result

Gene information

Detail information of g537894

Location

Gene	Chr	Start	End	Strand
g537894	Scaffold_92554:HRSCAF_475640	58549	64016	-

Sequences

CDS

>g537894.t1
ATGGAGTTTGCACGTTCAGTTCTTAACATGCATGATGCAAACATCATTGAATTTGACTTTGAAACTACCAGTCCTTGTGTCATTTTCATGCCAGAGGGATCCAAAACTCATATGGGAGGAATAATGCAACTTGGATCGAGGAGAACTTACTTTCAGACTGCAAACTGCAAATCGGCAAAGCTATATGGAAATGTTGATTATGTAAATCCTGATTTGATAATGAAATTTGAAGATGTTGGTCTTAAGTTTGATGGTAAAGATGAATCTAGGAAAAGAATGGAGATAATTGAATTGCCCAATCATCATCTCTACTATGTTAGTGCTCAGTTTCATCCAGAGTTCAACCATAATACCTTGAGGATTATTTTGCCGATGATATCGGTGTCTTATCGCCCGGTCAGATGCAAGTTGATGTATTCGCTAACCGCCCTCAAAAGCTTACTTCTTCCGAGCTCTTGGCCCCTCGCCGAATTGCAAACTTTGGTTCGAACTCTCTTTCGGGAGTTCAACATTGATGGGGAGTTTACAAAGGTTGAAATGAAGTCGAAATCTTTGACAATAATACTGAACGACATAATGAGAATGATGGCTACAAAGATATTTCCTACCTTTCTTAGGATGGTTGAAATTAAATGGATGGAAGATGAAGACGAACAAAAGAAGAAAACCATTATGACAACTATGCTTTCGCTTCATAAAACAGACCCTAAGTACTACACAGATGAAATCATCAAAGGGTTCACCATTACTATGCTGGCAGCAGGAACAGACACGTTAACTGAAGATACAAAATTTAAGCAGGCTATGAAAATTAGAAACTCAAAGAATAGATTGAAAAGAATTTATGATGCATGTAAAAGCAAGAAGAAATGTGCTGGAGGTGATGATATTGATGTGGATGGTGAACAAGATACAGATGAACCAGTAAAGAAGAGTCGTGGTGGCTGTAGTGCTCAACAACCATACATCACAATTGATGGCATGAAAATGGTTGCTGAATATAAAGCTTCAAAGAAGAAATCAGATGATCAGGAACAGCTTCCAGAACCTGTTGAAAGGAAACAACAACTTTCTGCAGAAAGGCTTCTCAGTGCTCTTAAAAAGATAAGCAATGAAGATTGTTTGTTACTGGTTCTACCTATTCCACCTCCTCCTGTTAGACCTTCTGTTATGATGGACACATCGGCTAGGAGTGAGGACAACTTGACTCATCAGCTAGCAATGATAATAAGGCACAATGAGAATTTGCGACGTCAAGAGAGGAATGGAGCTCCTGCTCACATCATCATGGAGTTTGCACAATTATTGCAGTTCCACATAGCAACATACTTCGACAATGAGCTTCCTGGACGACCTATCAAGTCTATATGCAGTAGGCTAAAAGCAAAACAAGGTCGTATTTATGGAAACTTGATAGGAAAGCTTGTTGAATTTTCAGCACGAACAATCATCACCCATGATCCAACTATAAATATCGATCAACTTGGTGTGCCCTGGAGTATTGCATTGAATTTGACATACTCGGAAACTGTCACTCCATATAATATTGAGAGACTAAAAGAATTAGTAGAGTATGGTCCTCATCCTCCGCCCGGGAAGACTGGTGCAAAATACATCATTAGATGGTCAAAGGCTTGA

