Gene detail

Detailed information of XP_032218364.2 in Nematostella vectensis

Genomic Location: NC_064035.1:7018190...7027941
NR annotation: XP_032218364.2, male-specific lethal 1 homolog isoform X1 [Nematostella vectensis]
Species Nematostella vectensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_032362473.2

ATCACAAAGCCTCGCTTTCGTGCCGCTCCGCCATTTTAGACATATGTCGAAGGTCTTTACCAAGTCCGAGCTATGGAGGCATGAATGCGGACAATTCATTTCGTGGCGTGTTCGATAGAACTTGCCGAAGACTTCTCCAGATGGTAATGGCCACAGATTTATCTCCGAAAGGTGTACTTAGTCCGAATGAATTGAAAACAACAGTAAATTCGTCGGACATGAAGGGAGCGCCGAAGCAGAGCACGCGAAGCGAAAGACAATTCAAGCGTCTTTTGAGATCAAAAGCGTCAAATTCTTCCCCGAATTCTGTCACAAACAATGATGTTCAGGAAAGTAATTGCATAGAGCATGAAACTGATTCGTCTGTTAGGCAACCTGGAGCGTTAGCAGTTGGCGAGCCTAACCATAAAAGTGAGCCATGCCAAGTTACACAATTGAGGCAGTTATTGCTACTGCATTTGGAACTCATacagcaacaacaagaacagctGCAAATGAAAGACAGAGAGCTGAACCAACTCAAGATAGACAAAGAACAGTTGGAAGCTCGAATGCATCGTATGGAGAGGCGTATGGCAGTGAGAAAGAGAAGCAGAAATCTTAGCAACAGTGACCAAGAATGCACTGAAGAGAAAACTAAACCACTCGCACCAAAAAGTCGTCGATTATCTGTGGAACAAATGATCCGGAAGAAAAGAGTCCCCACATCATTTTCAGTGGTGATGAGTTCATGTATGAGTAATGACCTCAGCTATGATACTCATATGAGGACAGAACTCTTATATCTACATAATCTGCCTGAAGGAGAAAAGGCAAAACCAACCCTAAACACCACAGCACCAACTGCTGACAAAGATGTAGTTGTACCTCAATGGCAAGTGAATGTGCTCCAACCTTCACATCCTTCAGGCTCCAAATCTGCCCGTTCTTCTGCAAGAAATGTTCCTCTCACAAGTGAGGACCAGCCTGAGAATATCGAGGATGATGCGTTTATCAAGCGCCACATTAAACAAGAGTTGgaagaaaaaagaaggaaaagATGGGATGTGCAGCGATTTAGAGAACTGCAACAACATAAAAGCCTTGAAGAAAGGAACCGGATGAGAGAGGAAGCTAGGCTAAAAGGCAGGAAATCACTCAGCAAAGACTGCACTGACTCAGAGCAGCAGACTGTCTCACCATCTGTAGAAGAAAttttagcaGTGGAAGTTTCTGACACTGTTCCAGTCTCAGTGTTTGGCTGCCCTGTTCCCTTATTCCAATCAAGAGAGTTTGATATACCTTGGTTCAGTTTAGAGAGAAGAGAGCTTCAAGAAAGGGCACTTAGGGAGAAACCCAAATCTACCCGTGGCAGAGGCAGAGTCAGAGGGTGTGGAGGTCGAGGGGGTCGAGGTCGGAGAGGTCGTGGATGTTGGATTAGGAAAATGCTTTGACAGTTTATTCTAGCATTGTACATGtacagtatatatatatatggacCTTATgcctgtatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatatgtggACCTTATGGCTGCCGGGTATACATAGTTGTAATGATATTGATTTGATTAGGGGTTTACCTGTACATTTTTTTACCAATAATAGTGTTTTAGCCGATTTTCAAATTCAGTTTACATCCCAAGTATTTTTAGTTCAATTTGATATTGAAATTTACTTTGATTTCTTTATTTCACACTTAATAATGGAAAAgacttgtttgtttttatagaaccctattcatttttttatttattgcacACATAGATGCTGAAAGTTTTTGGTGCAGTTATGTTAAGCCAACCCTATCTCATGCATGTACAATAAGGTTGCACAACCCTCTTTATTCAAGTTTCGTTCCATGTTGTCTTAAATGAAATGCAGATCATTCGAATAAAATTTGAAAGGAAATGTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A9JRX0	Male-specific lethal 1-like 1 OS=Danio rerio OX=7955 GN=msl1l1 PE=2 SV=1
Q68DK7	Male-specific lethal 1 homolog OS=Homo sapiens OX=9606 GN=MSL1 PE=1 SV=3
Q6PDM1	Male-specific lethal 1 homolog OS=Mus musculus OX=10090 GN=Msl1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007249 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15275 all species →	PEHE	PEHE domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029332 all species →	Domain	PEHE domain	Interproscan
IPR026711 all species →	Family	Protein male-specific lethal-1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR21656 all species →	MALE-SPECIFIC LETHAL-1 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0043984 all species →	Biological Process	obsolete histone H4-K16 acetylation	Interproscan
GO:0072487 all species →	Cellular Component	MSL complex	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
K13163	MSL1; male-specific lethal 1	-	Chromosome and associated proteins	ko03036	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_032218364.2 across 48 RNA-seq samples of Nematostella vectensis. 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

