Gene detail

Detailed information of XP_068754103.1 in Montipora capricornis

Genomic Location: chr6:19969693...20002046
NR annotation: XP_029205677.2, protein SMG8-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138051748

ATGGCGGACAGCGGTGCAAAACGAGCAAGTGTGGAGTTTTTCCAATATTTGATAAATTCCACTGAAAGCTGTGTGGACGATAAAGTGTGCGTGGTGGGAATCTTTGGGAAAGACAACATTGGGTTCAAGTCGAAGGCTGTACATTTGAATGGCACCATTGGAAAAGAGGTTTTTAAGATCGATTTTCTTGACAGTATGTTTAAAAAGAAAGACGTGCACGATTTTTCGTGTGATATTGATGTATACCATGATGTTGAACAGAGAATAATATATTTGCACCTTATATCTGTTTATGATGTATCAAGAATGTTGCAACTTTGCAAACAAGCACCACACGATGTGCAGAATGCAGAATCACATCAGTACTGGATGTCCCATGAATTCTATTATGCCTGTGCACTTATGTTCCTGTTTTCAGTTTCTCACATTATTGTTGTCTTACACCCCTCTCAATCCTTTGATCTGAGTTACATCAGACTCTTTCATACTTTGGCTTCAACTAGACATCAGCTGCTACCACAGATTTCTCAGTTGCTCTCTGGTGTTGATGGCATTCCAGATATTTGGAGGCAGACAGGGCGACCTTGCATTCCCAGACTTGTATGCTCATTAAAGCAGCGTGTGCCTTTTATGAACCCATCGCAAATGTCTGGTAAGAATCAAGATACATATGCAAGCAAGACAAAAGGCAAACAACAAACCACCACCCCACAGAAAAAGCTTCAACATGCTATAGAAGACCAGTTGTACAGTATCATGAAAAAGGCAAGACTTCTTGGAAGCCTCAGTTCCAGCTCGTTGTTCACAGTCAACTCAAGCCATGCCTTTGTTCACGTGCAGCCTTGTTCAACGGCCTTTGACCCAGTGGCAGTTCTGCTCAACACATTAGCCAAACCAGCTATAAATACGCAATGGGTGGAGTCAAGCCCCTTGCTGAAAAACAGTAAGTTCCTCAAAAGAGAACAGGATCTGTCGCCTGGGAGCAGCGAGTCTTTACCATCTGGTAATGGCCAGGTGTTGTTTAAAGATTACCTCAAACAGCAGATCGATCACTTGATGACCGGAGATGCTGGCCGTGACGGTGTGGCCGAGGGACGCCGGGGAACTCATGTGGAGGTTCCCTCTTGTCGCTTATGGGCGCGTGTGTCTCTGGTGTTGTTCGAGTTTTTCATGACGCCCAAAAGCGACCTGATTGCCCCGCTGACCACTATGGCGTCTCACTTGGACCTCGACATGAAGTTTTCAGAAGCACGTTGTCGGAAGGCGATTCCTGTAGCAACTAGCGCTTACCTGGAAGGTCTGCCCTCGCATTATACTCAGAATGTGCACCTTAATCAGCTCTCCCAAGCTCTGCGTGTGTTTTCTTTGCACGCCCGCGGACCTGCATTCGAACACTATGCTGCCCAGTTCCAAGACGAAAGCAATAAGGTTTGGATGAATGGAAGACAACTTTGCGAAGAAAGAAGTCTAACAGGACGCCATTGTGTATACCCGTATCACAGAGTTCCTGCGGACGGAGAGCCGCCCACGGACCCAGTCTCTGAGGAGTCAAAAGATTTGGGAATCATTCCATGTAAGCCTCACTCCAGTCGCATCACGAGTCTCTGTGCCTGTAACTGCGGAAGAATGCAGGATCACCGAGAAGATCCATTTGATCTTAAGGCGGCCAACGTTGACTTTTACCAAATCTTAGAAAAGAAGTGTTGTACTTCCCTGGTTCATTTGTTGTTTCCACTTCATCCCATTTTTTCGTTTGCCACTACATCGAACCAAGATGCAAATGAACCAGCGGGTGATTCCCCCGTCCTGGAAATGACATCAGATACAGGAGACCCGCCAGGAGAAGAGGTCGTGTCCGGGGGTGGTATTAGTGATGACCAACAGGCAAACCAGGGGTCCGACGGCGAACAGGTAGCTTCTCCTATTGTTACGACAACTGCGGCCGTTCCCATTCCCAACGCAAGTAAGAGCGGTAGGGCGGCGACTGTTGAGAGCCAGGGACACAGAGCCAGTTCTACGTATGGTTCAAGTGGGTATCAGTCTACTCTCGACATGATGAGCCACGAGGGGCCTGAGTTTAGAAGCATAACTTCCGAATTTAAAAGTGTCGTTTCCCTGGGGATTCCTGGGGAGCTTAGCACGGTAGGCTCTGAAGATGTGTTTTCAGCCACTGATAATGCGCAAGGCAAAGGTTCAGACGATATGTTTTCGCGCCAGCTCACTGAAAAAGAACAGGGCTTTCTGGAAACCATGCTAACCACCGAGTCTCCCGCCGGGTTATATCCTCGTTTTCCTTCGTGGTCCCTTTGTCGTGTTGGAGGATCGGGCGGGTACAATCCCGCAAAGGGCTTGGAACAGCCAGGCTTTTTTCCAAACAGCAACTTTTTGTTGGCTTGGGACATTCCCCTGCTGAACGACAGTCAGTCAGATTTAACAAGTCAATTTGATGTACAAGGGACGCATTTTGGTTCGAAGCAGATGACGGAAGAGGCCTGGCCAACCTTAAATGAACTTCCTTCTGCCAGCGGTACTACTTTATCATCACTTCCTCTTTACCAGGCCCTAACCTATGCTCGCCGCCAGTCGGCAGATTACAAAGGGAATGCACCGCCTTTAGTGTCAAGTTCGAATTCAGGAAAGGGCTCGGCAAGTTCCTCTCGGCAGCGTGGGAGAGCAACGCGCGAGGGAGTTGTACCAACTGTGAGAGCTTACATAGGAGAGGAGTACGAATGCCCACGGGGCCATAGGTTCATTTGCTCAGGCCCCGACAAGATGGTCAAGGCAACAAGCTCCGGACACGTTAAAGAAACAGCTCACAAGCTGGTGACATCGGACATGCCTCTCTACTTCCCGTGCCCCTGTCGGTCGTCCAAACCTCTCATGGCTCAAATGATGCGCGTATTTGTAGTGACGCCTGATTCACCCGTTCTCGTGACACTTAATCCTAGAGTGCAGCCGTCCATCCCGCCGTGTCCCGTGTTTTATCCCGGAATTGCAGCGGGCCTGAGCCTCCCACCCGCTAGTTTCTGCGTACTGAGACTTCCGTATGTTTATGTGGGTGATGACGGGCCCGTTCTTCCACCTGCTGATTCCCAGCCCCTGTTATCATGCCGGGTGTTAAAGGGCATGTTCTCAGCTATGGGGCATATTCAAGACAACGCCAAGGGAAACGCAATGGAAGCGAAGCGCTAA

