Gene detail

Detailed information of g2255.t1 in Acropora digitifera

Genomic Location: chr1Alt:36150100...36166378
NR annotation: XP_029185251.2, LOW QUALITY PROTEIN: disks large homolog 1-like [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g2255.t1

ATGAAGAATTTCTTAAAATCTTGCACAAATTTTGGCTGGGGCAAAACAACTTCAGAAACAGTAAATGTTGATGGAGTATTGGAAAATGGCTTCGAAGAGTCCCCTGATTATCAATATGTTGATATTGTTCTGGAAAGGGGGACCACTGGTCTCGGGTTTAGTATTGGTGGAGGAACCGATAATCCTCACGTGGACAATGACTATGGAATTTACATCACCAGAATAATCAAAGGAGGGGCTGCTGCAGAAGATGGGAGACTCAATGTCGGGGACTGCATTGTTGCTGTGAATGATTCATCTACAGTGAATGTAACTCATCAACAAGCGGTGGAAGCTTTGAAGGCAGCTGGGGGTGTTGTGACCCTGACTCTAAAAAGGGTCAAACCGAAGCCTCTCACCGGAAAGCAACAAACAGAAGAGATCATCCTGACAAAAGGAACAAAGGGTCTTGGTTTTAGCATTGCGGGTGGGAAGGGTAACCAACACATGCCCAATGATGATAGCATTTATATCACCAAAATTATTGATGGTGGAGCAGCACAGCAGGATGGAAGGTTACAAGTTGGGGATAAAATTATCAGAGTGAACAATTCATCATTGGAAGATGTCACCCATGAAGATGCTGTGACTGTTTTGAAGAAAACTCAAGATAGAGTTGTCATAGTTGTAGCCAGAGTTGGAATGTCACTAACTGAATCACCGGCAGTGCCTCCGCCATGTTACAAAGATGCTGTCCAATCAAGCCTACCCCCTCCACAATCAGCCCCTCAGGAGGAATATGAGATGAAAACCAATTTACTTCCAATGCCCATTCAAATCCCAAAAGAGGACACTTTGCCAAATGAACATACAAATAGTTTGAAGAAGCCACAAGCACCAGCAGTACCTGAAGACGATGGCTTCACAAGGGAACCAAGGAAAGTTATCCTTAACAAAGGCCCCACTGGACTTGGGTTTAACATTGTCGGAGGCGAGGATGGTGAGGGAATTTTCATTTCCTTTATTCTTGCTGGAGGTGTGGCTGACTTGAGTGGAGAGCTTAGAAGAGGGGATCAGATTTTAGCGGTCAATGACACAGATTTACAAGAAGCAACACACGAACAAGCGGCGGCAGCACTGAAGGGAGCCGGAACCACTGTAACTATCATTGCCCAGTACAAACCAGAAGAATACAACCAGTTTGAGGCGAAGATTCATGACATTCGAGAAAAAATGATGAACAGTGGCAGCCCGGGCACCTTACGAACTTCAGTGAAGCGGCAGCTCTACGTGAGGGCTCTTTTTGATTACGACAAGACTAAGGACAGCGGTCTTCCCAGTCAAGGTCTCAGTTTCAAATATGGTGATATCCTTCACGTGACTAATGCTAGTGATGACGAATGGTGGCAAGCAAGACGACTGAATGCACTGGGGGAGGAGGAGGGTAGAGGTGTTATCCCCAGTAAAAGGAGGGTTGAAAGAAGAGAAAAATCCAGAATGAAGACAGTTAAGTTTTCAAGAAACAGCGAAGAAAACAAAACAAAGACTTCATTCAACGACGGCTCTGGAGGTCGTAAACGCAGCTTTAAATTTTCCAAAAGGCTACCGTTCTTCAAGAAAGATTCAGAAAACGAGCAAACGAGTGATGTGGAACCGAGTTACACTTCGAACGCGAGTGACAGCGAGAGTAGCTGCAGTGCTAAAGCAGAGGAAAATATACTTTCATATGAAGCTGTTGTCCAGCACGAGTTACAGTACACCCGACCTGTGATCGTTCTGGGACCATTAAAGGATAGAATAAATGATGACCTGATATCAGAATTCCCGGACAAATTTGGAAGCTGTGTGCCCCACACCACACGTTCGAGGAGAGAGTATGAAGTGAATGGACGTGATTATCATTTCGTAGAGTCACGTGAGGAAATGGAGCGAGCTATTCAGAATCATATGTTCATTGAAGCCGGTCAATACAACGAAAATCTCTACGGCACCAGTGTACAGTCTGTTAAGGAAGTTGCCGAAAAGAACAAGCACTGTATTTTAGACGTGAGTGGCTATGCCATTAAGCGACTCCAAGTAGCTACACTGTACCCAATCGCGATTTTCTTGAAACCGATATCCGTGGAGTGCATCCGGGATCTTAATAAGCGACTGACGGAGGAGCAGGCGCAGAAGACCTTTGACAGAGCTCTTAAACTGGAACAAGAGTTTGGAGAATATTTTACAGCCGTTGTCCAAGGCGTGACCTACGATGAAATATACACGAAAGTGAAGGAGGTGATTCGCCAACAATCAGGCCCCGTTATTTGGATTCCATCCAAAGAGAAGCTTTGA

