Detailed information of g825.t1 in Montipora capitata

Genomic Location: Sc0000008:1030074...1086000
NR annotation: XP_044180310.1, LOW QUALITY PROTEIN: dynein beta chain, ciliary-like [Acropora millepora]
Species Montipora capitata · all data for this species · gene families


 Gene Structure
More details in JBrowse  Sequence
CDS
Transcript
Protein
 UniProt (Swiss-Prot top hit)
UniProt accessionDescription
F1SC07Dynein axonemal heavy chain 11 OS=Sus scrofa OX=9823 GN=DNAH11 PE=1 SV=4
Q69Z23Dynein axonemal heavy chain 17 OS=Mus musculus OX=10090 GN=Dnah17 PE=1 SV=2
Q9UFH2Dynein axonemal heavy chain 17 OS=Homo sapiens OX=9606 GN=DNAH17 PE=1 SV=3
 Gene family
Family typeMembership / link
Orthogroup (gene family)OG0002105 (this species only) · gene tree & orthology

 Pfam domain
Pfam accessionPfam nameDescriptionTypeSource
PF03028
all species →		Dynein_heavyDynein heavy chain region D6 P-loop domain DomainInterproscan
PF17857
all species →		AAA_lid_1AAA+ lid domainDomainInterproscan
PF12775
all species →		AAA_7P-loop containing dynein motor regionDomainInterproscan
PF18199
all species →		Dynein_CDynein heavy chain C-terminal domainDomainInterproscan
PF12774
all species →		AAA_6Hydrolytic ATP binding site of dynein motor regionDomainInterproscan
PF17852
all species →		Dynein_AAA_lidDynein heavy chain AAA lid domainDomainInterproscan
PF12777
all species →		MTMicrotubule-binding stalk of dynein motorDomainInterproscan
PF12780
all species →		AAA_8P-loop containing dynein motor region D4DomainInterproscan
PF07728
all species →		AAA_5AAA domain (dynein-related subfamily)DomainInterproscan
PF18198
all species →		AAA_lid_11Dynein heavy chain AAA lid domainDomainInterproscan
PF08393
all species →		DHC_N2Dynein heavy chain, N-terminal region 2FamilyInterproscan

 InterPro
InterPro termTypeDescriptionSource
IPR004273
all species →		DomainDynein heavy chain region D6 P-loop domainInterproscan
IPR041589
all species →		DomainDynein heavy chain 3, AAA+ lid domainInterproscan
IPR041228
all species →		DomainDynein heavy chain, C-terminal domainInterproscan
IPR035699
all species →		DomainDynein heavy chain, hydrolytic ATP-binding dynein motor regionInterproscan
IPR027417
all species →		Homologous_superfamilyP-loop containing nucleoside triphosphate hydrolaseInterproscan
IPR043157
all species →		Homologous_superfamilyDynein heavy chain, AAA1 domain, small subdomainInterproscan
IPR041466
all species →		DomainDynein heavy chain, AAA 5 extension domainInterproscan
IPR043160
all species →		Homologous_superfamilyDynein heavy chain, C-terminal domain, barrel regionInterproscan
IPR026983
all species →		FamilyDynein heavy chainInterproscan
IPR042219
all species →		Homologous_superfamilyDynein heavy chain AAA lid domain superfamilyInterproscan
IPR024743
all species →		DomainDynein heavy chain, coiled coil stalkInterproscan
IPR042228
all species →		Homologous_superfamilyDynein heavy chain, linker, subdomain 3Interproscan
IPR024317
all species →		DomainDynein heavy chain, AAA module D4Interproscan
IPR042222
all species →		Homologous_superfamilyDynein heavy chain, domain 2, N-terminalInterproscan
IPR011704
all species →		DomainATPase, dynein-related, AAA domainInterproscan
IPR041658
all species →		DomainDynein heavy chain AAA lid domainInterproscan
IPR013602
all species →		DomainDynein heavy chain, linkerInterproscan

