Detailed information of XP_068752465.1 in Montipora capricornis

Genomic Location: chr5:21273797...21276307
NR annotation: XP_029211301.2, coiled-coil domain-containing protein 103-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
Q6DGB6Dynein axonemal assembly factor 19 OS=Danio rerio OX=7955 GN=dnaaf19 PE=1 SV=1
Q5RJU3Dynein axonemal assembly factor 19 OS=Xenopus tropicalis OX=8364 GN=dnaaf19 PE=2 SV=2
Q9D9P2Dynein axonemal assembly factor 19 OS=Mus musculus OX=10090 GN=Dnaaf19 PE=1 SV=1
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0008687 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF13877
all species →		RPAP3_CPotential Monad-binding region of RPAP3DomainInterproscan
PF15867
all species →		Dynein_attach_NDynein attachment factor N-terminusFamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR042422
all species →		FamilyCoiled-coil domain-containing protein 103Interproscan
IPR025986
all species →		DomainRNA-polymerase II-associated protein 3-like, C-terminal domainInterproscan
IPR031733
all species →		DomainDynein attachment factor, N-terminalInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR28572
all species →		COILED-COIL DOMAIN-CONTAINING PROTEIN 103Interproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0003351
all species →		Biological Processepithelial cilium movement involved in extracellular fluid movementInterproscan
GO:0007368
all species →		Biological Processdetermination of left/right symmetryInterproscan
GO:0036157
all species →		Cellular Componentouter dynein armInterproscan
GO:0036159
all species →		Biological Processinner dynein arm assemblyInterproscan
GO:0070286
all species →		Biological Processaxonemal dynein complex assemblyInterproscan

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
KOEnzymeEnzyme IDPathwayMap IDSource
K23731CCDC103; coiled-coil domain-containing protein 103-Domain-containing proteins not elsewhere classifiedko04990deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_068752465.1 across 36 RNA-seq samples of Montipora capricornis. 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.

36Samples
26TPM > 0
1Conditions
11.3Max TPM
4.2Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
Polyps 36 26 4.20 11.33

Per sample · hover a bar for the full sample record

Show the sample table (36 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
SRR12786896 Polyps Polyps OA3 day0 not recorded SRP199550 11.33
SRR12786897 Polyps Polyps OA3 day0 not recorded SRP199550 10.53
SRR12786898 Polyps Polyps OA3 day0 not recorded SRP199550 9.08
SRR12904783 Polyps Polyps not recorded not recorded SRP199550 8.32
SRR12904781 Polyps Polyps not recorded not recorded SRP199550 8.20
SRR27940191 Polyps Polyps not recorded not recorded SRP199550 8.08
SRR27940193 Polyps Polyps not recorded not recorded SRP199550 7.31
SRR12959203 Polyps Polyps E3 day15 not recorded SRP199550 6.46
SRR12904782 Polyps Polyps not recorded not recorded SRP199550 6.15
SRR12959215 Polyps Polyps E3 day9 not recorded SRP199550 5.98
SRR12710858 Polyps Polyps OA3 day9 not recorded SRP199550 5.95
SRR12959201 Polyps Polyps E3 day15 not recorded SRP199550 5.89
SRR12959182 Polyps Polyps E3 day0 not recorded SRP199550 5.71
SRR12710855 Polyps Polyps OA3 day9 not recorded SRP199550 5.42
SRR12959202 Polyps Polyps E3 day15 not recorded SRP199550 5.16
SRR12959214 Polyps Polyps E3 day9 not recorded SRP199550 4.98
SRR12959184 Polyps Polyps E3 day0 not recorded SRP199550 4.76
SRR12710846 Polyps Polyps OA3 day3 not recorded SRP199550 4.14
SRR12959216 Polyps Polyps E3 day9 not recorded SRP199550 3.90
SRR12959183 Polyps Polyps E3 day0 not recorded SRP199550 3.90
SRR12959188 Polyps Polyps E3 day21 not recorded SRP199550 3.81
SRR12710857 Polyps Polyps OA3 day9 not recorded SRP199550 3.62
SRR12710847 Polyps Polyps OA3 day3 not recorded SRP199550 3.61
SRR12959190 Polyps Polyps E3 day21 not recorded SRP199550 3.58
SRR12710848 Polyps Polyps OA3 day3 not recorded SRP199550 3.12
SRR12959189 Polyps Polyps E3 day21 not recorded SRP199550 2.29
SRR12807381 Polyps Polyps OA3 day0 not recorded SRP199550 0.00
SRR12849113 Polyps Polyps OA3 day0 not recorded SRP199550 0.00
SRR12927880 Polyps Polyps E3 day0 not recorded SRP199550 0.00
SRR12959227 Polyps Polyps E3 day3 not recorded SRP199550 0.00
SRR12959229 Polyps Polyps E3 day3 not recorded SRP199550 0.00
SRR12959230 Polyps Polyps E3 day3 not recorded SRP199550 0.00
SRR12963484 Polyps Polyps E3 day0 not recorded SRP199550 0.00
SRR27940192 Polyps Polyps not recorded not recorded SRP199550 0.00
SRR9129316 Polyps Polyps not recorded not recorded SRP199550 0.00
SRR9613519 Polyps Polyps not recorded not recorded SRP199550 0.00

Source: CnidoSite RNA-seq expression matrices (MCAPR_TPM, StringTie quantification over 36 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 Montipora capricornis 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.

DirectionPartnersMost correlated partnerPCC
Positively correlated29XP_068739129.10.956991815015206
Negatively correlated3XP_068724527.1-0.38430702650519

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 Montipora capricornis, 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.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

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.

AnalysisWhat it doesStatus
Primer designDesign PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.template foundopen →
BLASTSearch 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 foundopen →
Expression heatmapDraw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.readyopen →
Gene family / orthogroupLook 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 analysisStart a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.open →
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