Gene detail

Detailed information of XP_032234100.2 in Nematostella vectensis

Genomic Location: NC_064037.1:5938606...5945115
NR annotation: XP_032234100.2, proline dehydrogenase 1, mitochondrial [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032378209.2

TGCAAATCAATGGTCAGACCTTCGCTCGTCCCTCGCTTCGCTTCATTCGTCTTTGAATGCTGATCCCACCAAAGCGTAAAGTATTGTGAAATGGCATCAAGAGCAATAATCTCACGTCGTGGAGGAAACACTATACTATCAAAGAGTCTATTGAGAAAGCAGCTACTACTCACAAGTCGATGGCAGTCATCGCTCGCTTCCGCGCAAGTTGTTGATAAACACCACGACAGATTGGAGATCGAAAAGGAACAGGCAGTTTTACCTGTCCCAAAAGAATTGAAATTTGACAATGCGAAAGAAGCCTTTCGTTCAAAAACCACTTTTGAGATTGCCAGGGCTCTGGCTGTATTTAGATTGTGCTCGATCGATTTTCTCGTCGAGAAAAACCAAGAGaTTATGAAACTGTCTCAAAAACTGATGGGGAAAAAACTTTTTAGAAAGGTGATGAAGAGTACATTCTATGGACATTTTGTGGCTGGGGAAGATAAAGATGACATAAAACCTACAATCCACAATTTGAACAAATATGGAGTAGGTGCTATTCTTGATTATTCGGTTGAAGAAGATTTATCAGAAGAGGAGACCAAAACAGCAATGGGGGATACAAAGCAAGAGCCAGAATTTGTATCAGATATTGCAGATGACCATGGGCGCTTCAAACCCCATGAGGAATTTGCGGACCGCCGCAAGGGTGTTTTTAGTGCACGCACCTACTTCTACTCAGGTGAACCTGAGTGTGATGCCCGCCTGGAGACTTTTATGGAATGTGTAGATGCAGCCAGCGGTGCATCAAGTGATGGCTTTGCCGCTATCAAAGTCACTGCTCTAGGACGCCCTCAGCTTCTGCTGAAAGTCTCAGAGATACTTCATCAGACGCAGGCCTTCTTCGATCAGCTTACAATGGACTCTGCCATCAAGAACAAGATTGGTTATGGCTTAGCAAAGAATAGATTTTTTGATGGCCTGGAGAGATTAGGGGTTGACATAAGTCAAGAAGAGGCTGACCGCATCTTTGACTTGATTGACACTGATAACTCTGGGGATATAGACGTGATCGAATGGCATGAGTACCTGACTCCCCAGTTGCAGTTATCCAAACTTTTCAAGGCTCACCCTGTTGGCGATGAGGAGACAGGCCAACCTCTGATCACATTACTCACACCTGACGAGCTCAGACAAGTTGAGAATATGAGAGGAAGGCTCCACCAACTGGGCGAGCACGCAAGAAACAAGAATGTGAGGCTGATGATTGATGCTGAGCAGTCTTACTTCCAGCCCGCCATAAGGAGATTCACTGTTGATTTGCAGAGAGAATTCAACAAATCTTTTCCACTGGTCCTCAACACATACCAGTGTTATCTAAAAAGCGCCCACCGTGACGCCCAAGTTGATATGGAGCTGGCGCGCCGCGAGGGCTTTAAATTTGGCGCCAAATTAGTGCGGGGCGCATACATGGAGCAAGAACGTCTTCGTGCCCAGTCCCTTGGCTATGACGATCCCATCCACCCAAGCTATGCCGCCACGAGCGAGTGCTACAACCAGACGTTAAATGACATCTTAGAGGAGTGCAGAAGAGGCGATGCTAATGTCATGGTGGCATCGCATAATGAGGACTCCGTCAGATTTGCTGTCAAAAGAATGTACGAGCTAGGAATCTCTCCAGAAGATAAGAAGGTGTTTTTTGGACAACTGCTCGGCATGTCAGACCCGCTTTCGTTCACACTCGGCCAGGCAGGCTACTCTGTGTACAAGTACGTCCCGTATGGCCCTGTGGAAGACGTGCTACCCTACCTATCCCGGCGAGCCATGGAAAACCGCGGCCTATTGAAGGGTATTCTAAAGGAACGACGCATGCTCTGGAAGGAATTCACCCGGCGACTGCGAGAGCGTCAGCTGTTTGGTCATGCCACTATGTAAAGAGAGGGAGGCAAGAGCAAGACTGAAGATTGAACTTTTTATAAAAGTTTTGGAAACCTTTTGGATGAGGAAGAATGAAGAACAAGTGAAAGATAACAGcgataatattttctttgtcaCGAAAGTAAAGCTAAATATAAAGAGAGACGGAAatacagaaaagaaaaatttatAGACTTGCTTTCCAGCCTATGTAATCTGATGTCATCTATAAAAACGTTCGTCGTTTGGAAAATGCAGAGAACATAACAACATTCGGATTTACAGTACTGGTTACTCTTTATTAGAGAAGAACATACCATCACGTCGATGAGAAGTAGAAGACAATATAATCGACAGGATTTCATGGGATCTTTTAACGTCAAAATATGGCAGGAAGTCTCCTAGATTAGCAATGGGTCTAAGCAAGCTCGTCTTCCTGGACTCAAGACAGCGCGGACGAGAGGGAAGGAAAACGAGACGAAACTGAGACGACTAGTTTAACTAAaccttatttttatctttatctttttttttttttggggggggaggcTGTTGGAACCTCATTTAAAAAGGAATTAATGTGGTATTTATTAAATGACATTCCGCGTCATAGAGCCACAACTCGAATTGTAAATATAATTTTGTAATTTGTAAATTTGTATTGTACATACATCCTGAGGAATGGATTTATGTGAAAAGTGTGAATGGTTTTGAATAAAAAGCGTATagtctaaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O43272	Proline dehydrogenase 1, mitochondrial OS=Homo sapiens OX=9606 GN=PRODH PE=1 SV=4
Q9WU79	Proline dehydrogenase 1, mitochondrial OS=Mus musculus OX=10090 GN=Prodh PE=1 SV=2
O45228	Proline dehydrogenase 1, mitochondrial OS=Caenorhabditis elegans OX=6239 GN=prdh-1 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001522 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01619 all species →	Pro_dh	Proline dehydrogenase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002872 all species →	Domain	Proline dehydrogenase domain	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR029041 all species →	Homologous_superfamily	FAD-linked oxidoreductase-like	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR015659 all species →	Family	Proline oxidase family	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13914 all species →	PROLINE OXIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0004657 all species →	Molecular Function	proline dehydrogenase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006562 all species →	Biological Process	proline catabolic process	Interproscan
GO:0010133 all species →	Biological Process	proline catabolic process to glutamate	Interproscan
GO:0071949 all species →	Molecular Function	FAD binding	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
K00318	PRODH, fadM, putB; proline dehydrogenase	EC:1.5.5.2	Arginine and proline metabolism	ko00330	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_032234100.2 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

