Gene detail

Detailed information of XP_068720952.1 in Montipora capricornis

Genomic Location: chr9:19709055...19761575
NR annotation: XP_029193800.2, exosome complex exonuclease RRP44-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138017870

ATGACATCAAACAGCGACAGAAAATTCTTCGTGTTTTCAAATGAGCACCACAGAGAAACATACATAGAAAGAGGAAAAGATGAATCTCCAAATGACAGAAATGACAGAGCAATCAGGGTTGCTGCAAGCTGGTACAACAAACATTTAAAAGAATGTGATGGTGGCAGTGATGATGATACTAGGGTAAGGATTGTTCTTCTCACGAATGACAAAGCAAATAAAGAGAAGGCAGAGAAAGCTGGAATTATTAGCTTTACAGCTCGTGAGTATGTTGAAAGCTTTGAAGGATGTGAGGGATTAGCAGACCGACTGGCACTCCAGGCTGAAACTGGACAAGATCAGGTAGATGACAAGAAAAGGGGAAAGCTGGTTTATCCTGAGCACCTTCCTCTCACAAGAATTCAAGCTGGACTCAAAGGTGGAAGGTATCTTCAGGGTACTTTTCACCGAAGTAGGGAAAACTATACTGAAGCTTATGTCTTTGTGCACAATGGAGATAAACAGGTGTTCATTCAAAGTCTAATGAATCTCAACCGTGCAGTTCATGAGGATATTGTTGCAGTCGAGATCTTGCCGAAAAGTCAGTGGACTTGTCCATCATCTGTTGTCACCACAACATTGACTGAAAATGAAAAGGAAGATGATGATGATGTTGATGATGATGATGAAGATGTTGATAAAAATAATGACCATCTGAAGTTGAATGGAGGCAGCAAAAACAAGGTGCTATCAGGAAAAGTTATTGGAATCATAAAGAGGAACTGGCGACCATATTGTGGTGTCCTTTCCAAGTCGTCAAAACCACAGGGTACGAGACATCTGTTCATAGCTGCTGAGAGAAGAATTCCCAGGGTCACCATTGAAACTAGACAAGCGTCAGCCCTAGAGGGGCAGAGAATTGTGGTTAGCATTGACTCTTGGCCTCAGAATTCTAAATATCCTGTGGGTCACTTTGTCCGAAAGCTGGGGGCCATTGGTGACAAGGAAACCGAGAACGAAGTGTTGCTTTTAGAGCGAGATGTGCCACACTTACCTTTCTCAGCTGCAGTACAAAAGGACCTTCCCGTCATGCCATGGGCCATCACGGATGAGGATGTGGAAAGTCGTTTGGATCTTCGCCATGTTGCAGTTTGTAGCATTGATCCCCCTGGTTGTACGGATATCGATGATGCTTTGCACTGGAGATTACTGGAGAGTGGAAATTATGAGGTTGGTGTGCATATAGCTGACGTGACACATTTTATCAGACCAGGGACATCTCTGGATGATGAAGCAGCCAATAGGGGTACCACAGTCTATCTCACGGATAAGCGAATTGACATGGTACCTGGTCTTCTCAGCTCAGATCTTTGTTCTTTGAGATGCAATGTTGACAGACTGGCATTTTCCTGCATATGGCAAATGACTCCACAAGCTGAGATTGTCTCAACAAAGTTCACAAAAAGTATTATCTGCTCAAGGATGTCCTTCACATATGCTGAAGCTCAAATGCGAATTGATGATCCAAGTCAAAAGGACGAAATCACAGTGAGTCTCAGGCATCTCAACGAGCTCGCAAAGATCTTGAAAGGAAGGAGAATTGAGCAGGGGGCTCTGACTCTTGCGTCACCGGAAGTTCGTTTTCACATCGATAGCGAGACACACGACCCAGTGGATCTTCAAACAAAGGAACTTAAGGAAACCAACTCTCTTGTTGAGGAGTTCATGTTGCTGGCCAATATTTGTGTGGCGAAGAAAATCTTTCAACAATTCCCAGAGTTTGCTCTTTTAAGAAGGCACCCCTCACCACCTCCCGCCAACTACGATGTCTTGGTGAAGGCTGCTCTCTCAAAGGGATTTCATATCGACGTGGATAGCGCCAAGTCCCTCGCAACGTCCTTGGAATCCGCTCATATTCCGGACGAGCCATACTTCAACACACTTCTTCGTATCATGGCAACGCGTAGCATGATGCAAGCACTTTACTTCTGTTCGGGCATGCTCGGTGAAGAAGACTTCCTTCATTATGGTTTGGCGACTCCAATCTACACACATTTTACTTCTCCTATCAGAAGATATTCCGACATCATGGTTCACCGCTTGTTAGCGGTCGCCATCGGTGCCTTCGGTTCATACCCCGATCTTTTAAACAAAGACAAGACGCAGAAACTCTGTAATCATCTGAATTTCCGTCACAGAATGGCCCAGTATGCATCTCGGGACTCCATTGATTTGCATTGCCAGCTGTTTTTCCAAAATAAGGCGATAACAGAGGAAGAAGCATTCGTTCTTTTTGTCCGTAAGAATGCGATTCAAGTTTTAATTCCAAAGTATGGACTGGAGGGAACAGTTTTCATGGCAAAAGATGCGACAGGAGTTGTGTTCAACGAAGAGGAACCGTCTCTCAAAATTGGTGACGTCACCTATAGATTGTTTGACCGAGTGTTGGTGAAAATAAACGTCAACAAGTCGTCAACGGAAAACAAGTTTTTATCGTTCAGCCTAATTTCGAGAAAGGAAAACAGTGTAGGTGATGGTGAAGAACCACTCTCTAAGAAAGCGAAGCTTAGTTAA