 PANTHER
PANTHER termDescriptionSource
PTHR10676
all species →		DYNEIN HEAVY CHAIN FAMILY PROTEINInterproscan

 Gene Ontology
GO termCategoryDescriptionSource
GO:0007018
all species →		Biological Processmicrotubule-based movementInterproscan
GO:0008569
all species →		Molecular Functionminus-end-directed microtubule motor activityInterproscan
GO:0030286
all species →		Cellular Componentdynein complexInterproscan
GO:0005524
all species →		Molecular FunctionATP bindingInterproscan
GO:0005930
all species →		Cellular ComponentaxonemeInterproscan
GO:0045505
all species →		Molecular Functiondynein intermediate chain bindingInterproscan
GO:0051959
all species →		Molecular Functiondynein light intermediate chain bindingInterproscan
GO:0060294
all species →		Biological Processcilium movement involved in cell motilityInterproscan
GO:0097729
all species →		Cellular Component9+2 motile ciliumInterproscan
GO:0016887
all species →		Molecular FunctionATP hydrolysis activityInterproscan

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
No KEGG orthology assignment for g825.t1.

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

Expression pattern (RNA-seq)

Transcript abundance of g825.t1 across 48 RNA-seq samples of Montipora capitata. 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
48TPM > 0
3Conditions
67.0Max TPM
14.5Mean TPM

By condition

ConditionSamplesTPM > 0 Mean TPMMax TPMMean, relative to max
whole organisms · ambient pH treatment 21 21 13.30 62.53
whole organisms · low pH treatment 15 15 13.86 44.75
whole organisms · extra low pH treatment pH treatment 12 12 17.57 66.98

