Gene detail

Detailed information of agem_s0017.g167.t1 in Acropora gemmifera

Genomic Location: sc0000017_pilon:2253357...2268136
NR annotation: XP_029192806.1, uncharacterized protein LOC114959073 [Acropora millepora]
Species Acropora gemmifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

agem_s0017.g167.t1

ATCAGGAGTTTCCGTCAACTGCAGATGATTTTCAGTAAGCACTGAAACGGCTACAACGCGGAAAACGGTTGATTAGACATACAAAACTACATCAATCATCGCAGTTTACGCTTAATAAGCTGTGTACGATCTGTCTGCGCAGCTATCTAGTACAAAAAAACAGAAAAAGATGCCTTTGGATACAGTTCTGTGTCTCGATACGTCAAGTTCTATGGGATGGAACAATGGCGAAGGCATTAACCAACTCAAGTCAGCAGCCTCGAAATTTATGGATGGAGTCGAAGAAACCGCGAGCCAAGCGGGCTTAAAGGAAAATATTGCGATCATTGAATTTGGCGCCAGGACACAAGTTCTCCATAATCTGTCGACGGACTACGCGGCAATTCGAAGAAAAATAGCTGGACTTCGAGCTAACGGGCGGACTCCAATGAAGGATGGCTTGCTAGCTGCGCTCAAAGAAATCGTCGCTAATGGAGGCGTGGTCAATGTCAATGGCCGAAAGCTGTGCCCACGTATAATTCTCATGACTGATGGCAAACCCACAGACGATGAAGGGCGAGAAACCGCAGGAGCCGTTAGTGAAGTTCTGGTTGCTGCCGTTTTGTTTGGAGCTCGATGGCAAGTAGTGGGCCTCCCGCACAAAATTCCAATTGCTTGTGTCGGTTGTGGAAATGCCGATAAGGATCTTTTGGAAAAAATTGCTGAAGTCACTGGAGGAATGTATGTCATGGTGCAAGACATGAACGAATTAAGCACCTTCTTCAAGAGACAAGTATTGTTGTCACGTTTCATTGCTAAATTTGCACATGACATGGCACAGCTCCGATCTCTCATGGCGCTACAGCAATTTATGCGTAGCCTGGGCGAGAATGTGGATGATGAGGAACTGCAACCTCTGATGACTTTGCTCTTGGCAATGATAGTAGCTGAAGGCGACGATGATGGAGATGATTCTAACGAGTATCCCAAACCCCCTCCCGTGGGTACACGAGTCCGTAGGGGCCCCCACTGGCAGTGGGGTGATCAAGATGGAAATGGCCCAGGTACTGTGGTCAAAACAGGTGAAACAGCAGGATGGGTTGATGTTCAGTGGGATAAATATGATAAGAAAAACTCTTACCGCTTTGGAAAAGATTCAAAATTTGATATTAAGGTTGTTGATGAGAACAGACGGGTCATCCTTGAACTTGAAGGAATTCAAGTTGGTTGCCGTGTGATCCGAGGTCCAAACTGGAAATGGGGAAACCAAGATGGCGGCGCTGGGAATATTGGTCGTGTTTTTGCTGTACGTAATGGGGTCGTAGAGGTACGCTGGCCCAACGGACACACCAACACTTATCGTCACGGCGCTGAAGGAGCTGTTGATGTTCTGATTCATCCTGCGGACCTAGTGACAATGGGAGGTCTCGGGGGAACACGAGGAAATCCTGCCTGTCAAGTGATGTAAGGCGGCGCTGATCAAATGCATAGCTGTCGTGTGGTAGATGTGGTTGCCGTTAATGCGAAATATCCGACGTATAATTTTGATTAGTGTGGGCATACATTATGTGTCTTAAATTAAGTGCGCCATAATGAGCCAAGGACCTGATTTTTTTGCAACTGTATGTGTGCGGAATAACTTTCCGTGTATTTTTTTGTACCTTAGAAAAAAAACCGTTTTTGGTTAGTTTGGTGGATCAATTTTTTCGACAAGTTTCCAACTTGGTGTTCTGCACGACATACGTGTTAATGGTTGTCGTcaggagcccatgaatcggagcccctatctcccccactgggtttgtaccccagcagaggagtagaacgagctattttttgcagtcctagctcaagtgaacaggagagcgattcaaatgaaagggtgagactttcgtcttcggatggattttcgagctcttctagcgactcaACATTAGGTCGAAAAAGGGAATGGaaccaaagttctgaagttacgaacttctggactcatttattcagcacatttgcatgagtgctagcaaccatggcaaccaatttttggcaaaaagactaaaactataaataaccttatttacccacgtgctggtgccctttatctttacgtatggaggctcctGTCACACATTCTACCAAGTTGAACTCTACCAATAAGAAAAACGGTGGGAAGCGTCCACTGACATTTCCATGGGCGTCAGTTTTTTTATTTTGATTTTGTTTTCAATGTTTTTTCTTTTAGCAAGTAGGAATAGCTCAGGTGAGTCGAGATGTCCGGCAACTAAAAGTTCTCCAAGAATTTTCGCCAACCGAAAACAATGGATTACTAAAAACAAAACATACAGCGAGTAGTTTGTAATGAGACACGGGGAAGAACTCAACAAAATTTGGTCTTATCAACAGTTAGTCGATAAAGTAACTTGGTCACCGTAACAAATGTTGGCCCTGTTCTAGATACCAACTATACCCTCAATCTGAATTGGCCCTGCTTAGAAAAGGTTTATCTTAAGAGCAATTTCCTAGATACGGATTAACAAAAAAAAAAAAGTAATTTGGAATTTGTTGCTGTTGTGGAGTCACTTTTCAACTACTGAAAACAAAAAACGTACATGGCAGCTTGTTTTACCAATTGATTGCTTTCAAGATTCACGTGGAGTATAATGCCTTCTCATCTTGAACAGAAGCTTTCCATTCTATTACGTCGTACgtgatataaaacccatctttagta