Transcript

rna-XM_068898002.1

AGAATCTAGTGACGAAAGAACAAGGAACGGCTACAAAGTTGCGAGGCTTCCAAGCTGTAAAgaaacaacatggcggacagCGGTGCAAAACGAGCAAGTGTGGAGTTTTTCCAATATTTGATAAATTCCACTGAAAGCTGTGTGGACGATAAAGTGTGCGTGGTGGGAATCTTTGGGAAAGACAACATTGGGTTCAAGTCGAAGGCTGTACATTTGAATGGCACCATTGGAAAAGAGGTTTTTAAGATCGATTTTCTTGACAGTATGTTTAAAAAGAAAGACGTGCACGATTTTTCGTGTGATATTGATGTATACCATGATGTTGAACAGAGAATAATATATTTGCACCTTATATCTGTTTATGATGTATCAAGAATGTTGCAACTTTGCAAACAAGCACCACACGATGTGCAGAATGCAGAATCACATCAGTACTGGATGTCCCATGAATTCTATTATGCCTGTGCACTTATGTTCCTGTTTTCAGTTTCTCACATTATTGTTGTCTTACACCCCTCTCAATCCTTTGATCTGAGTTACATCAGACTCTTTCATACTTTGGCTTCAACTAGACATCAGCTGCTACCACAGATTTCTCAGTTGCTCTCTGGTGTTGATGGCATTCCAGATATTTGGAGGCAGACAGGGCGACCTTGCATTCCCAGACTTGTATGCTCATTAAAGCAGcGTGTGCCTTTTATGAACCCATCGCAAAtgtcTGGTAAGAATCAAGATACATATGCAAGCAAGACAAAAGGCAAACAACAAACCACCACCCCACAGAAAAAGCTTCAACATGCTATAGAAGACCAGTTGTACAGTATCATGAAAAAGGCAAGACTTCTTGGAAGCCTCAGTTCCAGCTCGTTGTTCACAGTCAACTCAAGCCATGCCTTTGTTCACGTGCAGCCTTGTTCAACGGCCTTTGACCCAGTGGCAGTTCTGCTCAACACATTAGCCAAACCAGCTATAAATACGCAATGGGTGGAGTCAAGCCCCTTGCTGAAAAACAGTAAGTTCCTCAAAAGAGAACAGGATCTGTCGCCTGGGAGCAGCGAGTCTTTACCATCTGGTAATGGCCAGGTGTTGTTTAAAGATTACCTCAAACAGCAGATCGATCACTTGATGACCGGAGATGCTGGCCGTGACGGTGTGGCCGAGGGACGCCGGGGAACTCATGTGGAGGTTCCCTCTTGTCGCTTATGGGCGCGTGTGTCTCTGGTGTTGTTCGAGTTTTTCATGACGCCCAAAAGCGACCTGATTGCCCCGCTGACCACTATGGCGTCTCACTTGGACCTCGACATGAAGTTTTCAGAAGCACGTTGTCGGAAGGCGATTCCTGTAGCAACTAGCGCTTACCTGGAAGGTCTGCCCTCGCATTATACTCAGAATGTGCACCTTAATCAGCTCTCCCAAGCTCTGCGTGTGTTTTCTTTGCACGCCCGCGGACCTGCATTCGAACACTATGCTGCCCAGTTCCAAGACGAAAGCAATAAGGTTTGGATGAATGGAAGACAACTTTGCGAAGAAAGAAGTCTAACAGGACGCCATTGTGTATACCCGTATCACAGAGTTCCTGCGGACGGAGAGCCGCCCACGGACCCAGTCTCTGAGGAGTCAAAAGATTTGGGAATCATTCCATGTAAGCCTCACTCCAGTCGCATCACGAGTCTCTGTGCCTGTAACTGCGGAAGAATGCAGGATCACCGAGAAGATCCATTTGATCTTAAGgcGGCCAACGTTGACTTTTACCAAATCTTAGAAAAGAAGTGTTGTACTTCCCTGGTTCATTTGTTGTTTCCACTTCATCCCATTTTTTCGTTTGCCACTACATCGAACCAAGATGCAAATGAACCAGCGGGTGATTCCCCCGTCCTGGAAATGACATCAGATACAGGAGACCCGCCAGGAGAAGAGGTCGTGTCCGGGGGTGGTATTAGTGATGACCAACAGGCAAACCAGGGGTCCGACGGCGAACAGGTAGCTTCTCCTATTGTTACGACAACTGCGGCCGTTCCCATTCCCAACGCAAGTAAGAGCGGTAGGGCGGCGACTGTTGAGAGCCAGGGACACAGAGCCAGTTCTACGTATGGTTCAAGTGGGTATCAGTCTACTCTCGACATGATGAGCCACGAGGGGCCTGAGTTTAGAAGCATAACTTCCGAATTTAAAAGTGTCGTTTCCCTGGGGATTCCTGGGGAGCTTAGCACGGTAGGCTCTGAAGATGTGTTTTCAGCCACTGATAATGCGCAAGGCAAAGGTTCAGACGATATGTTTTCGCGCCAGCTCACTGAAAAAGAACAGGGCTTTCTGGAAACCATGCTAACCACCGAGTCTCCCGCCGGGTTATATCCTCGTTTTCCTTCGTGGTCCCTTTGTCGTGTTGGAGGATCGGGCGGGTACAATCCCGCAAAGGGCTTGGAACAGCCAGGCTTTTTTCCAAACAGCAACTTTTTGTTGGCTTGGGACATTCCCCTGCTGAACGACAGTCAGTCAGATTTAACAAGTCAATTTGATGTACAAGGGACGCATTTTGGTTCGAAGCAGATGACGGAAGAGGCCTGGCCAACCTTAAATGAACTTCCTTCTGCCAGCGGTACTACTTTATCATCACTTCCTCTTTACCAGGCCCTAACCTATGCTCGCCGCCAGTCGGCAGATTACAAAGGGAATGCACCGCCTTTAGTGTCAAGTTCGAATTCAGGAAAGGGCTCGGCAAGTTCCTCTCGGCAGCGTGGGAGAGCAACGCGCGAGGGAGTTGTACCAACTGTGAGAGCTTACATAGGAGAGGAGTACGAATGCCCACGGGGCCATAGGTTCATTTGCTCAGGCCCCGACAAGATGGTCAAGGCAACAAGCTCCGGACACGTTAAAGAAACAGCTCACAAGCTGGTGACATCGGACATGCCTCTCTACTTCCCGTGCCCCTGTCGGTCGTCCAAACCTCTCATGGCTCAAATGATGCGCGTATTTGTAGTGACGCCTGATTCACCCGTTCTCGTGACACTTAATCCTAGAGTGCAGCCGTCCATCCCGCCGTGTCCCGTGTTTTATCCCGGAATTGCAGCGGGCCTGAGCCTCCCACCCGCTAGTTTCTGCGTACTGAGACTTCCGTATGTTTATGTGGGTGATGACGGGCCCGTTCTTCCACCTGCTGATTCCCAGCCCCTGTTATCATGCCGGGTGTTAAAGGGCATGTTCTCAGCTATGGGGCATATTCAAGACAACGCCAAGGGAAACGCAATGGAAGCGAAGCGCTAAAACTTTGATTGCTGTATTGCTTTCGAACTCCACAAGGTGGTCGTATCATAGCTTACCCCTGGATTCAACGACTCCTTCACTGATGACAGAAAGAATTGTCACATCTAAGAGCAGTTTTTCATGTGGCGCTAACACAAGTACTCTAATAGGCGCAAAAAGCGCCTTGGAGTAATCATAATCAGTGGTCCATGTTACGCGGAAAAATGTGCGCGAgcaaattggagtttttgtccCTTCAGATTGGTGGAAAAGTCACGTGAAAATCACACGGCCGAAATTTAAATGTCAAGTAAATGTAGCAAGCCCATCGTCCCTTGGGGATGGGCCGACGGGAAAAAATTTCACGTTGATGAATATCAATCCCAGGCTGTCATGCAGGAGCTCAAACCTCATGAATACCGTAAcgcgttaaggacggtgcgtacTGATTCGAAGATATTACTAAACATGcgggaaaagtagatcttaacaagtgttattgaaatccaaagaagaTAATTGCCGTAGAATTTCGATAAGAacacccttcccccccccccccccccgaaagtAGCGGCCCTTTTCAATATtgtcactcaaaataataaaatctatCGTCTTTAATGTAGGATGAATGATAAAACTACAGCGAAATATCAAACAATTGTCTCCTGGAATGCAGCAACTGGAACGTGGGAAAAACTCTGATACGGTACCCTAAGGTATACGGCAAATATTGTCTCAGTCTCCTTGAACTAAACACGAATAACTATTTGTAAGTGTAATGTGTAGTGTCTAATGCAGATGGAGCAACCCGAGTGGACTAAGTAAAGCCAGAAGCCCTTGTGATCCTTCGTTTCGTACTGAAAAATTTACGATCATTACCTTACATATTACGATATGCATCATTATTACGAATGCCTCATTTTTCACTTAACTGAATTCTACTGAAAAATGTACGATCATTACCTTGCATATTACGATACACATCATTATCACGAATGCATTTACTGCTGAAGTAAGTCATTTACGCCTGCGAGTATCTATGCGAAAATCGAACGAAAAATACATGCCGAAACTCGTCTCTGTTGTACTTTGTTTGGCTGGAAacttattaaaattattacagcttg

