Gene detail

Detailed information of XP_068744166.1 in Montipora capricornis

Genomic Location: chr1:38289636...38294135
NR annotation: XP_029179427.2, double-stranded RNA-specific editase 1-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138042241

ATGGCGGAAACATTAGAAGAGGTGACAACATGTGCAACCAAAAGTGATCCAGACATTGCTATCCCTGGTCTTGGAGACTTACCTGTCTCAAATCAACAAAGCTTAAAGCGGGAACATCAGTCAGAGGATGAAAATGCTGAAGTGACGGCCGTGGTAGATGCCATCGAGGCGCTGAAAGAAGAGGCAGATTCTGGGACGCCACCACCGAAAAAGAAACGGCGGTCAAACAAGAAAAAAGGTGGCAAACTTAGCTTGGACACTCAGAGAGCGACTAAGAACTCTTTAATGCTTCTCAACGAGATACGACCTGGTCTAAATTACCAAGTGGTCTCGCAGGAAGGTCCTACACATTGCCCCACTTTTGTAGTAAGTGTTGTTGTCGATGGGCACTCGTTTGAAGGGAGAGGTTTATCGAAGCAGAAAGCGAAACATAATGCAGCGGAAAATGCTTTCCGCTCTTTCATCACCCAAATGCGTACTCCAGCGAAGCGACTTCTTTCGGACAGCCAAGCTGAAATCGCGCAAAGGTTCGATACCGACTTCACCTCCGATAATACTGGTACACTGCTAAACAAATTTGGGAATGGCGATCAATCCTTTCCGGAGAGCGAAACTGAAGGTCCTGTATCCATGGCTACTGAATCGCGTAAAGGTGATCCCCCGCATTTGCAAACGGATTCAGGGAAGCATCCAGTTATGCTTTTGAACGAATTTCACCCAGGGCTCCAATATGAATTCCTCGGGGAAGAGGGTGATAAGAATAACAAACAATTCAGATTTAAAATCACTATTCAGGGTCAAGAATTTGTTGGAGTGGGAAGTAGCAAGAAGAAAGGCAAGGCCAATGTAGCTTCCAGGGTGCTATTTGCATTGCACAGTATCCGCACATTCTACTCATTCACTGGCCAGTCAGAGGCCAGAAGCCAACCCGTGTACCTTGGACCGCCACCATCTGCACAGCTTGATCAGGTAGCGGCAGACCTCATTGCTGATGCTGTGCTAGCCAAATTTCAGGGTCTTCAGTCCACTTCAGGAGATGAACCACTTCGCCGCAAAGTGTTAGCCAGCATTGTCATGACAAGTCGTGGAGACAGCGATCAAAAGTTTGAAGTGATAAGCTTAGGTACAGGAACAAAGTTTATCAGTGGTGAATACATGAGTGACCAAGGGTTAGCTGTCAATGACTGCCATGGAGAAATCATTGCAAGAAGATCGTTCTTGCGATTTTTGTATTCGCAACTGGAGCTTTGTGCAGAAGGATATGAAGAAGATTCCATATTTGAGAAGAAGGACAGTGGATTGTTTGGTTTGAGAGACAATGTTGAATTCCACTTGTATATCAACACCTCTCCCTGTGGTGATGCTCGTATCTTCTCTCCACATGAAGCAGTTAGGGGTGAGGTTGATAAGCATCCTGGTAGGAGAAAAAGGGGTCTTCTTCGTGTCAAACTGGAAAATGGCGAAGGTACGATACCAGCAATAAATGGTGGCACCACTATCCAAACTTGGGATGGTGTCCTTCAGGGAGAACGCCTCCGCACCATGTCATGTTCAGACAAACTTTGCCGGTGGAATGTAACTGGCATTCAAGGCTCTCTTCTCAGCCACTTTTTGGAGCCAGTTTATCTCCAATCAATTGTTCTTGGCAGCTTGTACCACTATGAACACATGTCCAGAGCTATGTACCAGAGGCTTGGGGATTTGGAGGGTTTGCCACCTCTCTTCAAACAGAACCGACCTTTAATGAATGGTACATCCACTCCAGAAGCCCGTGTGACAATTAAGTCCCCAGGTATCAGTGTAAACTGGAGCGAAGGCGAAGATGGCTTTGAAGTGGTAAACGCAATGACAGGAATGGTTCAAGGAGATGTACCTGTACCGTCAAGGGTCTGCAAACAGAGTCTCTTCAAACTCTTTATTGGTTTGTGGAAGAAGCTGAAGCCATTGGAACCTGTGCCCTTGTCATACCATGAAGCGAAAAAAGCAGTAACAGACTATCAAAAGGCTAAGCAAATTGTGATGGAAGGATTTAATGGTCAAGGTCTTGGTGCATGGATCAGAAAACCATTTGAACAAGACATGTTTGAACTCACAGACAAAGATAATTAA

