Gene detail

Detailed information of asel_s0001.g167.t1 in Acropora selago

Genomic Location: sc0000001_pilon:1922460...1925513
NR annotation: XP_029189168.2, rhomboid-related protein 4-like isoform X1 [Acropora millepora]
Species Acropora selago · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

asel_s0001.g167.t1

GTACAGGAAATGGCTGACGAAGTACTTTTTAAAATCAAATGCAAGATTGACACGCCAGTAAGACTTGCGTATTAAGTTCATAAAGTGATAGTTCACAGTCTTGTATTTGAAAATCAGTGGTGCAACCAAGAAAAGAGAGGAAACTTTGGGATTTGATCGGACTAAGTCGGCGCCATGTTTCAGAGAAGAAGAAGGGCTCCTGGAATTGGCTTGTTATTTTTAATAGGTCAGCTTTATAACATTGGATTTAACCGAATCCCTCCTATTACACTGTCTTTCATAGGAATAAACGTTGCCGTTTATCTCAGATTACTAAATAATCTTCCATCCCGTGGAAAAGCTTGCGTGAGCGCCCATTATGTTTGGTTTAGTGGAGACTGGAGAAGACTCATCCTTGCAACGTTTTATCACTCTGACGACCTTCATCTGTACTTCAACATGGCATCTTTTGTGTGGAAAGGTATATCCCTTGAGAAACGAATGGGCAGTGCAAAGTTTCTGTACATCCTTTCAGTGTTCGCTCTCTTAACCAACACCCTTCTTGTTGGCCTTGATCTCACTCTTGCCAACATAACTGAAGACCCTTCCTATATCTACACGTGTGCTGCTGGATTTTCAGGAGTTATTTTCGCCCTGAAAGTTTTGACAACTTACAACCTCCCCTATGGTGTTTCCATGGTAATGGGGATATTCCCTGTGCCAATGAAGTGGGCCTGCTGGGTAGAACTGATATTGATTCAGTTACTTGTTCCCAACGCCTCGTTTACTGGCCATCTGGCAGGTATTTTGGTTGGGCTGATGTACGTCAAGGGTCCTCTAAAGAGAGTCATGGATATAGTGAGTGGTTCAGGCTCAGGAGTCACACAACGAATGGGAAGATCTTATACTTACCATGCAGGAGTGACAGGAAGACGGCATGATTCAGTTGACCCTGAAGATGAAGCACTTCAGCAGGCTATAAGGGCAAGTCTCAGAGAGACACACATGACTGGATCGTCAACATCATATGGCTATGATCCCAGAGGACAGACTGCTGTAAGAGGTGGCCTGGATAATGCTGCTAGTGGTGAGCCAGCCGGAAACTCCAATACTTCAAGGGCTCAAAGGCAAGGCCCATCTACAGTACCACCCCAATCTGACATTGATGACTACTATGGAAGTGGCAGTTTACCTTACCCCATACATGGAGAGGGCCTATATCCCAGGCTCCCAAATCCCTACAGTGATGCTGAATATTTACAGCGTCCAACCAACCCCCCACAAGGAGATGGACTGTATCCTAGGATACCTAAGCCATCAGCTCCACCAGCGGAACACGTAGGCAATGGCTACCTAGCAAGCACATTACCATGCCCTAGTGAAAGCCGAATGCCTGACCCTTCCAACTTAGATGAAGTTAGGAGAAGGAGAATTCAGCGCTTTGAAAGATAACTCCTGCAGCTCTCTTTGCATTGTGAAAAGAATGATATATCACAGGTACAATCCACAGCAGAGTTGCACAGGATGTGATAGAACACACATACTCTTCAAAAATAGTTGGGCATAACTACACTTTCTTGTGGTCTGTTACTTCTGAACTGAGAGCACCTGCTATTCCCATAAATAATTATTGTAGTTATTATATGGGCTTATTGAGACCCCTAAACCTAGATCCTGTGCCCACACTTTAGCATAATAAAAAAGAAAAGACAATGGGTTTGAGTGAGCCTATATAACCACATTTCTTTGGTTAAAAAGCTTCATTTTGCGGTCGTCTTCTTCATTAGCGGGCAACGAAGGAGCGCGCTCTCTAATCCGGTCTGCCATCTTGGGATTGATGGAGAAAACACTGGGAACGAGTTTAGCATATCGCCCACTGCGTGTGAACCCAAAATGATTGCCAGGAAAATAACAGCTTTACTGTCCAATGGCGTTTCTTGTTATGATATTAAGATGGTTCCTGTTATTGTCACTTTTTAAAACATCACAGTGCCATCAGAAATTTCTCTTTGAATCGCTTTCTTTCGCTGTCTTTACTCTTTTAGAGGAAATTAGTGGTTGGTAAGGACATGCGAAGGAAAAAAAAAAGAGTGATCTTTTCCTTTTTAACAGCGGAAAATTGTGTGTTTTCCGCAAAGAAACGCTTTTTCGTACTTCTCTGTCGCTACTTTGAATAAAATTCGTACTTGTAT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8TEB9	Rhomboid-related protein 4 OS=Homo sapiens OX=9606 GN=RHBDD1 PE=1 SV=1
Q5RBS4	Rhomboid-related protein 4 OS=Pongo abelii OX=9601 GN=RHBDD1 PE=2 SV=1
Q8BHC7	Rhomboid-related protein 4 OS=Mus musculus OX=10090 GN=Rhbdd1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007605 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01694 all species →	Rhomboid	Rhomboid family	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022764 all species →	Domain	Peptidase S54, rhomboid domain	Interproscan
IPR035952 all species →	Homologous_superfamily	Rhomboid-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43066 all species →	RHOMBOID-RELATED PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004252 all species →	Molecular Function	serine-type endopeptidase activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	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
K09651	RHBDD1, RHBDL4; rhomboid-related protein 4	EC:3.4.21.105	Peptidases and inhibitors	ko01002	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of asel_s0001.g167.t1 across 24 RNA-seq samples of Acropora selago. 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.