45TPM > 0

16Conditions

67.4Max TPM

29.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	29.24	34.36
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	24.29	30.39
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	14.59	22.10
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	45.04	46.27
whole 6 week old aboral regenerate · regenerate uncut	3	3	27.05	37.21
whole 6 week old aboral regenerate · regenerate 4hpa	3	3	36.27	45.79
whole 6 week old aboral regenerate · regenerate 120hpa	3	3	29.02	30.66
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	29.89	37.81
whole 6 week old aboral regenerate · regenerate 24hpa	3	3	31.46	39.55
whole 6 week old aboral regenerate · regenerate 20hpa	3	3	37.13	42.29
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	37.85	47.53
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	40.12	67.38
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	30.46	38.88
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	20.02	37.81
whole 6 week old aboral regenerate · regenerate 8hpa	3	2	18.03	30.40
whole 6 week old aboral regenerate · regenerate 12hpa	3	2	24.52	44.35

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	34.36
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	26.74
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	26.63
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	30.39
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	21.41
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	21.06
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	22.10
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	12.66
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	9.01
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	46.27
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	45.69
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	43.16
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	37.21
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	23.91
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	20.04
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	45.79
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	32.07
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	30.96
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	30.66
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	29.17
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	27.22
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	37.81
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	29.46
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	22.40
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	39.55
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	27.82
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	27.01
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	42.29
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	38.04
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	31.06
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	47.53
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	33.87
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	32.14
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	67.38
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	29.09
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	23.89
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	38.88
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	28.12
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	24.39
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	37.81
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	22.25
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	30.40
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	23.68
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	44.35
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	29.20
SRR6320878	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.