Transcript

rna-XM_068888065.1

gttcaagatggcggaaaCATTAGAAGAGGTGACAACATGTGCAACCAAAAGTGATCCAGACATTGCTATCCCTGGTCTTGGAGACTTACCTGTCTCAAATCAACAAAGCTTAAAGCGGGAACATCAGTCAGAGGATGAAAATGCTGAAGTGACGGCCGTGGTAGATGCCATCGAGGCGCTGAAAGAAGAGGCAGATTCTGGGACGCCACCACCGAAAAAGAAACGGCGgtcaaacaagaaaaaaggtGGCAAACTTAGCTTGGACACTCAGAGAGCGACTAAGAACTCTTTAATGCTTCTCAACGAGATACGACCTGGTCTAAATTACCAAGTGGTCTCGCAGGAAGGTCCTACACATTGCCCCACTTTTGTAGTAAGTGTTGTTGTCGATGGGCACTCGTTTGAAGGGAGAGGTTTATCGAAGCAGAAAGCGAAACATAATGCAGCGGAAAATGCTTTCCGCTCTTTCATCACCCAAATGCGTACTCCAGCGAAGCGACTTCTTTCGGACAGCCAAGCTGAAATCGCGCAAAGGTTCGATACCGACTTCACCTCCGATAATACTGGTACACTGCTAAACAAATTTGGGAATGGCGATCAATCCTTTCCGGAGAGCGAAACTGAAGGTCCTGTATCCATGGCTACTGAATCGCGTAAAGGTGATCCCCCGCATTTGCAAACGGATTCAGGGAAGCATCCAGTTATGCTTTTGAACGAATTTCACCCAGGGCTCCAATATGAATTCCTCGGGGAAGAGGGTGATAAGAATAACAAACAATTCAGATTTAAAATCACTATTCAGGGTCAAGAATTTGTTGGAGTGGGAAGTAGCAAGAAGAAAGGCAAGGCCAATGTAGCTTCCAGGGTGCTATTTGCATTGCACAGTATCCGCACATTCTACTCATTCACTGGCCAGTCAGAGGCCAGAAGCCAACCCGTGTACCTTGGACCGCCACCATCTGCACAGCTTGATCAGGTAGCGGCAGACCTCATTGCTGATGCTGTGCTAGCCAAATTTCAGGGTCTTCAGTCCACTTCAGGAGATGAACCACTTCGCCGCAAAGTGTTAGCCAGCATTGTCATGACAAGTCGTGGAGACAGCGATCAAAAGTTTGAAGTGATAAGCTTAGGTACAGGAACAAAGTTTATCAGTGGTGAATACATGAGTGACCAAGGGTTAGCTGTCAATGACTGCCATGGAGAAATCATTGCAAGAAGATCGTTCTTGCGATTTTTGTATTCGCAACTGGAGCTTTGTGCAGAAGGATATGAAGAAGATTCCATATTTGAGAAGAAGGACAGTGGATTGTTTGGTTTGAGAGACAATGTTGAATTCCACTTGTATATCAACACCTCTCCCTGTGGTGATGCTCGTATCTTCTCTCCACATGAAGCAGTTAGGGGTGAGGTTGATAAGCATCCTGGTAGGAGAAAAAGGGGTCTTCTTCGTGTCAAACTGGAAAATGGCGAAGgTACGATACCAGCAATAAATGGTGGCACCACTATCCAAACTTGGGATGGTGTCCTTCAGGGAGAACGCCTCCGCACCATGTCATGTTCAGACAAACTTTGCCGGTGGAATGTAACTGGCATTCAAGGCTCTCTTCTCAGCCACTTTTTGGAGCCAGTTTATCTCCAATCAATTGTTCTTGGCAGCTTGTACCACTATGAACACATGTCCAGAGCTATGTACCAGAGGCTTGGGGATTTGGAGGGTTTGCCACCTCTCTTCAAACAGAACCGACCTTTAATGAATGGTACATCCACTCCAGAAGCCCGTGTGACAATTAAGTCCCCAGGTATCAGTGTAAACTGGAGCGAAGGCGAAGATGGCTTTGAAGTGGTAAACGCAATGACAGGAATGGTTCAAGGAGATGTACCTGTACCGTCAAGGGTCTGCAAACAGAGTCTCTTCAAACTCTTTATTGGTTTGTGGAAGAAGCTGAAGCCATTGGAACCTGTGCCCTTGTCATACCATGAAGCGAAAAAAGCAGTAACAGACTATCAAAAGGCTAAGCAAATTGTGATGGAAGGATTTAATGGTCAAGGTCTTGGTGCATGGATCAGAAAACCATTTGAACAAGACATGTTTGAACTCACAGACAAAGATAATTAAGAAAGTACCAGCTTTGTTTTTCTAGACATTGATGAAGGGattgtttttttcattacaGTGTAATGAGAGAACATTTTACAACCTTGCCATCATTTCTATAAAGCAAACTGCATTTTACTGATGCAATTTCCCCAAGGTGTAATTGCTTAAAAGGCACATTTCCTAgttgtttttttaacattttgggATACTTTGTCAGCTTGACTCTGCCGAGAAAACACCCAGCATAAAAGTAGAAGAACAAGCAAAACATGTCACAAGCATTGGCCATCCAAAGTAGTATTTTGTGTGCCCGCAAAGTTAGAaacttttttaaagttattgtaggACAATTGCAGGTACAAGTTTTTCATTCTCAGTGCATGCTTTTCACAAAGATCTAACTCTAAAGCCAGTGGCTCACTTCAATCCAAAGGTTGCTGTTAACTGTGTTTTGTAAATGTTTGAGTTTAGTCAAGCAAATCACTTAGTTTAGCACTTGTAAGACTCAATGACTCTTGACAATGCGTTTATTGCTCTAGTAAAATTTCAGCACCATCAAAATTATATCTTGCCTTTTAAAACCAAGCTGCATAAGTTGGCAGGCATTTGTCTCACAGCCAAGCTAGTGAGAGGAATGGAGCCATTCCTGAGATTAATTACATCTAGCTTTTATTTTTGATAGAGTTTTGCCCTGCAGACCTTTTTTGGCCACATGTCAGGGATAGACTCATGCCTTTACAAGCtcattcattaatttttgttcaatGGATGCTTATTTTACAATTTGCACATGAAGGAAAAGTTAAGAGGAAAAGGTGAATAATCATTATGTTTATCTTTTGGTATTTGATTCACTTGCAGAGTGTTCTAGTTTCTCACTAATTTGATCATAGAGACCTTGAGATTTTAGGAAGAGAATGAGTATGAgatttagcgaaaatacttagaaaatttataaccaggacaattaatcttactctttgttagcaatataggttgctcagttgtTCTTATTGCTTAGGGTTTAATAGCAAGtgtacattttttaattttagtagTGGTATTAGAATGCTCATTTCAGGGAAACTCTTTCGGTTGCCTCTTATGTAAATATTTGGATGTTTTAGCAAAGCTGAGTTAAGATAAAGGTTGTTATTGGAAAAGCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q91ZS8	Double-stranded RNA-specific editase 1 OS=Mus musculus OX=10090 GN=Adarb1 PE=1 SV=1
P51400	Double-stranded RNA-specific editase 1 OS=Rattus norvegicus OX=10116 GN=Adarb1 PE=1 SV=1
