Gene detail

Detailed information of XP_032240861.2 in Nematostella vectensis

Genomic Location: NC_064041.1:11156251...11168016
NR annotation: XP_032240861.2, aromatic-L-amino-acid decarboxylase [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032384970.2

GTTCTGACTCCAAATTTTCTAATTAGGGATCACATGGTCTTTTAGTTAATCATTAACCAGCCAAATATACCTGTGGTATCAACCCGTTATTGACACGGCACGGCAGGGATTTGAATCAGTTTTGGTAATATTGTAGCCCTGTGCGGGTGCTTTGAGATATGAATTCCGAGGAGTTTCGCAAGCATGGAAAAGCTATGATTGATTTCATAGCTGATTTTCTCGAGACAATTGAGAAAAGACGTGTTGTCCCAGACGTCAAACCGGGATTTTTACTTCATCAACTTCCGAACGAAGCGCCTAGCCAAAGCGAGAATTTCGATGCTATTTTTGAGGATTTTGAGAAGAAAGTTCTCCCAGGGGTTACTTTGTGGGGAAGTCCACATTTCCATGCTTTTTTCCCTTCAAGTATATCATATCCTGGAATTCTCGGAGAGCTCATGTCTGCCAGTCTTGCTGGAGTTGGATTTAACTGGCTGTGTAATCCATCATCAACAGAACTGGAGATTATGGTTCTTGATTGGCTAGGTAAAATGATTGATTTACCAAAGGAATTTTTGGCTATGACTCCTGCAAGGGAAGATAGCAGAAGAGGAGGTGGAGTTATACAGggcACAGCAAGCGAGGCAACTCTAGTTGCTGTTCTTGCAGCCCGTACAGCTACTCTCACACAGCTTCAGAATGAACACCCTGGAGTGGCGGAAGGTGTCCTCATGAGTAAAATGGTGGCTTATACTTCAAAGCATGCTCACTCGTCTGTTGAGAAAGCTGCACGCATTGCAGGGGTTAAGCTGAGGTCAGTTGAGACAGATGATGCTGGATCTCTCAGAGGGGAGCAGTTTCTAGAATGCTTGAAGGCTGACAAAGAGGCTGGCCTTATCCCATTTTTTCTTTGTGCGACACTTGGTACAACCACACTGTGCTCATATGACAACTTGAAAGAGCTTGGGCCATTAGCTGTCAAGGAAAAGATGTGGCTTCATGTAGACGCTGCGTACGCTGGCCCTGCCTTCACATGTCCTGAGATGAGGGCGCCCATGCAAGGAATTGAGCTTGCAGATTCTTTCAACTGTAATGCTCacaagatgatgatgacaaacTTTGATTGCGCCCCCATGTGGGTGAAAGACCGTGATGCTTTAATGAGAGCCTTCACTCTGGAAAGGATTTACTACCCTGATGATGACACAGGTGTTGTTACCGAGTTTAGGAATTGGCAGATACCACTTGGAAGGAGATTTCGCTCTTTGAAGCTCTGGTTCGTGATTCGCTCTTATGGTATTGAGGGAATTCAAAAAGAGATGAGAGAGCATGTGAGGCTCGCTAAAGTATTTGAAGAGATGGTCAAGCAAGATGATGATTTCGAGCTTGTTGTTGACACAAACTTTGGTCTCGTGTGTTTTAGATACAAGGGTTCAGAAGAGGATAACAAAAACCTTGTGGATATACTGAATGCAGAGGGTAAAATTCTTGTGACTCCCGGTATTCACAAGGGGCGCAGGTACACAAGATTCTGCAGCATTATTGGGACTAAAGACTGTCACCTCCACCAAGCTTGGGAAGCAATCACTGAGGCTAAGGCAATCATGTTAGGGAGGAAGAAAAGTGAAGCCACATAACACAGGTAGTGTTTATGTTAAAGAGAATTTTTGGGTGTTACTTGGGTGATTAGATGGGTGTATTGATAACAAGGCAAGGTGAAGTAGTTAAAGAGAAGTTAGACCAATAATTATCATTGTTAGGGTAAGGGATTTCTTTATTTGGGTGAGAGATGATTAGGGGTTCAATTTAGTATGAGAATTAGCTGAAGAAGTGTTCGATGTTAGGGGAATGCATAATTACCATTGTTAGGGTGGGTGATTTCTAAGAGTTGTCATTGGTAGGGCGGGGAATTTCtaggaatttgtttttataaagaGTGGTATTTCTAAGAATGGTCACTGGTAGAGTGGGGAATTTCTGGGAATTATAATTGGCAGGGTGGGAGAATTTCTATACTCGGGAGAAAGGTTATTAGAGGGGTTGATTTATTATGAGAATTAGCTGAGAATATGTTAATATCAGGTGAAAGAGGCTCAAAAATTATCATTGGTAGGGTGTGTTTCTTGATTGGGGGATTGTGATACCTCATAATAAAGATAGTGTTTATTAAAGATGATTAAAGTTTCAgtaattgtta