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5ZIJ9	E3 ubiquitin-protein ligase MIB2 OS=Gallus gallus OX=9031 GN=MIB2 PE=2 SV=1
Q68LP1	E3 ubiquitin-protein ligase MIB2 OS=Rattus norvegicus OX=10116 GN=Mib2 PE=1 SV=2
Q8R516	E3 ubiquitin-protein ligase MIB2 OS=Mus musculus OX=10090 GN=Mib2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009187 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00092 all species →	VWA	von Willebrand factor type A domain	Domain	Interproscan
PF06701 all species →	MIB_HERC2	Mib_herc2	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036465 all species →	Homologous_superfamily	von Willebrand factor A-like domain superfamily	Interproscan
IPR002035 all species →	Domain	von Willebrand factor, type A	Interproscan
IPR010606 all species →	Domain	Mib-herc2	Interproscan
IPR037252 all species →	Homologous_superfamily	Mib/herc2 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24202 all species →	E3 UBIQUITIN-PROTEIN LIGASE MIB2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0016567 all species →	Biological Process	protein ubiquitination	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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

No KEGG orthology assignment for agem_s0017.g167.t1.

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

Expression pattern (RNA-seq)

Transcript abundance of agem_s0017.g167.t1 across 48 RNA-seq samples of Acropora gemmifera. 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

3TPM > 0

1Conditions

616.1Max TPM

36.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
branch tip	48	3	36.02	616.13

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR3223317	branch tip	branch tip	not recorded	not recorded	SRP062488	616.13
SRR2169558	branch tip	branch tip	not recorded	not recorded	SRP062488	596.41
SRR3223319	branch tip	branch tip	not recorded	not recorded	SRP062488	516.30
SRR3169421	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169422	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169423	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169425	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169426	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169518	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169527	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169528	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169529	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169530	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169531	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169532	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169533	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169534	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169535	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169536	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169537	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169538	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169539	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169540	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3169541	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182410	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182448	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182557	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182684	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182685	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182686	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182775	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182776	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182777	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182778	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182779	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182780	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182781	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182784	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182785	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182786	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182787	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182788	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182789	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182790	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182791	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182792	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182793	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00
SRR3182794	branch tip	branch tip	not recorded	not recorded	SRP062488	0.00

Source: CnidoSite RNA-seq expression matrices (AGEMM_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.