Transcript

chr1Alt.g2255.t1

TTATTTGTCTGAACTTGCATAGTAATCAGCTTATTAGCATTTACAGCGTCTGCCACTTAGTGATACTGACAACTTGTCTGCTCTGTGATCCAACTCTATGATCATGTGTGTCTCATGTCTCTTCTAGCAAACAAAATGTTGGATTTGTGAAACTTTTCAATGTCTCTTTGAACTCCAATATGAAGAATTTCTTAAAATCTTGCACAAATTTTGGCTGGGGCAAAACAACTTCAGAAACAGTAAATGTTGATGGAGTATTGGAAAATGGCTTCGAAGAGTCCCCTGATTATCAATATGTTGATATTGTTCTGGAAAGGGGGACCACTGGTCTCGGGTTTAGTATTGGTGGAGGAACCGATAATCCTCACGTGGACAATGACTATGGAATTTACATCACCAGAATAATCAAAGGAGGGGCTGCTGCAGAAGATGGGAGACTCAATGTCGGGGACTGCATTGTTGCTGTGAATGATTCATCTACAGTGAATGTAACTCATCAACAAGCGGTGGAAGCTTTGAAGGCAGCTGGGGGTGTTGTGACCCTGACTCTAAAAAGGGTCAAACCGAAGCCTCTCACCGGAAAGCAACAAACAGAAGAGATCATCCTGACAAAAGGAACAAAGGGTCTTGGTTTTAGCATTGCGGGTGGGAAGGGTAACCAACACATGCCCAATGATGATAGCATTTATATCACCAAAATTATTGATGGTGGAGCAGCACAGCAGGATGGAAGGTTACAAGTTGGGGATAAAATTATCAGAGTGAACAATTCATCATTGGAAGATGTCACCCATGAAGATGCTGTGACTGTTTTGAAGAAAACTCAAGATAGAGTTGTCATAGTTGTAGCCAGAGTTGGAATGTCACTAACTGAATCACCGGCAGTGCCTCCGCCATGTTACAAAGATGCTGTCCAATCAAGCCTACCCCCTCCACAATCAGCCCCTCAGGAGGAATATGAGATGAAAACCAATTTACTTCCAATGCCCATTCAAATCCCAAAAGAGGACACTTTGCCAAATGAACATACAAATAGTTTGAAGAAGCCACAAGCACCAGCAGTACCTGAAGACGATGGCTTCACAAGGGAACCAAGGAAAGTTATCCTTAACAAAGGCCCCACTGGACTTGGGTTTAACATTGTCGGAGGCGAGGATGGTGAGGGAATTTTCATTTCCTTTATTCTTGCTGGAGGTGTGGCTGACTTGAGTGGAGAGCTTAGAAGAGGGGATCAGATTTTAGCGGTCAATGACACAGATTTACAAGAAGCAACACACGAACAAGCGGCGGCAGCACTGAAGGGAGCCGGAACCACTGTAACTATCATTGCCCAGTACAAACCAGAAGAATACAACCAGTTTGAGGCGAAGATTCATGACATTCGAGAAAAAATGATGAACAGTGGCAGCCCGGGCACCTTACGAACTTCAGTGAAGCGGCAGCTCTACGTGAGGGCTCTTTTTGATTACGACAAGACTAAGGACAGCGGTCTTCCCAGTCAAGGTCTCAGTTTCAAATATGGTGATATCCTTCACGTGACTAATGCTAGTGATGACGAATGGTGGCAAGCAAGACGACTGAATGCACTGGGGGAGGAGGAGGGTAGAGGTGTTATCCCCAGTAAAAGGAGGGTTGAAAGAAGAGAAAAATCCAGAATGAAGACAGTTAAGTTTTCAAGAAACAGCGAAGAAAACAAAACAAAGACTTCATTCAACGACGGCTCTGGAGGTCGTAAACGCAGCTTTAAATTTTCCAAAAGGCTACCGTTCTTCAAGAAAGATTCAGAAAACGAGCAAACGAGTGATGTGGAACCGAGTTACACTTCGAACGCGAGTGACAGCGAGAGTAGCTGCAGTGCTAAAGCAGAGGAAAATATACTTTCATATGAAGCTGTTGTCCAGCACGAGTTACAGTACACCCGACCTGTGATCGTTCTGGGACCATTAAAGGATAGAATAAATGATGACCTGATATCAGAATTCCCGGACAAATTTGGAAGCTGTGTGCCCCACACCACACGTTCGAGGAGAGAGTATGAAGTGAATGGACGTGATTATCATTTCGTAGAGTCACGTGAGGAAATGGAGCGAGCTATTCAGAATCATATGTTCATTGAAGCCGGTCAATACAACGAAAATCTCTACGGCACCAGTGTACAGTCTGTTAAGGAAGTTGCCGAAAAGAACAAGCACTGTATTTTAGACGTGAGTGGCTATGCCATTAAGCGACTCCAAGTAGCTACACTGTACCCAATCGCGATTTTCTTGAAACCGATATCCGTGGAGTGCATCCGGGATCTTAATAAGCGACTGACGGAGGAGCAGGCGCAGAAGACCTTTGACAGAGCTCTTAAACTGGAACAAGAGTTTGGAGAATATTTTACAGCCGTTGTCCAAGGCGTGACCTACGATGAAATATACACGAAAGTGAAGGAGGTGATTCGCCAACAATCAGGCCCCGTTATTTGGATTCCATCCAAAGAGAAGCTTTGACTTGCGGTACCATAGCCTACTATACTCACAATATACTCACAGACCTGCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A0A8C0TYJ0	Disks large homolog 1 OS=Canis lupus familiaris OX=9615 GN=DLG1 PE=3 SV=1
Q28C55	Disks large homolog 1 OS=Xenopus tropicalis OX=8364 GN=dlg1 PE=2 SV=1
Q5PYH7	Disks large homolog 2 OS=Danio rerio OX=7955 GN=dlg2 PE=2 SV=1