Per sample · hover a bar for the full sample record

Show the sample table (48 samples)
SRA runConditionTissueDevelopmental stage TreatmentStudyTPM
SRR11452222 whole organisms · ambient pH treatment whole organisms planulae ambient pH treatment SRP254626 62.53
SRR11452230 whole organisms · ambient pH treatment whole organisms planulae ambient pH treatment SRP254626 42.26
SRR11452228 whole organisms · ambient pH treatment whole organisms planulae ambient pH treatment SRP254626 40.01
SRR11452232 whole organisms · ambient pH treatment whole organisms blastula ambient pH treatment SRP254626 25.40
SRR11452231 whole organisms · ambient pH treatment whole organisms blastula ambient pH treatment SRP254626 13.45
SRR11452250 whole organisms · ambient pH treatment whole organisms prawn chip ambient pH treatment SRP254626 13.28
SRR11452246 whole organisms · ambient pH treatment whole organisms prawn chip ambient pH treatment SRP254626 12.40
SRR11452252 whole organisms · ambient pH treatment whole organisms prawn chip ambient pH treatment SRP254626 12.13
SRR11452234 whole organisms · ambient pH treatment whole organisms morula ambient pH treatment SRP254626 10.75
SRR11452233 whole organisms · ambient pH treatment whole organisms morula ambient pH treatment SRP254626 5.67
SRR11452243 whole organisms · ambient pH treatment whole organisms gastrula ambient pH treatment SRP254626 5.39
SRR11452242 whole organisms · ambient pH treatment whole organisms gastrula ambient pH treatment SRP254626 4.86
SRR11452262 whole organisms · ambient pH treatment whole organisms egg ambient pH treatment SRP254626 4.50
SRR11452263 whole organisms · ambient pH treatment whole organisms egg ambient pH treatment SRP254626 4.41
SRR11452237 whole organisms · ambient pH treatment whole organisms gastrula ambient pH treatment SRP254626 4.38
SRR11452251 whole organisms · ambient pH treatment whole organisms egg ambient pH treatment SRP254626 4.08
SRR11452254 whole organisms · ambient pH treatment whole organisms cleavage ambient pH treatment SRP254626 3.95
SRR11452259 whole organisms · ambient pH treatment whole organisms cleavage ambient pH treatment SRP254626 2.76
SRR11452240 whole organisms · ambient pH treatment whole organisms fertilized embryo ambient pH treatment SRP254626 2.55
SRR11452217 whole organisms · ambient pH treatment whole organisms fertilized embryo ambient pH treatment SRP254626 2.35
SRR11452260 whole organisms · ambient pH treatment whole organisms cleavage ambient pH treatment SRP254626 2.30
SRR11452223 whole organisms · low pH treatment whole organisms planulae low pH treatment SRP254626 44.75
SRR11452221 whole organisms · low pH treatment whole organisms planulae low pH treatment SRP254626 44.03
SRR11452224 whole organisms · low pH treatment whole organisms planulae low pH treatment SRP254626 42.79
SRR11452245 whole organisms · low pH treatment whole organisms prawn chip low pH treatment SRP254626 15.57
SRR11452249 whole organisms · low pH treatment whole organisms prawn chip low pH treatment SRP254626 13.59
SRR11452247 whole organisms · low pH treatment whole organisms prawn chip low pH treatment SRP254626 12.83
SRR11452236 whole organisms · low pH treatment whole organisms gastrula low pH treatment SRP254626 5.40
SRR11452238 whole organisms · low pH treatment whole organisms gastrula low pH treatment SRP254626 4.94
SRR11452241 whole organisms · low pH treatment whole organisms gastrula low pH treatment SRP254626 4.87
SRR11452218 whole organisms · low pH treatment whole organisms fertilized embryo low pH treatment SRP254626 4.27
SRR11452255 whole organisms · low pH treatment whole organisms cleavage low pH treatment SRP254626 3.60
SRR11452258 whole organisms · low pH treatment whole organisms cleavage low pH treatment SRP254626 3.30
SRR11452229 whole organisms · low pH treatment whole organisms fertilized embryo low pH treatment SRP254626 3.04
SRR11452216 whole organisms · low pH treatment whole organisms fertilized embryo low pH treatment SRP254626 2.69
SRR11452253 whole organisms · low pH treatment whole organisms cleavage low pH treatment SRP254626 2.21
SRR11452225 whole organisms · extra low pH treatment pH treatment whole organisms planulae extra low pH treatment pH treatment SRP254626 66.98
SRR11452227 whole organisms · extra low pH treatment pH treatment whole organisms planulae extra low pH treatment pH treatment SRP254626 53.15
SRR11452226 whole organisms · extra low pH treatment pH treatment whole organisms planulae extra low pH treatment pH treatment SRP254626 43.45
SRR11452248 whole organisms · extra low pH treatment pH treatment whole organisms prawn chip extra low pH treatment pH treatment SRP254626 13.00
SRR11452244 whole organisms · extra low pH treatment pH treatment whole organisms prawn chip extra low pH treatment pH treatment SRP254626 8.64
SRR11452239 whole organisms · extra low pH treatment pH treatment whole organisms gastrula extra low pH treatment pH treatment SRP254626 6.05
SRR11452235 whole organisms · extra low pH treatment pH treatment whole organisms gastrula extra low pH treatment pH treatment SRP254626 4.13
SRR11452256 whole organisms · extra low pH treatment pH treatment whole organisms cleavage extra low pH treatment pH treatment SRP254626 3.52
SRR11452219 whole organisms · extra low pH treatment pH treatment whole organisms fertilized embryo extra low pH treatment pH treatment SRP254626 3.50
SRR11452257 whole organisms · extra low pH treatment pH treatment whole organisms cleavage extra low pH treatment pH treatment SRP254626 3.40
SRR11452261 whole organisms · extra low pH treatment pH treatment whole organisms fertilized embryo extra low pH treatment pH treatment SRP254626 2.66
SRR11452220 whole organisms · extra low pH treatment pH treatment whole organisms fertilized embryo extra low pH treatment pH treatment SRP254626 2.32

Source: CnidoSite RNA-seq expression matrices (MCAPI_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.

Co-expression network

Genes whose expression across the transcriptome samples of Montipora capitata 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 correlated40g9834.t10.988569527507057
Negatively correlated4g5003.t1-0.912463219547908

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 capitata, 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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