P78563	Double-stranded RNA-specific editase 1 OS=Homo sapiens OX=9606 GN=ADARB1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001415 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00035 all species →	dsrm	Double-stranded RNA binding motif	Domain	Interproscan
PF02137 all species →	A_deamin	Adenosine-deaminase (editase) domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR014720 all species →	Domain	Double-stranded RNA-binding domain	Interproscan
IPR002466 all species →	Domain	Adenosine deaminase/editase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10910 all species →	EUKARYOTE SPECIFIC DSRNA BINDING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004000 all species →	Molecular Function	adenosine deaminase activity	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0003725 all species →	Molecular Function	double-stranded RNA binding	Interproscan
GO:0003726 all species →	Molecular Function	double-stranded RNA adenosine deaminase activity	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006382 all species →	Biological Process	adenosine to inosine editing	Interproscan
GO:0008251 all species →	Molecular Function	tRNA-specific adenosine deaminase activity	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
K13194	ADARB; double stranded RNA-specific editase B	EC:3.5.-.-	Spliceosome	ko03041	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_068744166.1 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

30TPM > 0

1Conditions

52.1Max TPM

31.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	30	31.09	52.14

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	52.14
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	51.76
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	51.69
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	50.58
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	50.37
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	49.71
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	49.26
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	49.03
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	49.01
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	43.59
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	40.95
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	39.33
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	39.18
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	39.09
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	38.72
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	37.77
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	36.57
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	35.42
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	35.36
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	34.44
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	33.77
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	33.49
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	31.62
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	26.59
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	23.48
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	22.19
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	20.40
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	19.77
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	17.49
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	16.62
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
SRR12963484	Polyps	Polyps	E3 day0	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.