24Samples

21TPM > 0

1Conditions

10.0Max TPM

6.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
coral larvae	24	21	6.14	9.96

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR14308027	coral larvae	coral larvae	not recorded	not recorded	SRP315987	9.96
SRR14308015	coral larvae	coral larvae	not recorded	not recorded	SRP315987	9.69
SRR14308026	coral larvae	coral larvae	not recorded	not recorded	SRP315987	9.18
SRR14308012	coral larvae	coral larvae	not recorded	not recorded	SRP315987	9.01
SRR14308017	coral larvae	coral larvae	not recorded	not recorded	SRP315987	8.53
SRR14308013	coral larvae	coral larvae	not recorded	not recorded	SRP315987	8.09
SRR14308024	coral larvae	coral larvae	not recorded	not recorded	SRP315987	7.63
SRR14308006	coral larvae	coral larvae	not recorded	not recorded	SRP315987	7.51
SRR14308021	coral larvae	coral larvae	not recorded	not recorded	SRP315987	7.34
SRR14308010	coral larvae	coral larvae	not recorded	not recorded	SRP315987	7.26
SRR14308004	coral larvae	coral larvae	not recorded	not recorded	SRP315987	7.23
SRR14308014	coral larvae	coral larvae	not recorded	not recorded	SRP315987	6.44
SRR14308022	coral larvae	coral larvae	not recorded	not recorded	SRP315987	6.39
SRR14308008	coral larvae	coral larvae	not recorded	not recorded	SRP315987	6.32
SRR14308016	coral larvae	coral larvae	not recorded	not recorded	SRP315987	6.15
SRR14308019	coral larvae	coral larvae	not recorded	not recorded	SRP315987	5.94
SRR14308025	coral larvae	coral larvae	not recorded	not recorded	SRP315987	5.34
SRR14308007	coral larvae	coral larvae	not recorded	not recorded	SRP315987	5.24
SRR14308011	coral larvae	coral larvae	not recorded	not recorded	SRP315987	5.15
SRR14308023	coral larvae	coral larvae	not recorded	not recorded	SRP315987	5.03
SRR14308020	coral larvae	coral larvae	not recorded	not recorded	SRP315987	3.89
SRR14308005	coral larvae	coral larvae	not recorded	not recorded	SRP315987	0.00
SRR14308009	coral larvae	coral larvae	not recorded	not recorded	SRP315987	0.00
SRR14308018	coral larvae	coral larvae	not recorded	not recorded	SRP315987	0.00

Source: CnidoSite RNA-seq expression matrices (ASELA_TPM, StringTie quantification over 24 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.