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q0VA04	Nonsense-mediated mRNA decay factor SMG8 OS=Xenopus tropicalis OX=8364 GN=smg8 PE=2 SV=1
Q8VE18	Nonsense-mediated mRNA decay factor SMG8 OS=Mus musculus OX=10090 GN=Smg8 PE=1 SV=1
A1A4J7	Nonsense-mediated mRNA decay factor SMG8 OS=Bos taurus OX=9913 GN=SMG8 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005093 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10220 all species →	Smg8_Smg9	Smg8_Smg9	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019354 all species →	Family	Nonsense-mediated mRNA decay factor SMG8-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13091 all species →	AMPLIFIED IN BREAST CANCER 2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000184 all species →	Biological Process	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	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
K18734	SMG8; protein SMG8	-	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_068754103.1 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

27TPM > 0

1Conditions

11.9Max TPM

2.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	27	2.14	11.94

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	11.94
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	11.87
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	5.86
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	5.80
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	5.71
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	3.28
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	3.21
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	2.97
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	2.80
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	2.37
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	2.08
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	1.85
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	1.82
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	1.66
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	1.62
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	1.61
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	1.40
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	1.31
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	1.23
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	1.22
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	0.96
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	0.92
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	0.88
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	0.82
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	0.66
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	0.54
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	0.53
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
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	0.00
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	0.00
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR27940192	Polyps	Polyps	not recorded	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.