Gene detail

Detailed information of g8006.t1 in Montipora capitata

Genomic Location: Sc0000190:179132...209442
NR annotation: XP_044164523.1, FAS-associated factor 1-like isoform X3 [Acropora millepora]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g8006.t1

atggccggtgacggagaccgggagatggtgctcgcgaatttccagagtataacgggaatcgataacctcgacgaatgtataacacttcttgaccattatgactgggatctaacggcttgtgtgaattcagtcatggccgatgaaacggactctcctctacgtttgccggttgctgttccagtcgatgaccattctcctgttactgaccagtccttaattccatctgtggcttcagtttctgttggagatattgttgggagatcaattcctgttcaaaaccctccaagaagaatcaagttcttaattgagtggagagatcgcaccatccctattgtgttagatgacaatgagacattaggcacaataaaacgaatgctggagatgcaacttgacatacctgtgagtcaacaaagcctcctgggatggccaagtcacctgcagctaagtgatgatagtgttttaagtaccttaaacttacgagaagagacagctctagttctaatcaatcgtgcagtgacaaggacacctaaagagagtcagccatgtatggtgaggagaaccatgaatggcgaaatcagctcagcttcaaaaagcagtaactcctttgagaagatcatgttgaacatacagtgtggaagcagagagtttaaccttccttatgttgtcacaaagacagtaggagaggtgaaagcagatatcctctctttatcaggcgttccttgtcggcatcagtgttggacaggctggccagttgatgtcactgatgatatgcaccttcaagatgctaacttatcctttccagtgcacagtttaacagtgggaagaagtgaaaaggaaagatcaccagattatcataaggccagtacctcaaagacaagacatacggatgtagaaatggatgtaaatgatgacagtagtgacaatgaggatacatcttttcaagttgatgatgatgagatgttttgcgacattccagcagcaaggagacaaataaatgaaatgctggcaaatgactgttctgatacagctgaaaatttggttaagtttactgctgagttcgaagaaaggtatggagaagcacacccccatttttacatgggcccacttacagaagcaatcaaggaatctggaggtgcttctgctaaagagagaagacctctgctcatttatcttcatcatgatggcagtatattaacaaatgtattttgcagccaacttatttgctccgaaacaattgtgaactacatcagtagcaattttgttgtctgggcttgggacatgacacatgatacaaataggacaaggtttttagatatggtgatgcagcattttggtagcgtggcagcaagcacggttcgtggatttggggctgaacagtatccccttctcatagttggtttaaaaaacagatcagccatggaaatatgttcagttattcaaggttcagtgacccttgatgaacttatgactggacttatgagtgcacatgacacatttcaacaagcaatggacattgaaatcagagaggaggaagaaagagaagccagggaactcgtcaagaaagagcaggatgaggcataccaggcctcacttcgtcaagacaaagcaaaggctgaagaaaagaggagacaggaagaagaagaaatactttcaaaaaagcttcacgaagagcaagctttgcacgaagctcagcttaaagaggcgcaacggttgtctttgatggatcaccttccttcagagcccgcgtccgactgcacagcgcctgtttccaaccttcggtttagacttcctaacggagacactctcacaagaagattcctcgctactaatccacttcaggttgtcttgacctttgttcagacaaaaggatatctggacaatgaatataaagtggtgacaaacttccctcggagagatctttctgcgctggatacaatggaatccttacaggcgcttgggctttatccacaagaaactatttttgttgaagaacgctga

