Gene detail

Detailed information of asel_s0033.g2.t1 in Acropora selago

Genomic Location: sc0000033_pilon:8266...32775
NR annotation: XP_029191418.2, trifunctional enzyme subunit alpha, mitochondrial-like [Acropora millepora]
Species Acropora selago · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

asel_s0033.g2.t1

ATGCTCTCTTCTACTCTCCGGCTTGGAATTAGGCAACTCTCGGTCCCCTCTAGGAGGCACCTTTTGCCAGCAATCAATGCAGGAACTCATCTCCGCTTCAATCAGACAGCATCAGGGGATAGCTGTGTCAAGTGTAACATCACAAGTGATGGTGTGGCTGTTGTCAGATTTGATACGCCAGGATCAAAGGTCAATGTCTTATCAGAGAAGTTTACAACTGATCTGGCTGAGGTTATTCAAGATGTGGAATCTAATGCTGATGTCAAGAGTATTGTTCTTTTGTCCTCTAAACCTGGCTGTTGGATTGCTGGAGCAGACATTAACATGCTGAATGCTGGTGACACTGCCAAGAAGGTTGAAGAAATGTCTGCCAATGGCCAGAAACTCATGCAACATGTTGAGGATAGTAAAAAACCATTTGTGGCTGCTATCATGGGATCTTGCCTTGGCGGTGGCCTTGAGCTTGCCTTGAGTTGTCACTACAGAGTTGCTGTAGATAACTCTTCCACTGTCCTTGGTGCTCCAGAGGTTATGTTGGGTCTGCTACCAGGTGCTGGAGGAACACAAAGGCTCCCTTCACTCGTTGGTCTACCTGATTCTTTGGACATGATGCTCACAGGCAAGAATATCAAAGCAGGCAAAGCAAAAAGGATGGGTCTTGTTGATGGGCTTGTCAAACCACTTGGTCCTGGTCTAAAACCTCCCTTAGAGAACACCTTGCAGTATCTTGAAGAAATTGCTATCCAGACAGCCAAGAATTTGGCAGGTGGATCTGTTAAATCTGACAGGTCACGTTCTTGGGGAAATATGAAAGACTTACAGTACAAAATTACAACTGAAACAAAATTTGGACGCGACTTTGTTTTCAAGAAAGCGAAACAAACAGTTATGAAGCAAACTGGTGGTCTTTATCCTGCTCCATTAAAAATTCTTGATGTTGTCAGAAGTGGCCTAGAAGAAGGACACCAAAAAGGCTTCAAAAAGGAAGCTGAGGAATTTGGTGAACTAAGCCAGACAAGCGAAGCAAAGGCTCTGATGGGTCTGTTCTTTGGTCAGACAGAATGCAAGAAGAACCCTTATGGAGCTCCTCAAAAACCTGTTAACACTGTTGCTGTCATTGGGGCTGGCCTTATGGGTGCAGGCATAGCACAGGTCAGTCTTCAAAAAGGCCAGAATGTGGTCATGAAAGACAACATTTTGGAAGGTCTCACTCGAGGTCAGGAACAAATTTACAAAGGGCTTAATGGCCGTGTGAAAAAGAAGGCCATGACATCGTTTGAAAGGGACAATATGATGTCCAAACTGTCAGGACAGTTAGACTTTAGGAACTTTGACAAAGTTGACATGGTAATTGAAGCTGTCTTTGAAGATCTCAACCTCAAGCACAAAGTCATTAAGGAAATAGAGAAGGTCATTCCAGAACATTGTGTGTTTGCATCCAACACTTCAGCACTTCCTATTCACAAGGTTGCTGAAGCAAGCATAAGACCTGAAAAGGTTGTTGGAATGCATTACTTTTCTCCTGTCGAGAAAATGCCACTTTTGGAAATCATCACAACAGATAAAACCTCAAATGACACAGCAGCGGCTGCTGTTAGCGTTGGTCTGAAACAAGGAAAAACAGTAATTGTAGTTAAGGATGGTCCTGGGTTTTACACAACAAGAATCTTGGCACCAACACTGGCTGAAGCAGTTGCTCTTTTACAGGAGGGAGTTGGTCCAAAGGAATTGGATAGTCTAACCAAGCAGTTTGGATTTCCAGTTGGATCAGCAACTTTAGCTGATGAAGTTGGCATTGATGTAGCAGCACACGTAGCAGAAGATCTCCACAAAGCATTTGGTGAAAGATTTGGTGGTGGAAACCCAGAATTATTGAAAGCTATGGTTGATGGTGGACATTTAGGGAGAAAATCTGGAAAGGGGTTTTTTATCTACAGTGGAAAGAGCAGCAAGCGAGAAGTCAATGGTGAAGTGGAAAAACTGCTTAAAGAATTTGCAATTCCCAAGAAAGGGAGTCATGACCCTGAAGAGATACAGATGAGATTAGCATCAAGATTTGTAAATGAATCAATACTTTGTCTACAGGAAGGAATACTGAAAAATCCAGTTGATGGAGACATAGGTGCTGTCTTTGGTCTGGGATTTCCACCATTCCACGGAGGTCCTTTCCGTTACCTTGATGTCTATGGAGCAGAGAAGTTTGTGGAAAGAATGCAACGATTGCAGGAAACAGTTGGTGGGGAACGCTTTCAGCCCTGTCAGATGCTTTTGGATTTTGCCAAAGACCCAAGCAAAAAATTTCATAAGAGATGA