41TPM > 0

16Conditions

18.4Max TPM

9.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole 6 week old aboral regenerate · regenerate 96hpa	3	3	12.01	14.97
whole 6 week old aboral regenerate · regenerate 144hpa	3	3	9.13	13.28
whole 6 week old aboral regenerate · regenerate 0hpa	3	3	8.12	8.25
whole 6 week old aboral regenerate · regenerate 2hpa	3	3	10.26	12.06
whole 6 week old aboral regenerate · regenerate uncut	3	3	9.19	9.48
whole 6 week old aboral regenerate · regenerate 4hpa	3	2	8.32	15.54
whole 6 week old aboral regenerate · regenerate 120hpa	3	2	7.77	12.99
whole 6 week old aboral regenerate · regenerate 36hpa	3	3	14.27	18.42
whole 6 week old aboral regenerate · regenerate 24hpa	3	2	7.92	12.80
whole 6 week old aboral regenerate · regenerate 20hpa	3	2	7.39	12.49
whole 6 week old aboral regenerate · regenerate 16hpa	3	3	9.21	10.36
whole 6 week old aboral regenerate · regenerate 72hpa	3	3	13.53	15.34
whole 6 week old aboral regenerate · regenerate 60hpa	3	3	13.95	16.12
whole 6 week old aboral regenerate · regenerate 48hpa	3	2	8.60	14.70
whole 6 week old aboral regenerate · regenerate 8hpa	3	3	10.34	11.88
whole 6 week old aboral regenerate · regenerate 12hpa	3	1	3.06	9.18

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR6320863	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	14.97
SRR6320836	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	11.97
SRR6320837	whole 6 week old aboral regenerate · regenerate 96hpa	whole 6 week old aboral regenerate	six weeks	regenerate 96hpa	SRP125570	9.09
SRR6320847	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	13.28
SRR6320838	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	7.17
SRR6320841	whole 6 week old aboral regenerate · regenerate 144hpa	whole 6 week old aboral regenerate	six weeks	regenerate 144hpa	SRP125570	6.93
SRR6320839	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	8.25
SRR6320840	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	8.13
SRR6320846	whole 6 week old aboral regenerate · regenerate 0hpa	whole 6 week old aboral regenerate	six weeks	regenerate 0hpa	SRP125570	7.98
SRR6320842	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	12.06
SRR6320861	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	10.75
SRR6320848	whole 6 week old aboral regenerate · regenerate 2hpa	whole 6 week old aboral regenerate	six weeks	regenerate 2hpa	SRP125570	7.98
SRR6320844	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	9.48
SRR6320843	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	9.31
SRR6320845	whole 6 week old aboral regenerate · regenerate uncut	whole 6 week old aboral regenerate	six weeks	regenerate uncut	SRP125570	8.77
SRR6320849	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	15.54
SRR6320872	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	9.41
SRR6320873	whole 6 week old aboral regenerate · regenerate 4hpa	whole 6 week old aboral regenerate	six weeks	regenerate 4hpa	SRP125570	0.00
SRR6320882	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	12.99
SRR6320883	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	10.32
SRR6320850	whole 6 week old aboral regenerate · regenerate 120hpa	whole 6 week old aboral regenerate	six weeks	regenerate 120hpa	SRP125570	0.00
SRR6320855	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	18.42
SRR6320851	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	14.36
SRR6320852	whole 6 week old aboral regenerate · regenerate 36hpa	whole 6 week old aboral regenerate	six weeks	regenerate 36hpa	SRP125570	10.03
SRR6320854	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	12.80
SRR6320853	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	10.97
SRR6320856	whole 6 week old aboral regenerate · regenerate 24hpa	whole 6 week old aboral regenerate	six weeks	regenerate 24hpa	SRP125570	0.00
SRR6320860	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	12.49
SRR6320857	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	9.68
SRR6320859	whole 6 week old aboral regenerate · regenerate 20hpa	whole 6 week old aboral regenerate	six weeks	regenerate 20hpa	SRP125570	0.00
SRR6320880	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	10.36
SRR6320881	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	8.74
SRR6320858	whole 6 week old aboral regenerate · regenerate 16hpa	whole 6 week old aboral regenerate	six weeks	regenerate 16hpa	SRP125570	8.52
SRR6320864	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	15.34
SRR6320862	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	12.82
SRR6320865	whole 6 week old aboral regenerate · regenerate 72hpa	whole 6 week old aboral regenerate	six weeks	regenerate 72hpa	SRP125570	12.43
SRR6320869	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	16.12
SRR6320867	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	13.41
SRR6320866	whole 6 week old aboral regenerate · regenerate 60hpa	whole 6 week old aboral regenerate	six weeks	regenerate 60hpa	SRP125570	12.33
SRR6320870	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	14.70
SRR6320871	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	11.11
SRR6320868	whole 6 week old aboral regenerate · regenerate 48hpa	whole 6 week old aboral regenerate	six weeks	regenerate 48hpa	SRP125570	0.00
SRR6320874	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	11.88
SRR6320876	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	10.03
SRR6320875	whole 6 week old aboral regenerate · regenerate 8hpa	whole 6 week old aboral regenerate	six weeks	regenerate 8hpa	SRP125570	9.10
SRR6320877	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	9.18
SRR6320878	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00
SRR6320879	whole 6 week old aboral regenerate · regenerate 12hpa	whole 6 week old aboral regenerate	six weeks	regenerate 12hpa	SRP125570	0.00

Source: CnidoSite RNA-seq expression matrices (NVECT_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.