Gene family

Family type	Membership / link
Ubiquitin family	UBD\|Other\|SH3 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00595 all species →	PDZ	PDZ domain	Domain	Interproscan
PF00625 all species →	Guanylate_kin	Guanylate kinase	Domain	Interproscan
PF00018 all species →	SH3_1	SH3 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR008145 all species →	Domain	Guanylate kinase/L-type calcium channel beta subunit	Interproscan
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan
IPR050614 all species →	Family	Synaptic Scaffolding LAP/MAGUK Families	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR016313 all species →	Family	Disks large 1-like	Interproscan
IPR008144 all species →	Domain	Guanylate kinase-like domain	Interproscan
IPR020590 all species →	Conserved_site	Guanylate kinase, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23119 all species →	DISCS LARGE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0007268 all species →	Biological Process	chemical synaptic transmission	Interproscan
GO:0009790 all species →	Biological Process	embryo development	Interproscan
GO:0016323 all species →	Cellular Component	basolateral plasma membrane	Interproscan
GO:0030054 all species →	Cellular Component	cell junction	Interproscan
GO:0031594 all species →	Cellular Component	neuromuscular junction	Interproscan
GO:0043005 all species →	Cellular Component	neuron projection	Interproscan
GO:0043113 all species →	Biological Process	receptor clustering	Interproscan
GO:0045197 all species →	Biological Process	establishment or maintenance of epithelial cell apical/basal polarity	Interproscan
GO:0097120 all species →	Biological Process	receptor localization to synapse	Interproscan
GO:0098609 all species →	Biological Process	cell-cell adhesion	Interproscan
GO:0098839 all species →	Cellular Component	postsynaptic density membrane	Interproscan
GO:0019900 all species →	Molecular Function	kinase 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
K12076	DLG1; disks large protein 1	-	Chromosome and associated proteins	ko03036	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g2255.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

153.0Max TPM

124.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	39	124.17	153.00

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
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931	153.00
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931	151.31
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931	149.69
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931	146.03
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931	142.68
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931	141.71
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931	139.03
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931	137.48
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931	136.23
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931	136.19
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931	133.21
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931	131.45
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931	128.32
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931	127.83
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931	127.67
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931	125.98
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931	125.50
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931	125.07
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931	125.06
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931	125.01
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931	124.97
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931	124.56
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931	124.24
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931	121.98
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931	121.12
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931	119.70
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931	118.42
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931	118.20
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931	117.30
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931	113.07
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931	111.31
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931	110.40
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931	108.22
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931	106.53
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931	106.51
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931	103.73
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931	102.55
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931	92.41
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931	88.90

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	30	g20562.t1	0.840887205947495
Negatively correlated	12	g29335.t1	-0.743997618272985

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 →