Transcript

asel_s0033.g2.t1

GTATTTGCCAAGTGATAATATCTACTATTTTAAAGTGAAAAGTTTCCACCGCAGAGGCCATTTCGCATGGAGTTATTACTAATCTTGGTTTTTGCTCTCGGTTTGTGGATGAATTGGACGTTTGCTTTCCATAACAAGCACAAATGGATCAACCTCGAAACTTTGAGAAACCTGGTTTCATTTCAGCTGACTTTAAATGCATTGAACATCGCTTTTCACCTGTTGTTGTTAATTCCGTTGCCTTTCTTTGGATATGCAATCAATCCGGGAAACTTCTTATGGACGTTTAAAAGTTCTATCGTTTGCAGATTGTTAACAGTGATGGGGGATTTCATCTCTATTTCCTGCTCGGCAAATGCAACCATCATTTTTATTACAAATCCCGAGGCACAGGAATTGAAACAGGAGAGAAGACGGAAACAAGTTTGTTGTGTATGCATTGTGATGATGTGTTTTTGCTTGGGCAGAATTTTTGTGTTTAGTTTCAGAGAGCTGATTGACACAGATTCTCTTATTATACAAAATTGTCCTTCACATTCTTTCTTTGTTCTTTGTGATCAAAAAGAGGTGAAATATCTGTTTACTTCTTTTTCAATGCTATCATTTCTCTTGTTTTGCTGTGTGGAACGCAGTAGTATTTTGCAACTTTCCGAGTTATGGAATAGTTTTAATTTGTTAATTCGAGTTTTAGCCTTTTTACATAAATGCTGCATATTCTATGCTATGACATATGGGTTGCTATATACCCCAGCCTATCTATTTGGGGGACCATCGCTGAGTGTGACATTTAGCTTGGGAAAACACTATTTTGATATCGTTACGCTGGCACTGAGTATTGGTTTGCCAGCATTTTTGGCACATGTATTTGCCAAAGAAGATCTGAATGTCTGTGGAATTTAATAACATTGTTTGGAATCCTCTGCCCGGGAATTTTAAGACTACATGGTTGAAAAGTGTCTTATGAAGGTTCTGTTATCCAGtaactggcctgaattctggctgtttatagtttttgatctgatttaccctgttgaccttctaactaatcctgtccagcAACCTAAGTAGTGGAATGAGTCTATTGTGATGACAGGAAACAGCTTGATCAAGTTGTTTCCTGTCATGAGTCAGGTTCAGATTATGGGAAAGAGTTGTTATTTAGGTTGTACTTTTCATGCTCTGATAGAAACGAAAGTAACGCTCTCAACTCCTATAATATTAGTTAATAAGGTTGAATTATTGAAAGGTCATTCAAGGGCTCAATGAACTGGGAACGGGGATGAACTTTGATCCTGTTAACGCCAAAAGAACTATGGGTAAATCGTTGCGTCGACAATGGCGCATGGGTAAATAGGCGAAAACCCGCATAATTTTGAAGAACGGAAAGAAAGTTAAAGAACTTCTCTGAAGTCTGCACCGAAATCGCAATGCTCTCTTCTACTCTCCGGCTTGGAATTAGGCAACTCTCGGTCCCCTCTAGGAGGCACCTTTTGCCAGCAATCAATGCAGGAACTCATCTCCGCTTCAATCAGACAGCATCAGGGGATAGCTGTGTCAAGTGTAACATCACAAGTGATGGTGTGGCTGTTGTCAGATTTGATACGCCAGGATCAAAGGTCAATGTCTTATCAGAGAAGTTTACAACTGATCTGGCTGAGGTTATTCAAGATGTGGAATCTAATGCTGATGTCAAGAGTATTGTTCTTTTGTCCTCTAAACCTGGCTGTTGGATTGCTGGAGCAGACATTAACATGCTGAATGCTGGTGACACTGCCAAGAAGGTTGAAGAAATGTCTGCCAATGGCCAGAAACTCATGCAACATGTTGAGGATAGTAAAAAACCATTTGTGGCTGCTATCATGGGATCTTGCCTTGGCGGTGGCCTTGAGCTTGCCTTGAGTTGTCACTACAGAGTTGCTGTAGATAACTCTTCCACTGTCCTTGGTGCTCCAGAGGTTATGTTGGGTCTGCTACCAGGTGCTGGAGGAACACAAAGGCTCCCTTCACTCGTTGGTCTACCTGATTCTTTGGACATGATGCTCACAGGCAAGAATATCAAAGCAGGCAAAGCAAAAAGGATGGGTCTTGTTGATGGGCTTGTCAAACCACTTGGTCCTGGTCTAAAACCTCCCTTAGAGAACACCTTGCAGTATCTTGAAGAAATTGCTATCCAGACAGCCAAGAATTTGGCAGGTGGATCTGTTAAATCTGACAGGTCACGTTCTTGGGGAAATATGAAAGACTTACAGTACAAAATTACAACTGAAACAAAATTTGGACGCGACTTTGTTTTCAAGAAAGCGAAACAAACAGTTATGAAGCAAACTGGTGGTCTTTATCCTGCTCCATTAAAAATTCTTGATGTTGTCAGAAGTGGCCTAGAAGAAGGACACCAAAAAGGCTTCAAAAAGGAAGCTGAGGAATTTGGTGAACTAAGCCAGACAAGCGAAGCAAAGGCTCTGATGGGTCTGTTCTTTGGTCAGACAGAATGCAAGAAGAACCCTTATGGAGCTCCTCAAAAACCTGTTAACACTGTTGCTGTCATTGGGGCTGGCCTTATGGGTGCAGGCATAGCACAGGTCAGTCTTCAAAAAGGCCAGAATGTGGTCATGAAAGACAACATTTTGGAAGGTCTCACTCGAGGTCAGGAACAAATTTACAAAGGGCTTAATGGCCGTGTGAAAAAGAAGGCCATGACATCGTTTGAAAGGGACAATATGATGTCCAAACTGTCAGGACAGTTAGACTTTAGGAACTTTGACAAAGTTGACATGGTAATTGAAGCTGTCTTTGAAGATCTCAACCTCAAGCACAAAGTCATTAAGGAAATAGAGAAGGTCATTCCAGAACATTGTGTGTTTGCATCCAACACTTCAGCACTTCCTATTCACAAGGTTGCTGAAGCAAGCATAAGACCTGAAAAGGTTGTTGGAATGCATTACTTTTCTCCTGTCGAGAAAATGCCACTTTTGGAAATCATCACAACAGATAAAACCTCAAATGACACAGCAGCGGCTGCTGTTAGCGTTGGTCTGAAACAAGGAAAAACAGTAATTGTAGTTAAGGATGGTCCTGGGTTTTACACAACAAGAATCTTGGCACCAACACTGGCTGAAGCAGTTGCTCTTTTACAGGAGGGAGTTGGTCCAAAGGAATTGGATAGTCTAACCAAGCAGTTTGGATTTCCAGTTGGATCAGCAACTTTAGCTGATGAAGTTGGCATTGATGTAGCAGCACACGTAGCAGAAGATCTCCACAAAGCATTTGGTGAAAGATTTGGTGGTGGAAACCCAGAATTATTGAAAGCTATGGTTGATGGTGGACATTTAGGGAGAAAATCTGGAAAGGGGTTTTTTATCTACAGTGGAAAGAGCAGCAAGCGAGAAGTCAATGGTGAAGTGGAAAAACTGCTTAAAGAATTTGCAATTCCCAAGAAAGGGAGTCATGACCCTGAAGAGATACAGATGAGATTAGCATCAAGATTTGTAAATGAATCAATACTTTGTCTACAGGAAGGAATACTGAAAAATCCAGTTGATGGAGACATAGGTGCTGTCTTTGGTCTGGGATTTCCACCATTCCACGGAGGTCCTTTCCGTTACCTTGATGTCTATGGAGCAGAGAAGTTTGTGGAAAGAATGCAACGATTGCAGGAAACAGTTGGTGGGGAACGCTTTCAGCCCTGTCAGATGCTTTTGGATTTTGCCAAAGACCCAAGCAAAAAATTTCATAAGAGATGATGAATTGTAAAAATGTGTCGTTTATCTACGGAATGCTGAGGTCACAGTACAGTTGAAACTTCCAGAATGGTACACTCCTTTTATGGCAGTAGTTACCGCAAAGATGTGGACTTGAAAATGATGTCATTCGTTGCCATGTTAACGTAGTAGGCTTTTGTAGTGAATTCAATTATTTTGATGACAGTATTCCTTATCCCAACCACAGTATTTTGTTTTTTTTGTTTCTTGGTTTTGGAAGGCTTTGTGTAGCATCCTAATGGTTAATTAAAAGAAGTTTTAACTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P40939	Trifunctional enzyme subunit alpha, mitochondrial OS=Homo sapiens OX=9606 GN=HADHA PE=1 SV=2
Q64428	Trifunctional enzyme subunit alpha, mitochondrial OS=Rattus norvegicus OX=10116 GN=Hadha PE=1 SV=2
Q8BMS1	Trifunctional enzyme subunit alpha, mitochondrial OS=Mus musculus OX=10090 GN=Hadha PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001436 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02737 all species →	3HCDH_N	3-hydroxyacyl-CoA dehydrogenase, NAD binding domain	Domain	Interproscan