Transcript

g8006.t1

ATGGCCGGTGACGGAGACCGGGAGATGGTGCTCGCGAATTTCCAGaGTATAACGGGAATCGATAACCTCGACGAATGTATAACACTTCTTGACCATTATGACTGGGATCTAACGGCTTGTGTGAATTCAGTCATGGCCGATGAAACGGACTCTCCTCTACGTTTGCCGGTTGCTGTTCCAGTCGATGACCATTCTCCTGTTACTGACCAGTCCTTAATTCCATCTGTGGCTTCAGTTTCTGTTGGAGATATTGTTGGGAGATCAATTCCTGTTCAAAACCCTCCAAGAAGAATCAAGTTCTTAATTGAGTGGAGAGATCGCACCATCCCTATTGTGTTAGATGACAATGAGACATTAGgCACAATAAAACGAATGCTGGAGATGCAACTTGACATACCTGTGAGTCAACAAAGCCTCCTGGGATGGCCAAGTCACCTGCAGCTAAGTGATGATAGTGTTTTAAGTACCTTAAACTTACGAGAAGAGACAGCTCTAGTTCTAATCAATCGTGCAGTGACAAGGACACCTAAAGAGAGTCAGCCATGTATGGTGAGGAGAACCATGAATGGCGAAATCAGCTCAGCTTCAAAAAGCAGTAACTCCTTTGAGAAGATCATGTTGAACATACAGTGTGGAAGCAGAGAGTTTAACCTTCCTTATGTTGTCACAAAGACAGTAGGAGAGgtGAAAGCAGATATCCTCTCTTTATCAGGCGTTCCTTGTCGGCATCAGTGTTGGACAGGCTGGCCAGTTGATGTCACTGATGATATGCACCTTCAAGATGCTAACTTATCCTTTCCAGTGCACAGTTTAACAGTGGGAAGAAGTGAAAAGGAAAGATCACCAGATTATCATAAGGCCAGTACCTCAAAGACAAGACATACGGATGTAGAAATGGATGTAAATGATGACAGTAGTGACAATGAGGATACATCTTTTCaagttgatgatgatgagatgTTTTGCGACATTCCAGCAGCAAGGAGACAAATAAATGAAATGCTGGCAAATGACTGTTCTGATACAGCTGAAAATTTGGTTAAGTTTACTGCTGAGTTCGAAGAAAGGTATGGAGAAGCACACCCCCATTTTTACATGGGCCCACTTACAGAAGCAATCAAGGAATCTGGAGGTGCTTCTGCTAAAGAGaGAAGACCTCTGCTCATTTATCTTCATCATGATGGCAGTATATTAACAAATGTATTTTGCAGCCAACTTATTTGCTCCGAAACAATTGTGAACTACATCAGTAGCAATTTTGTTGTCTGGGCTTGGGACATGACACATGATACAAATAGGACAAGGTTTTTAGATATGGTGATGCAGCATTTTGGTAGCGTGGCAGCAAGCACGGTTCGTGGATTTGGGGCTGAACAGTATCCCCTTCTCATAGTTGGTTTAAAAAACAGATCAGCCATGGAAATATGTTCAGTTATTCAAGGTTCAGTGACCCTTGATGAACTTATGACTGGACTTATGAGTGCACATGACACATTTCAACAAGCAATGGACATTGAAATCAGAGAGGAGGAAGAAAGAGAAGCCAGGGAACTCGTCAAGAAAGAGCAGGATGAGGCATACCAGGCCTCACTTCGTCAAGACAAAGCAAAGGCTGAAGAAAAGAGGAGacaggaagaagaagaaatactTTCAAAAAAGCTTCACGAAGAGCAAGCTTTGCACGAAGCTCAGCTTAAAGAGGCGCAACGGTTGTCTTTGATGGATCACCTTCCTTCAGAGCCCGCGTCCGACTGCACAGCGCCTGTTTCCAACCTTCGGTTTAGACTTCCTAACGGAGACACTCTCACAAGAAGATTCCTCGCTACTAATCCACTTCAGGTTGTCTTGACCTTTGTTCAGACAAAAGGATATCTGGACAATGAATATAAAGTGGTGACAAACTTCCCTCGGAGAGATCTTTCTGCGCTGGATACAATGGAATCCTTACAGGCGCTTGGGCTTTATCCACAAGAAACTATTTTTGTTGAAGAACGCTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P54731	FAS-associated factor 1 OS=Mus musculus OX=10090 GN=Faf1 PE=1 SV=2
Q9UNN5	FAS-associated factor 1 OS=Homo sapiens OX=9606 GN=FAF1 PE=1 SV=2
Q924K2	FAS-associated factor 1 OS=Rattus norvegicus OX=10116 GN=Faf1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006346 (this species only) · gene tree & orthology
Ubiquitin family	ULD\|UFD/UBQ\|UBQ_Other · all ubiquitin genes in this species
Ubiquitin family	ULD\|UFD\|UBX · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00789 all species →	UBX	UBX domain	Domain	Interproscan
PF14555 all species →	UBA_4	UBA-like domain	Domain	Interproscan
PF21021 all species →	FAF1	Fas-associated factor 1	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001012 all species →	Domain	UBX domain	Interproscan
IPR033043 all species →	Domain	FAS-associated factor 1-like, UBX domain	Interproscan
IPR029071 all species →	Homologous_superfamily	Ubiquitin-like domain superfamily	Interproscan
IPR036249 all species →	Homologous_superfamily	Thioredoxin-like superfamily	Interproscan
IPR006577 all species →	Domain	UAS	Interproscan
IPR050730 all species →	Family	UBX domain-containing protein	Interproscan
IPR049483 all species →	Domain	Fas-associated factor 1/2-like, UAS domain	Interproscan
IPR044541 all species →	Domain	FAF1, UBA-like domain	Interproscan
IPR000626 all species →	Domain	Ubiquitin-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23322 all species →	FAS-ASSOCIATED PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005783 all species →	Cellular Component	endoplasmic reticulum	Interproscan
GO:0030433 all species →	Biological Process	obsolete ubiquitin-dependent ERAD pathway	Interproscan
GO:0043130 all species →	Molecular Function	ubiquitin 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
K20703	FAF1; FAS-associated factor 1	-	Toll and Imd signaling pathway	ko04624	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g8006.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

104.9Max TPM

38.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	41.21	104.94
whole organisms · low pH treatment	15	15	33.63	82.63
whole organisms · extra low pH treatment pH treatment	12	12	40.22	97.82

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	104.94
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	97.72
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	75.68
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	74.62
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	69.52
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	46.05
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	43.21
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	41.44
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	40.96
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	40.60
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	31.74
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	31.71
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	28.88
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	26.63
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	25.35
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	22.92
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	22.27
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	21.36
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	8.95
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	5.63
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	5.24
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	82.63
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	72.71
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	71.12
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	39.16
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	35.93
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	35.12
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	30.56
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	29.35
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	26.57
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	25.31
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	20.99
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	19.71
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	6.99
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	4.33
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	3.90
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	97.82
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	86.36
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	57.42
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	42.12
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	38.11
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	37.89
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	30.07
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	28.30
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	27.46
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	25.94
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	5.75
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	5.42

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.