Transcript

rna-XM_068864851.1

TAAGAATTGTGTCCAATCAGTGGATCACGAGAATTTACTTGATTCTACTCCATCAAGCTCGTCTAAACTCTGCACCTTTCCATACTACTTACTTCTGGATACAAACATTGTGCTGCATCAGATGTTCTCGAAGATCCAATCTTCAGAAATGTCATAATTTTACAAACTGTTTTGCAAGAGGTTCAACATATCAACAGCGCCATATACAAGAGAATTCGAGACATGACATCAAACAGCGACAGAAAATTCTTCGTGTTTTCAAATGAGCACCACAGAGAAACATACATAGAAAGAGGAAAAGATGAATCTCCAAATGACAGAAATGACAGAGCAATCAGGGTTGCTGCAAGCTGGTACAACAAACATTTAAAAGAATGTGATGGTGGCAGTGATGATGATACTAGGGTAAGGATTGTTCTTCTCACGAATGACAAAGCAAATAAAGAGAAGGCAGAGAAAGCTGGAATTATTAGCTTTACAGCTCGTGAGTATGTTGAAAGCTTTGAAGGATGTGAGGGATTAGCAGACCGACTGGCACTCCAGGCTGAAACTGGACAAGATCAgGTAGATGACAAGAAAAGGGGAAAGCTGGTTTATCCTGAGCACCTTCCTCTCACAAGAATTCAAGCTGGACTCAAAGGTGGAAGGTATCTTCAGGGTACTTTTCACCGAAGTAGGGAAAACTATACTGAAGCTTATGTCTTTGTGCACAATGGAGATAAACAGGTGTTCATTCAAAGTCTAATGAATCTCAACCGTGCAGTTCATGAGGATATTGTTGCAGTCGAGATCTTGCCGAAAAGTCAGTGGACTTGTCCATCATCTGTTGTCACCACAACATTGACTGAAAATGAAaaggaagatgatgatgatgttgatgatgatgatgaagatgttGATAAAAATAATGACCATCTGAAGTTGAATGGAGGCAGCAAAAACAAGGTGCTATCAGGAAAAGTTATTGGAATCATAAAGAGGAACTGGCGACCATATTGTGGTGTCCTTTCCAAGTCGTCAAAACCACAGGGTACGAGACATCTGTTCATAGCTGCTGAGAGAAGAATTCCCAGGGTCACCATTGAAACTAGACAAGCGTCAGCCCTAGAGGGGCAGAGAATTGTGGTTAGCATTGACTCTTGGCCTCAGAATTCTAAATATCCTGTGGGTCACTTTGTCCGAAAGCTGGGGGCCATTGGTGACAAGGAAACCGAGAACGAAGTGTTGCTTTTAGAGCGAGATGTGCCACACTTACCTTTCTCAGCTGCAGTACAAAAGGACCTTCCCGTCATGCCATGGGCCATCACGGATGAGGATGTGGAAAGTCGTTTGGATCTTCGCCATGTTGCAGTTTGTAGCATTGATCCCCCTGGTTGTACGGATATCGATGATGCTTTGCACTGGAGATTACTGGAGAGTGGAAATTATGAGGTTGGTGTGCATATAGCTGACGTGACACATTTTATCAGACCAGGGACATCTCTGGATGATGAAGCAGCCAATAGGGGTACCACAGTCTATCTCACGGATAAGCGAATTGACATGGTACCTGGTCTTCTCAGCTCAGATCTTTGTTCTTTGAGATGCAATGTTGACAGACTGGCATTTTCCTGCATATGGCAAATGACTCCACAAGCTGAGATTGTCTCAACAAAGTTCACAAAAAGTATTATCTGCTCAAGGATGTCCTTCACATATGCTGAAGCTCAAATGCGAATTGATGATCCAAGTCAAAAGGACGAAATCACAGTGAGTCTCAGGCATCTCAACGAGCTCGCAAAGATCTTGAAAGGAAGGAGAATTGAGCAGGGGGCTCTGACTCTTGCGTCACCGGAAGTTCGTTTTCACATCGATAGCGAGACACACGACCCAGTGGATCTTCAAACAAAGGAACTTAAGGAAACCAACTCTCTTGTTGAGGAGTTCATGTTGCTGGCCAATATTTGTGTGGCGAAGAAAATCTTTCAACAATTCCCAGAGTTTGCTCTTTTAAGAAGGCACCCCTCACCACCTCCCGCCAACTACGATGTCTTGGTGAAGGCTGCTCTCTCAAAGGGATTTCATATCGACGTGGATAGCGCCAAGTCCCTCGCAACGTCCTTGGAATCCGCTCATATTCCGGACGAGCCATACTTCAACACACTTCTTCGTATCATGGCAACGCGTAGCATGATGCAAGCACTTTACTTCTGTTCGGGCATGCTCGGTGAAGAAGACTTCCTTCATTATGGTTTGGCGACTCCAATCTACACACATTTTACTTCTCCTATCAGAAGATATTCCGACATCATGGTTCACCGCTTGTTAGCGGTCGCCATCGGTGCCTTCGGTTCATACCCCGATCTTTTAAACAAAGACAAGACGCAGAAACTCTGTAATCATCTGAATTTCCGTCACAGAATGGCCCAGTATGCATCTCGGGACTCCATTGATTTGCATTGCCAGCTGTTTTTCCAAAATAAGGCGATAACAGAGGAAGAAGCATTCGTTCTTTTTGTCCGTAAGAATGCGATTCAAGTTTTAATTCCAAAGTATGGACTGGAGGGAACAGTTTTCATGGCAAAAGATGCGACAGGAGTTGTGTTCAACGAAGAGGAACCGTCTCTCAAAATTGGTGACGTCACCTATAGATTGTTTGACCGAGTGTTGGTGAAAATAAACGTCAACAAGTCGTCAACggaaaacaagtttttatcgTTCAGCCTAATTTCGAGAAAGGAAAACAGTGTAGGTGATGGTGAAGAACCACTCTCTAAGAAAGCGAAGCTTAGTTAACATGGAGGAAGACGTTTTTCGATACAACCACCCCGTTCACTTTGATGAAAATGCTGTGAAGCAGCTGGGACAAGAAGCAAAGACGACACAAGCGTCTGTCAAATAAGGCGAACGACTGAGTGACCGGTGAGGATTGCCAAAAGCGTTGGAAACATATCAGAGCTTTTCTCCGGCTTTGGGTACGGTCACTGACAACCTGTTTGCCATTAGCCGAACGAACGGTATGGGCTCCGTTATGCGATTAGGTCAGTGATATCCGCTCTGTGATAAATGCAACACGAAGACAAGTTGAGTCAGTGAAAACATTGGTTCTGCACGCTTTGCGTACAGTTGGTGGCTCTTTCGTTTTCATGGACGTCGTTGGTTCATAAACTCCCACTTTAAATATGAGACGTTTAGGGCAGATCCGTCATAGCAAGTTTTCGAGTTATGGAATAAGGGGTAAGGGGTTGCACGAACACGCATACTGAACCGTTGGCCAAATAAGGGGGAGCTTAAAAATGCAGTTTAAATTCAAACATTAGTTGTtgagtttttattttcactctCACTACAAGACAACCTCCACCAGTGTGGTACCACCATTTGCCTCCACTGCATTTTTGTCATATACGAACTTATGAAAGAATTCTTCTCGTGTactacttaatttttttttcgtttttatttttaccaGCTTCTCCCTCTGCGAGATCTGCAGGGTTCTTTTGTCTAGGATGTGCTACTCTCTTTGAGATCATCGTGACTTTTGGTGATTTCATATCTTTTCTCACATTTTTACATATCGAGAAcagaaaaccttttttttttttaaagaaaccatTTATTATAAGTGTAGAACTATTACAGATAACGGTTAACGATCGTCAGATGTCTAGAATTTAACTGAACAATTAACCTTCATTAAAATACCCGTAAATACACTTATCCAGGTTTAATTCCTCTTTTTCTACGTGTTtctttctttcgaatgttttgaaattttctcttcatcCAACCTCAGGACTGTTAGTCTTTTCTTTACCATTAGTCTCAAAATGTATTTGCAATGCACGTACTTTTTCAAACTATGGACGTCATCCTCGACTTCATTAAAACACGTCTGTAACCAAGAGTGGAATGATACGTCTTTTACCGAAGGATTTGtttcccaaaaaaaattctggaaaaagTAATTGTTTTCTCGACTATTGAAATGTCGTATGTCTTTGTTACGATCTTCATTAAAAATGTAAGTGTCTCAACATTCTTATAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9Y2L1	Exosome complex exonuclease RRP44 OS=Homo sapiens OX=9606 GN=DIS3 PE=1 SV=2
Q9CSH3	Exosome complex exonuclease RRP44 OS=Mus musculus OX=10090 GN=Dis3 PE=1 SV=4
Q9SHL7	Exosome complex exonuclease RRP44 homolog A OS=Arabidopsis thaliana OX=3702 GN=RRP44A PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001458 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17216 all species →	Rrp44_CSD1	Rrp44-like cold shock domain	Domain	Interproscan
PF17215 all species →	Rrp44_S1	S1 domain	Domain	Interproscan