PF00725 all species →	3HCDH	3-hydroxyacyl-CoA dehydrogenase, C-terminal domain	Domain	Interproscan
PF00378 all species →	ECH_1	Enoyl-CoA hydratase/isomerase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008927 all species →	Homologous_superfamily	6-phosphogluconate dehydrogenase-like, C-terminal domain superfamily	Interproscan
IPR029045 all species →	Homologous_superfamily	ClpP/crotonase-like domain superfamily	Interproscan
IPR006176 all species →	Domain	3-hydroxyacyl-CoA dehydrogenase, NAD binding	Interproscan
IPR050136 all species →	Family	Fatty acid oxidation complex subunit alpha	Interproscan
IPR006108 all species →	Domain	3-hydroxyacyl-CoA dehydrogenase, C-terminal	Interproscan
IPR001753 all species →	Family	Enoyl-CoA hydratase/isomerase	Interproscan
IPR012803 all species →	Family	Fatty acid oxidation complex, alpha subunit, mitochondrial	Interproscan
IPR036291 all species →	Homologous_superfamily	NAD(P)-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43612 all species →	TRIFUNCTIONAL ENZYME SUBUNIT ALPHA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006631 all species →	Biological Process	fatty acid metabolic process	Interproscan
GO:0070403 all species →	Molecular Function	NAD+ binding	Interproscan
GO:0016507 all species →	Cellular Component	mitochondrial fatty acid beta-oxidation multienzyme complex	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0016616 all species →	Molecular Function	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	Interproscan
GO:0003857 all species →	Molecular Function	3-hydroxyacyl-CoA dehydrogenase activity	Interproscan
GO:0004300 all species →	Molecular Function	enoyl-CoA hydratase activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006635 all species →	Biological Process	fatty acid beta-oxidation	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
K07515	HADHA; enoyl-CoA hydratase / long-chain 3-hydroxyacyl-CoA dehydrogenase	EC:4.2.1.17 EC:1.1.1.211	Caprolactam degradation	ko00930	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of asel_s0033.g2.t1 across 24 RNA-seq samples of Acropora selago. 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.

