta-prime
IPR040403	DNA-directed RNA polymerase IV/V subunit 1, N-terminal

trEMBL

trEMBL term	Description
A0A1S3EHW6	_

SwissProt

SwissProt term	Description
NRPD1_ARATH	DNA-directed RNA polymerase IV subunit 1

KEGG

KO	Description	Enzyme
K16250	DNA-directed RNA polymerase IV subunit 1	[EC: 2.7.7.6]

Orthologous genes

Species	Gene ID	Annotation
Arabidopsis thaliana	AT1G63020	nuclear RNA polymerase D1A
Medicago sativa L.	MsG0580024426.01.T01	_
Oryza sativa L.	LOC_Os04g48370.1	RNA polymerase IV subunit, putative, expressed
Cucumis sativus L.	Csa017989	_
Glycyrrhiza uralensis Fisch.	Glyur000195s00012846.1	_
Codonopsis lanceolata	Cl_chr02_42580T	_
Arachis hypogaea L.	AH05G08320.1	DNA-directed RNA polymerase IV subunit 1 like

Expression pattern