PF13638 all species →	PIN_4	PIN domain	Domain	Interproscan
PF17849 all species →	OB_Dis3	Dis3-like cold-shock domain 2 (CSD2)	Domain	Interproscan
PF00773 all species →	RNB	RNB domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050180 all species →	Family	RNR Ribonuclease	Interproscan
IPR022966 all species →	Conserved_site	Ribonuclease II/R, conserved site	Interproscan
IPR033771 all species →	Domain	Rrp44-like cold shock domain	Interproscan
IPR033770 all species →	Domain	Exosome complex exonuclease RRP44, S1 domain	Interproscan
IPR029060 all species →	Homologous_superfamily	PIN-like domain superfamily	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR001900 all species →	Domain	Ribonuclease II/R	Interproscan
IPR002716 all species →	Domain	PIN domain	Interproscan
IPR041505 all species →	Domain	Dis3-like cold-shock domain 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23355 all species →	RIBONUCLEASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000175 all species →	Molecular Function	3'-5'-RNA exonuclease activity	Interproscan
GO:0000176 all species →	Cellular Component	nuclear exosome (RNase complex)	Interproscan
GO:0000177 all species →	Cellular Component	cytoplasmic exosome (RNase complex)	Interproscan
GO:0004519 all species →	Molecular Function	endonuclease activity	Interproscan
GO:0016075 all species →	Biological Process	rRNA catabolic process	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004540 all species →	Molecular Function	RNA nuclease 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
K12585	DIS3, RRP44; exosome complex exonuclease DIS3/RRP44	EC:3.1.13.-	Messenger RNA biogenesis	ko03019	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_068720952.1 across 36 RNA-seq samples of Montipora capricornis. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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

0TPM > 0

1Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12807381	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12849113	Polyps	Polyps	OA3 day0	not recorded	SRP199550
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR12927880	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR9129316	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR9613519	Polyps	Polyps	not recorded	not recorded	SRP199550

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.