Protein

Gene

>g537894.t1
ATGGAGTTTGCACGTTCAGTTCTTAACATGCATGATGCAAACATCATTGAATTTGACTTTGAAACTACCAGTCCTTGTGTCATTTTCATGCCAGAGGTATATAATTTATACCGTTTCTTTTAGTTGTTAAGCATTTTAAATGCTAAATTGCTGCCAAACCTTGTTTAGGCTTTATAACAACTAATTAAATTATCTCAAATCCTAGCACTTTCCACGCTCTCCGTTTTCAAATTTAAATTGCATAAATATCTCTCGAATATGAAGGTTAATATTTCCTTATTCATGTAGTTTAAAAATATAACAAGTTTTTTATCGGGTAGGGTGTGTACTTTTGCTTTGAAATATAACTATTATATATATATAATCAGGGATCCAAAACTCATATGGGAGGAATAATGCAACTTGGATCGAGGAGAACTTACTTTCAGACTGCAAACTGCAAATCGGCAAAGCTGTATTTATTTTTATACCCTTTTTATTACTCATCATTCGCTAGCTTGTTGATGTGTAATGTTTCTGTTTCAATTTTTTTAACTATGATGTTTTTTGTTGTTGTAGATATGGAAATGTTGATTATGTGGATGAAAGACACCGCCATAGATATAATATTTGTCTATAATTTTATCTCCCATTTTTTAATATAAAGATGGTCATTTACTAAAGTCGGAGCCAGATTGAACTGAGCATTAGTAGTCTGTTAGGTGAAATCAGAAATTAATCTTTGCCATTAGATTTCTTGGATTGCAAAAGTTAGTGAAATGTAACATTCCAACGTTCCTTCAGAAATGTCAATCCATGCTAATTTCCAAAGTGAATTATTGCTTCAGTTGCCATGTGTGTCAGCATTGTGTTTCTAGAAAATAAAGGATAACTAGATGGGTTGAAGCTGGATTTTACAAATGAGTTATGTAAATTGATACATGTACTTCTAATTTTGGCAGGTAAATCCTGATTTGATAATGAAATTTGAAGATGTTGGTCTTAAGTTTGATGGTAAAGATGAATCTAGGAAAAGAATGGAGGTATGTCTTGTTATTTACTTAGTTTTACATGCACACGATATTCATGAGCTTATTTGGATTTTGACCATGAAATATATTGGTATTGTAGATAATTGAATTGCCCAATCATCATCTCTACTATGTTAGTGCTCAGTTTCATCCAGAGTTCAAGTTGCAGCCTGGAAAACCTTCTGCTCTTTTTTTTTGGCAAGTAACATATTTGAAAATTCTGTCCTCGATTAAGCTGTTTATATGTTCATGTTAGTTCTTTAAACATAATTGTTGGTTAAGTGCCTTTTTTAAGCTTATTTTGTATTTAGAACCCATGGAATAAATTTTGGAATAAATTTATCCGGTGACAAAGTGAATTTGTTTGGCGACACAGTGAATTACTAAAGGTTGCCTAATTAGATTTTGTTTCATATTAGGCCATTTCTCAAATGATTGAGATAAAGGACACTGCTTTCTTGCTATCTAAATGGTTTTTTCATTCACAGGATCAGGGTGATTGAAATAACGCTGGAGCCATAATACCTTGAGGTACATAATATAATGCTACCACCTCTACTAATAAAGGAAAAACCTGACGCTGGTGATTATTTTACTAGATTCCTAAAATGTCCATGCCAATATTTTGCAAGAAATTAAATAACCAAATAAATTAGGTTATTTTAATAGTATGTTCGGTTTTAGGTGTAACTTTAATTCATTATATTTGTTTAACCAATATTTATTTTCTTCATTACTTTGCTTACTTTGCTATTAAAGGCATGCTTAAGTGCCGCTTAAGCAAAAATCACTACTTTTATGCTTTGTTTTCCAAATTCTATATTAAAAAGTGAAATACCACTTTTTTTGTGGTGTAGAAGGAACACTTGAGGTACTTATTAAGCATAAGTTTTTTTTTTTGTTGCATTTCAATCTAGTATAAAAATAGGGACATGACTGTATGCAAAAAAGTTTAAAATTTAAATTATAGTAAAGAAGACAACTTGGAAATGCTTTGAGTTTGTAGATTGAGAAAAATAACGATGTACACCATAAACAGTGATTTTTTTGGGGCCATAGAAACAATCTGCAGCATATATAATATTCAAACACGTACATCTACACCCTCGGTATAAAAAGGGCAAAGTTCAGTGCATAAAGGTATTTGTTGTAAGAATCTGAAAGATGTTATTGTTGGGCCTTCCTAGAAATAAATAACATTTCAAGATGGGTCGCATGAACTTGAACCAGCACATTGATTTTCTTTACTATGAGTTGTGACACCAAACATGCTCCGTAAAACACACTCATGAGTGTAGTGATTAAAATTATTTAAGCTAATTATACTATCATTGGAACGCTAAACAAAACATGTTGATATGATGTTAACAATATTTAAACAATTTAATCGTTCATGTTGTAGTATTTGAGAGGCTTTAGAGGTAATTATTTATTTTTCCCCTATTATTTATATCATTTTTGAACTTTTGTCTTGCATGCAAAAATTAATTCAGGATTATTTTGCCGATGATATCGGTGTCTTATCGCCCGGTCAGATGCAAGTTGATGTATTCGCTAACCGCCCTCAGTTTCCTTCACTCAAGGAGTTTTCATACAATTTCACTATTTTTGGGAACAAGCAATTATGGGGATCACTGGCGCAATATGAGAAAGCTTACTTCTTCCGAGCTCTTGGCCCCTCGCCGAATTGCAAACTTTGGTTCGAACTCTCTTTCGGGAGTTCAACATTGATGGGTAAGTCAAATTTTAACAACATAGTAAGTATCGTCTATTGTTATATGTAGAGATGTGATGGATTGTTTATTGATGAATTTAATTCAGGGAGTTTACAAAGGTTGAAATGAAGTCGAAATCTTTGACAATAATACTGAACGACATAATGAGAATGATGGCTACAAAGATGTTCTCGGACAAAGAATAGGTAAGTTCTGAAATAAATGAAGAATTAGTGTTCCGTGATTAAGTGGAGGATGTGTTTTCAATACCGGGGGCAAAAAAAACATTGCAGATTTCCTACCTTTCTTAGGATGGTTGAAATTAAATGGATGGAAGATGAAGGTAGCATCAATAGCCAAGTATAGAAATGAGTTTTTCCAGAAACTGCTAGATAATATAAGACATAGCAGCACAGACGAACAAAAGAAGAAAACCATTATGACAACTATGCTTTCGCTTCATAAAACAGACCCTAAGTACTACACAGATGAAATCATCAAAGGGTTCACCATTGTAAGTTTATACTAACTTTACTGATGATCAGTTCTTTGTGGTATATATAACAGAGATATAGACCAACCGTTGTTAATAATGAATTGCAGACTATGCTGGCAGCAGGAACAGACACGTCATCAAACACGATCGAATGAGGTCTACCGTTGCTTTTGAAAAAACCAAAGAAACTACAAGCAGATATCGATAACAACTTGAGCTTGATAACAACTACACCCAGTGTTGTTTACCAGGTTAACTGTGCAAATAGAGAAACTGTAATTCTTCTTCTCAACTGCATATGTTATCTTCAAGTTACCACAATTATACAGCATACTGCTCTTTTTCATACCATATCATGATAGTTAACCAAAACAAATTGAGATCATCTTCCACAATGGCATGTCTATCATATCCTCTGCAATAATGTTATCTTTCCTCATTGTAGATCAATGAGCCCCTAAACATGCCTTTTCAAGAAGTACTTCATACTAAACTATGAAAATTCATTCTTATAGGGATATCAATCCACTTACCTAGCATCTAATCATGGCCGTTTGGAGGTGAGGTAAATTTGAGTAAAAAATAATTTTGACAACCAAATCAGTTTATCTTTGTATGGTACCCAATATTTATGGTACCTAATATTCTAGTTAACTACAATTCAACTGACATTCTGAATCTACTAATAGTATACTACAACTAAATGTTAACATAAAAAAAATCATACTGCAATTCAGAAAAAAATGCTGCAAAACAAGACATAATAACAACTTATAATCTTTGTGCTTTAATTAAGTGCAATTCAAAAATCAAAATAAAAAGGTGATGTAAAGTATTATTGCCTGAATCCAGAGAGAGAGAGAGATTAGTCTATAAATTTCTCAAAGAAAAAACAACCCAAATCACTCATCTTTATCCTTTATCCTTCTAAACTGGTTTAATTTTTTGAACTTGTAATTTCTTTATATTTCAGGAAGATACAAAATTTAAGCAGGCTATGAAAATTAGAAACTCAAAGAATAGATTGAAAAGAATTTATGATGCATGTAAAAGCAAGAAGAAATGTGCTGGAGGTGATGATATTGATGTGGATGGTGAACAAGATACAGATGAACCAGTAAAGAAGAGTCGTGGTGGCTGTAGTGCTCAACAACCATACATCACAATTGATGGCATGAAAATGGTTGCTGAATATAAAGCTTCAAAGAAGAAATCAGATGATCAGGAACAGCTTCCAGAACCTGTTGAAAGGAAACAACAACTTTCTGCAGAAAGGGTAAAATTGCGACAAATAATTATGATAGCGGTTTCTCTTCCATTATTGATTGATCTACCATTTTTCTTTAAACTTTTCAGCTTCTCAGTGCTCTTAAAAAGATAAGCAATGAAGATTGTTTGTTACTGGGTTTGAATCCAAAATATGCCCGTCCTGATTGGATGATATTATAAGTTCTACCTATTCCACCTCCTCCTGTTAGACCTTCTGTTATGATGGACACATCGGCTAGGAGTGAGGTACTTAGTATTAGTTGATCATAATGTATTATTTTGGCCACTGTAATTTGGAGTTTATTGCCCAATTCATGTTTTTTTATTATATATTTTCCATGTTCAACAGGACAACTTGACTCATCAGCTAGCAATGATAATAAGGCACAATGAGAATTTGCGACGTCAAGAGAGGAATGGAGCTCCTGCTCACATCATCATGGAGTTTGCACAATTATTGCAGTTCCACATAGCAACATACTTCGACAATGAGCTTCCTGGTTAGCTAAGGGTATGCATGGTCTTGCACATTCTGTAGAAAATAGTTCATTTTTTCTGCCTTATTATCTTAGCTACATAATTGTTTAGGCCACCCAAAGATTAGGACGACCTATCAAGTCTATATGCAGTAGGCTAAAAGCAAAACAAGGTCGTATTTATGGAAACTTGATAGGAAAGCTTGTTGAATTTTCAGCACGAACAATCATCACCCATGATCCAACTATAAATATCGATCAACTTGGTGTGCCCTGGAGTATTGCATTGAATTTGACATACTCGGAAACTGTCACTCCATATAATATTGAGAGGTGCCTTTTATGTTATTTTTGAATTTGCAGGCATTAATTTTTTACTTTATCTTAATTCTTATTTTTGTACATACTAATTCTCAGACTAAAAGAATTAGTAGAGTATGGTCCTCATCCTCCGCCCGGGAAGACTGGTGCAAAATACATCATTAGATGGTCAAAGGCTTGA

Functional annotation

Database	accession number	e-value	annotation
nr	ACD63081.1	1.2e-136	RNA polymerase II largest subunit, partial
Swissprot	P18616.3	4.0e-124	DNA-directed RNA polymerase II subunit 1
trEMBL	B7SNW5	8.9e-137	DNA-directed RNA polymerase subunit (Fragment)

Best hit in Arabidopsis

TAIR id	% identity	e-value	bit score	gene aliases	Short description
AT4G35800.1	71.01	8e-123	437	NRPB1;RNA_POL_II_LS;RNA_POL_II_LSRNA_POL_II_LS;RPB1	RNA polymerase II large subunit

>>>Show top 3 blast result

Query id	Subject id	alignment length	mis matches	gap openings	query start	query end	subject start	subject end	% identity	e-value	bit score
g537894	AT4G35800.1	307	61	3	261	541	117	421	71.01	8e-123	437
g537894	AT3G12670.1	124	35	2	1	114	405	527	62.90	1e-41	168
g537894	AT4G20320.2	124	41	2	1	114	406	528	58.06	4e-37	152

Ortholog group

Species	Genes
-	-

Pfam domain

Pfam ID	Pfam name	type	alignment_start	alignment_end	bit_score	Evalue
PF00117.25	GATase	Domain	16	118	38.0	1.3e-09
PF04997.9	RNA_pol_Rpb1_1	Domain	262	471	141.3	3.8e-41
PF00623.17	RNA_pol_Rpb1_2	Domain	473	533	59.3	4.7e-16

Gene Ontology

Accession	Ontology	Name
GO:0005622	C	intracellular
GO:0005575	C	cellular_component
GO:0000428	C	DNA-directed RNA polymerase complex
GO:0008152	P	metabolic process
GO:0003674	F	molecular_function
GO:0003676	F	nucleic acid binding
GO:0003677	F	DNA binding
GO:0003824	F	catalytic activity
GO:0003899	F	DNA-directed RNA polymerase activity
GO:0005773	C	vacuole
GO:0005488	F	binding
GO:0005623	C	cell
GO:0005634	C	nucleus
GO:0005737	C	cytoplasm
GO:0005654	C	nucleoplasm
GO:0005665	C	DNA-directed RNA polymerase II, core complex
GO:0043231	C	intracellular membrane-bounded organelle
GO:0005911	C	cell-cell junction
GO:0006139	P	nucleobase-containing compound metabolic process
GO:0006725	P	cellular aromatic compound metabolic process
GO:0006807	P	nitrogen compound metabolic process
GO:0008150	P	biological_process
GO:0009058	P	biosynthetic process
GO:0009059	P	macromolecule biosynthetic process
GO:0009506	C	plasmodesma
GO:0009507	C	chloroplast
GO:0009536	C	plastid
GO:0009987	P	cellular process
GO:0016070	P	RNA metabolic process
GO:0016591	C	DNA-directed RNA polymerase II, holoenzyme
GO:0016740	F	transferase activity
GO:0016772	F	transferase activity, transferring phosphorus-containing groups
GO:0016779	F	nucleotidyltransferase activity
GO:0018130	P	heterocycle biosynthetic process
GO:0019438	P	aromatic compound biosynthetic process
GO:0030054	C	cell junction
GO:0030880	C	RNA polymerase complex
GO:0031974	C	membrane-enclosed lumen
GO:0031981	C	nuclear lumen
GO:0032774	P	RNA biosynthetic process
GO:0032991	C	macromolecular complex
GO:0034062	F	RNA polymerase activity
GO:0034641	P	cellular nitrogen compound metabolic process
GO:0034654	P	nucleobase-containing compound biosynthetic process
GO:0043170	P	macromolecule metabolic process
GO:0043226	C	organelle
GO:0043227	C	membrane-bounded organelle
GO:0043229	C	intracellular organelle
GO:0043233	C	organelle lumen
GO:0044237	P	cellular metabolic process
GO:0044238	P	primary metabolic process
GO:0044249	P	cellular biosynthetic process
GO:0044271	P	cellular nitrogen compound biosynthetic process
GO:0044422	C	organelle part
GO:0044424	C	intracellular part
GO:0044428	C	nuclear part
GO:0044444	C	cytoplasmic part
GO:0044446	C	intracellular organelle part
GO:0044451	C	nucleoplasm part
GO:0044464	C	cell part
GO:0046483	P	heterocycle metabolic process
GO:0055029	C	nuclear DNA-directed RNA polymerase complex
GO:0055044	C	symplast
GO:0061695	C	transferase complex, transferring phosphorus-containing groups
GO:0070013	C	intracellular organelle lumen
GO:0071704	P	organic substance metabolic process
GO:0090304	P	nucleic acid metabolic process
GO:0097159	F	organic cyclic compound binding
GO:1901360	P	organic cyclic compound metabolic process
GO:1901362	P	organic cyclic compound biosynthetic process
GO:1901363	F	heterocyclic compound binding
GO:1901576	P	organic substance biosynthetic process
GO:1902494	C	catalytic complex
GO:1990234	C	transferase complex
GO:0097747
GO:0140098

KEGG pathway

KO	Name	Enzyme ID	Pathway	Pathway ID
K03006	RPB1, POLR2A; DNA-directed RNA polymerase II subunit RPB1	EC:2.7.7.6	RNA polymerase	ko03020

Expression pattern in different tissues

Expression pattern in BioProjects

Co-expression network