24Samples

24TPM > 0

1Conditions

204.2Max TPM

159.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
coral larvae	24	24	159.04	204.16

Per sample · hover a bar for the full sample record

Show the sample table (24 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR14308024	coral larvae	coral larvae	not recorded	not recorded	SRP315987	204.16
SRR14308015	coral larvae	coral larvae	not recorded	not recorded	SRP315987	197.45
SRR14308008	coral larvae	coral larvae	not recorded	not recorded	SRP315987	191.28
SRR14308012	coral larvae	coral larvae	not recorded	not recorded	SRP315987	183.39
SRR14308027	coral larvae	coral larvae	not recorded	not recorded	SRP315987	180.92
SRR14308011	coral larvae	coral larvae	not recorded	not recorded	SRP315987	180.83
SRR14308009	coral larvae	coral larvae	not recorded	not recorded	SRP315987	179.23
SRR14308019	coral larvae	coral larvae	not recorded	not recorded	SRP315987	173.55
SRR14308004	coral larvae	coral larvae	not recorded	not recorded	SRP315987	167.25
SRR14308025	coral larvae	coral larvae	not recorded	not recorded	SRP315987	163.86
SRR14308017	coral larvae	coral larvae	not recorded	not recorded	SRP315987	162.95
SRR14308021	coral larvae	coral larvae	not recorded	not recorded	SRP315987	162.50
SRR14308007	coral larvae	coral larvae	not recorded	not recorded	SRP315987	161.18
SRR14308013	coral larvae	coral larvae	not recorded	not recorded	SRP315987	158.24
SRR14308010	coral larvae	coral larvae	not recorded	not recorded	SRP315987	150.51
SRR14308005	coral larvae	coral larvae	not recorded	not recorded	SRP315987	150.33
SRR14308014	coral larvae	coral larvae	not recorded	not recorded	SRP315987	150.15
SRR14308006	coral larvae	coral larvae	not recorded	not recorded	SRP315987	143.18
SRR14308023	coral larvae	coral larvae	not recorded	not recorded	SRP315987	132.46
SRR14308020	coral larvae	coral larvae	not recorded	not recorded	SRP315987	131.45
SRR14308022	coral larvae	coral larvae	not recorded	not recorded	SRP315987	129.04
SRR14308026	coral larvae	coral larvae	not recorded	not recorded	SRP315987	124.17
SRR14308016	coral larvae	coral larvae	not recorded	not recorded	SRP315987	120.44
SRR14308018	coral larvae	coral larvae	not recorded	not recorded	SRP315987	118.54

Source: CnidoSite RNA-seq expression matrices (ASELA_TPM, StringTie quantification over 24 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.

Co-expression network

Genes whose expression across the transcriptome samples of Acropora selago tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

Direction	Partners	Most correlated partner	PCC
Positively correlated	9	asel_s0105.g51.t1	0.837719749680975
Negatively correlated	23	asel_s0034.g112.t1	-0.767636881436048

Open this gene in Network Analysis → The network opens with the gene already entered and both directions selected. There you can add up to 9 more genes, switch between the positive and negative network, and export the edge list.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Acropora selago, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

DNA methylation (bisulphite samples)

Sample	Methylation profile
Coral_Fragment_Parent	open
Larval_Pool_Offspring	open

The DNA Methylation page locates this gene by scanning the bisulphite table, which holds one row per cytosine. For the largest datasets that scan takes a while to return; it does not mean the link is broken.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	ready	open →
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →