Gene detail

Detailed information of g7779.t1 in Acropora digitifera

Genomic Location: chr4Alt:419613...440325
NR annotation: XP_029213706.2, LOW QUALITY PROTEIN: protein FAN-like [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g7779.t1

ATGGCTTTGTGGAACAAAGTGAGAAAGAGACTTGGAAACTCGGAAGACTCCACTGGATGTGTATGCAGTCGAGAATTCTCAAATAACGAAGGGGTTTTCTACGAAGACTACTTCACAAGAATTCAGGGTTTCATAAACGACTTGAAGGACTGGGCTCTAAGTTTATTTTACCAAGATTTGCGCGAGTTGCGTTACACATCCAACATGGCGGAATTATCGTTCACGTCAATTTCTGGTTTAGAATCGCATACCATTGCTTTGAAAGAAAGATTTTCTCTGCTACTTCTTGAACCAGGAGAGATCTACTTTGAAGATTTTAGTGTCTTTTATTATCCATCTGGATCATCAGAAGAAGAAGCTATAAAAAGGAAACAAAGAGGAAGATTAAAGATTTGCTCAAAATCCATTCTTTTTGACCCAATTGACACAGTTTATCCTATTATCAAGTTTCCCCTCAGAGAATGTATTTCAGTCTCTCATTGGGCTGGATCTCTCATGTCAAGAATTGATGCAAAAGGAGATGTGCTGGCAATTGAGTCGAAGCAGGTCATTGAAATGAAAGAAGGCAATACAATAGCATCATATAATTTCAGAAGAGAAAAGACCAAGTATTTATTTTCATTCAATTTTGTAGCTTTGAATTTTGTACTGCCTCAGTTACAGCAGCTTCTTCGTGCATCCACATTAATGCCTGCAGACCAGAAAGCTATGATCAATTCAATTGTTCAATCAAGACAGGCTAGAGTCAGTTTTAATACAAGTTGGTTGGAAGATCTTCATGAAAAAATTGTGATGGAAACTATGGCCAAACGGATCACTCCTCTGGTGTGCAATCCTGGCCGCATCATGCTGACATCCTCTAGGCTTTATTTTCAACCATTCAATAATGCAGACCCTTGCCCTGTTGTCAAGTGTAAACTGTCAAACATTTGCAGAGTTGTTAAAAGGAGATATCTTCTCAGACATGTGGGAATTGAGGTATTTTCAACCGATGGTTCGCACATGTACTTGATATTCAACTCCCCAGATGAAAGAGATTTGTTTTATAAACAAATTGTCCAACAACCAGAGGTTGAATTGGAAGATACAAGACAAGAGAACATGACACTTAAATGGCAAAATGGAGCCATCTCAAATTTTGAATATCTAATGTACTTGAACAGTTTAGCTGATAGAAGTTTTAATGACCTCACACAGTATCCTGTCTTTCCTTGGATACTAGCAGATTACAAATGTGATGCTTTGGATTTAAACAATGAAAGTACATTTCGTGAGTTGTCAAAGCCAATAGGAGCTCTGAATGAAACAAGATTAGCTCAATTAAAGGAGCGTTGCAAAGAAATGCCACAGCCCAAGTTTTTGTATGGCTCTCATTATTCTACTCCAGGATATGTTCTGTACTATCTTGTCAGAGTGGCTCCAGAGTTCATGCTTTGTTTGCAAGGAGGGAAATTTGACCAACCAGACAGATTATTTAACAGTATTTCTGAAACATGGGAGAATGTTTTGACAGGACATGCTGATGTCAAAGAACTAATTCCTGAGTTCTTTCAATCATCTGGCGAATTTTTGTTAAACAGTCAAAACCTTCCATTGGGTTGTAAGCAAGACAAGACTAAAGTTATGGATGTTGAAATCCCTCCATGGGCCAAAGATGCAAGTGACTTCATTAAAAAGAACCGTGAAGCCCTTGAATGTCCGTTTGTGTCAGAAAGACTTCATCACTGGATTGATTTGATATTTGGATATAAACAAAGAGGGCATGAAGCTTGGAAAGCAGACAATGTATTTTACTACTTGACATACGAAGGAGCTGTGGACCTTGATGGTATTGAGGATCCAAATGAGCGAGCATCATTAGAAGCCCAGATCTTAGAATTTGGACAGACGCCAAAACAAATATTTACCAACCCCCATCCACAGAAGCAGGTGACTGGTGTCAGTCCGAATGTTAGCACTACTCCCTCCCCCATCAGCAGTAGTGTGCTGAATGGGTTGACTCACAGTGAGACTGGTACCGAAAATCAAGCCAATGTTCCTGTCATCAAAGTCAATGTTGACTTTGATGACGACCCTAACCACAGCCACTCCCAGTGGGCTAACATGGATAAACTGCAACGCGCAACCTGTCATAAACTGCACAAAGAGGAAGCTTCTTCTTCTTCTTCTTCTTCTTGTTCTGTGAATGTCAATATTACCAACAGTCCTTTGACGCAACACAGAAGTACTGTAACGTCCGTCAGACTGTCAAAAGATTGCAAGAACGTCTTTTCCGTTTCCCAAGATACACAACTGAAGATGTATTCAATAGAAACTAAAAAGCAGCTTAGGGGAATAAACTTGTCATCCATGGCCCTTTCGTCTTGCGCTATAATGCCAGATTCAAAAACTATAATTGTTGGTTCGTGGGATAATAAAATATATATTTACTCAGTTGAATATGGGAGAGTTGTGGACACAAAGTCTGGTCATGATGATGCAATTTCGTGTTTATCTTGGAATGATGGCATCTTGGTGACCGCATCGTGGGATTCCACTGTCAAGGTGTGGAAGTTCTTCCCTGAGCCAGATGGCAGGAAGCCGTCCCCTCCAGAAATCTTAGCAGAGCTTGAGCATGACACTGAGGTGAACTCTGTAGATCTGGATCCAACAAACACTTTGGTTGTGACCGGAACCATGGACGGCAGTGTGATGCTTTGGAACATTGACCAGCAAGCTGTCATCAGCCATCATCCAATTCACAAAGAGACCGTTCATGCAGTTCTTTTTAGCCCAGACGGTCAGCGGATTCTTTCTTGCGGTGCCGACCACTTCATGAAAGTACTGGATGTCCACACTGGTACTGAAGTGTACTCCAAAGATGTTGGCGAAGAGATCAGATGCGTAGTGTGGGATGGTCAACTGGTATTGGCAGGAGGTGAGTCGGGATATTTGCAAATCTGGGACTTGATCAATGTTCAAGAGGTTTGCAGAATAGCAGCTCATGAAGGTTCCATTCGTTGCATTGATGTATCAACTGATGGATGCACCGTAGTGACAGGTGGCGAGGACGGACAGGTTATCGTGTGGAAACTTCATGTTTGA

Transcript

chr4Alt.g7779.t1

CCTGGTACACCAGAAGGGCCTCTTCAAATATTGGAAAGAATGTGCGAGTAAGCGTTCACTCGATAGCGGATAAATCTATGGCTTTGTGGAACAAAGTGAGAAAGAGACTTGGAAACTCGGAAGACTCCACTGGATGTGTATGCAGTCGAGAATTCTCAAATAACGAAGGGGTTTTCTACGAAGACTACTTCACAAGAATTCAGGGTTTCATAAACGACTTGAAGGACTGGGCTCTAAGTTTATTTTACCAAGATTTGCGCGAGTTGCGTTACACATCCAACATGGCGGAATTATCGTTCACGTCAATTTCTGGTTTAGAATCGCATACCATTGCTTTGAAAGAAAGATTTTCTCTGCTACTTCTTGAACCAGGAGAGATCTACTTTGAAGATTTTAGTGTCTTTTATTATCCATCTGGATCATCAGAAGAAGAAGCTATAAAAAGGAAACAAAGAGGAAGATTAAAGATTTGCTCAAAATCCATTCTTTTTGACCCAATTGACACAGTTTATCCTATTATCAAGTTTCCCCTCAGAGAATGTATTTCAGTCTCTCATTGGGCTGGATCTCTCATGTCAAGAATTGATGCAAAAGGAGATGTGCTGGCAATTGAGTCGAAGCAGGTCATTGAAATGAAAGAAGGCAATACAATAGCATCATATAATTTCAGAAGAGAAAAGACCAAGTATTTATTTTCATTCAATTTTGTAGCTTTGAATTTTGTACTGCCTCAGTTACAGCAGCTTCTTCGTGCATCCACATTAATGCCTGCAGACCAGAAAGCTATGATCAATTCAATTGTTCAATCAAGACAGGCTAGAGTCAGTTTTAATACAAGTTGGTTGGAAGATCTTCATGAAAAAATTGTGATGGAAACTATGGCCAAACGGATCACTCCTCTGGTGTGCAATCCTGGCCGCATCATGCTGACATCCTCTAGGCTTTATTTTCAACCATTCAATAATGCAGACCCTTGCCCTGTTGTCAAGTGTAAACTGTCAAACATTTGCAGAGTTGTTAAAAGGAGATATCTTCTCAGACATGTGGGAATTGAGGTATTTTCAACCGATGGTTCGCACATGTACTTGATATTCAACTCCCCAGATGAAAGAGATTTGTTTTATAAACAAATTGTCCAACAACCAGAGGTTGAATTGGAAGATACAAGACAAGAGAACATGACACTTAAATGGCAAAATGGAGCCATCTCAAATTTTGAATATCTAATGTACTTGAACAGTTTAGCTGATAGAAGTTTTAATGACCTCACACAGTATCCTGTCTTTCCTTGGATACTAGCAGATTACAAATGTGATGCTTTGGATTTAAACAATGAAAGTACATTTCGTGAGTTGTCAAAGCCAATAGGAGCTCTGAATGAAACAAGATTAGCTCAATTAAAGGAGCGTTGCAAAGAAATGCCACAGCCCAAGTTTTTGTATGGCTCTCATTATTCTACTCCAGGATATGTTCTGTACTATCTTGTCAGAGTGGCTCCAGAGTTCATGCTTTGTTTGCAAGGAGGGAAATTTGACCAACCAGACAGATTATTTAACAGTATTTCTGAAACATGGGAGAATGTTTTGACAGGACATGCTGATGTCAAAGAACTAATTCCTGAGTTCTTTCAATCATCTGGCGAATTTTTGTTAAACAGTCAAAACCTTCCATTGGGTTGTAAGCAAGACAAGACTAAAGTTATGGATGTTGAAATCCCTCCATGGGCCAAAGATGCAAGTGACTTCATTAAAAAGAACCGTGAAGCCCTTGAATGTCCGTTTGTGTCAGAAAGACTTCATCACTGGATTGATTTGATATTTGGATATAAACAAAGAGGGCATGAAGCTTGGAAAGCAGACAATGTATTTTACTACTTGACATACGAAGGAGCTGTGGACCTTGATGGTATTGAGGATCCAAATGAGCGAGCATCATTAGAAGCCCAGATCTTAGAATTTGGACAGACGCCAAAACAAATATTTACCAACCCCCATCCACAGAAGCAGGTGACTGGTGTCAGTCCGAATGTTAGCACTACTCCCTCCCCCATCAGCAGTAGTGTGCTGAATGGGTTGACTCACAGTGAGACTGGTACCGAAAATCAAGCCAATGTTCCTGTCATCAAAGTCAATGTTGACTTTGATGACGACCCTAACCACAGCCACTCCCAGTGGGCTAACATGGATAAACTGCAACGCGCAACCTGTCATAAACTGCACAAAGAGGAAGCTTCTTCTTCTTCTTCTTCTTCTTGTTCTGTGAATGTCAATATTACCAACAGTCCTTTGACGCAACACAGAAGTACTGTAACGTCCGTCAGACTGTCAAAAGATTGCAAGAACGTCTTTTCCGTTTCCCAAGATACACAACTGAAGATGTATTCAATAGAAACTAAAAAGCAGCTTAGGGGAATAAACTTGTCATCCATGGCCCTTTCGTCTTGCGCTATAATGCCAGATTCAAAAACTATAATTGTTGGTTCGTGGGATAATAAAATATATATTTACTCAGTTGAATATGGGAGAGTTGTGGACACAAAGTCTGGTCATGATGATGCAATTTCGTGTTTATCTTGGAATGATGGCATCTTGGTGACCGCATCGTGGGATTCCACTGTCAAGGTGTGGAAGTTCTTCCCTGAGCCAGATGGCAGGAAGCCGTCCCCTCCAGAAATCTTAGCAGAGCTTGAGCATGACACTGAGGTGAACTCTGTAGATCTGGATCCAACAAACACTTTGGTTGTGACCGGAACCATGGACGGCAGTGTGATGCTTTGGAACATTGACCAGCAAGCTGTCATCAGCCATCATCCAATTCACAAAGAGACCGTTCATGCAGTTCTTTTTAGCCCAGACGGTCAGCGGATTCTTTCTTGCGGTGCCGACCACTTCATGAAAGTACTGGATGTCCACACTGGTACTGAAGTGTACTCCAAAGATGTTGGCGAAGAGATCAGATGCGTAGTGTGGGATGGTCAACTGGTATTGGCAGGAGGTGAGTCGGGATATTTGCAAATCTGGGACTTGATCAATGTTCAAGAGGTTTGCAGAATAGCAGCTCATGAAGGTTCCATTCGTTGCATTGATGTATCAACTGATGGATGCACCGTAGTGACAGGTGGCGAGGACGGACAGGTTATCGTGTGGAAACTTCATGTTTGAAAGCCACCGAGCAGGTTGCCTCGAAGGCCAGAGAGGTACCTGGTACCAGTTCCTCTCATATCTCAATTCCGTGGTACCCTGGTGAGCAGGAGATATCCAGGAACCTCCCATTAAAGTCAAGCTGCGAGG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O35242	Protein FAN OS=Mus musculus OX=10090 GN=Nsmaf PE=1 SV=2
Q92636	Protein FAN OS=Homo sapiens OX=9606 GN=NSMAF PE=1 SV=2
Q54PP7	BEACH domain-containing protein lvsF OS=Dictyostelium discoideum OX=44689 GN=lvsF PE=4 SV=1

Gene family

Family type	Membership / link
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14844 all species →	PH_BEACH	PH domain associated with Beige/BEACH	Domain	Interproscan
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan
PF02138 all species →	Beach	Beige/BEACH domain	Family	Interproscan
PF12894 all species →	ANAPC4_WD40	Anaphase-promoting complex subunit 4 WD40 domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000409 all species →	Domain	BEACH domain	Interproscan
IPR023362 all species →	Domain	PH-BEACH domain	Interproscan
IPR050865 all species →	Family	BEACH Domain-Containing	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR036372 all species →	Homologous_superfamily	BEACH domain superfamily	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR024977 all species →	Domain	Anaphase-promoting complex subunit 4-like, WD40 domain	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR020472 all species →	Repeat	G-protein beta WD-40 repeat	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13743 all species →	BEIGE/BEACH-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein 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
K18953	NSMAF, FAN; factor associated with neutral sphingomyelinase activation	-	Sphingolipid signaling pathway	ko04071	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g7779.t1 across 39 RNA-seq samples of Acropora digitifera. 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.

39Samples

39TPM > 0

1Conditions

38.6Max TPM

26.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	39	26.80	38.56

Per sample · hover a bar for the full sample record

Show the sample table (39 samples)

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931	38.56
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931	37.74
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931	37.03
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931	31.82
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931	31.11
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931	30.42
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931	29.97
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931	29.56
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931	29.44
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931	29.35
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931	29.11
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931	28.84
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931	28.78
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931	28.13
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931	27.83
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931	27.27
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931	26.87
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931	26.51
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931	26.16
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931	26.00
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931	25.88
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931	25.82
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931	25.46
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931	25.37
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931	25.26
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931	24.79
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931	23.83
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931	23.78
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931	23.57
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931	23.39
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931	22.99
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931	22.94
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931	22.85
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931	22.40
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931	22.25
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931	22.09
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931	21.78
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931	21.03
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931	19.21

Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM, StringTie quantification over 39 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 digitifera 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	21	g9863.t1	0.862762862928968
Negatively correlated	6	g29380.t1	-0.722744615676003

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 digitifera, 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.

Peak calls overlapping this gene

Assay	Sample	Peaks	Region

No called peak overlaps this gene in 1 available assay. Either the gene is not near an accessible or marked region in those samples, or it is not represented in the peak caller’s annotation.

Browse the full epigenomic landscape of this species: DNase-seq (DHS).

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 →