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P27718	Aromatic-L-amino-acid decarboxylase OS=Bos taurus OX=9913 GN=DDC PE=2 SV=2
P20711	Aromatic-L-amino-acid decarboxylase OS=Homo sapiens OX=9606 GN=DDC PE=1 SV=2
O88533	Aromatic-L-amino-acid decarboxylase OS=Mus musculus OX=10090 GN=Ddc PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005722 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00282 all species →	Pyridoxal_deC	Pyridoxal-dependent decarboxylase conserved domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002129 all species →	Family	Pyridoxal phosphate-dependent decarboxylase	Interproscan
IPR021115 all species →	Binding_site	Pyridoxal-phosphate binding site	Interproscan
IPR015422 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, small domain	Interproscan
IPR010977 all species →	Family	Aromatic-L-amino-acid decarboxylase	Interproscan
IPR015421 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase, major domain	Interproscan
IPR015424 all species →	Homologous_superfamily	Pyridoxal phosphate-dependent transferase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11999 all species →	GROUP II PYRIDOXAL-5-PHOSPHATE DECARBOXYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0016831 all species →	Molecular Function	carboxy-lyase activity	Interproscan
GO:0016830 all species →	Molecular Function	carbon-carbon lyase activity	Interproscan
GO:0019752 all species →	Biological Process	carboxylic acid metabolic process	Interproscan
GO:0030170 all species →	Molecular Function	pyridoxal phosphate binding	Interproscan
GO:0006520 all species →	Biological Process	amino acid metabolic process	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K01593	DDC, TDC; aromatic-L-amino-acid/L-tryptophan decarboxylase	EC:4.1.1.28 EC:4.1.1.105	Exosome	ko04147	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of XP_032240861.2 across 48 RNA-seq samples of Nematostella vectensis. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

48Samples

41TPM > 0

16Conditions

48.1Max TPM

21.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	30.89	32.50
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	22.22	27.63
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	13.98	15.04
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	15.59	17.89
whole 6 week old aboral regenerate · regenerate uncut	3	3	10.71	15.14
whole 6 week old aboral regenerate · regenerate 4hpa	3	1	4.83	14.48
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	37.06	48.13
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	28.47	32.56
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	20.79	36.18
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	27.44	33.48
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	22.32	26.95
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	32.80	37.02
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	29.26	33.25
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	22.06	33.23
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	11.56	17.38
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	7.44	22.33

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	32.50
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	31.09
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	29.09
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	27.63
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	21.33
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	17.70
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	15.04
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	13.79
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	13.10
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	17.89
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	14.77
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	14.13
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	15.14
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	10.11
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	6.87
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	14.48
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	48.13
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	35.13
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	27.91
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	32.56
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	28.84
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	24.02
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	36.18
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	26.18
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	33.48
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	28.53
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	20.31
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	26.95
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	21.31
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	18.70
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	37.02
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	31.08
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	30.30
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	33.25
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	28.69
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	25.85
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	33.23
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	32.95
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	17.38
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	17.31
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	0.00
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	22.33
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

Source: CnidoSite RNA-seq expression matrices (NVECT_TPM, StringTie quantification over 48 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.