Gene detail

Detailed information of XP_068702002.1 in Montipora foliosa

Genomic Location: chr4:13214523...13263274
NR annotation: XP_029207960.2, LOW QUALITY PROTEIN: protein SDA1 homolog [Acropora millepora]
Species Montipora foliosa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC137999916

ATGAGTAAGCGAAACGGGAACCAGTTGCCTAACAACTTGCCACAGCTGCAAAACCTTGTGAAAAGAGATCCCGATTCCTACAGAGAAGAGTTTTTTCAACAGTTTAGACACTTTGAATGCAGTATTCAGATTTTTGAGCTTGATCCCTCAAATGCAAATAAAACTCTTGGAGAGTTGGTCATGTTTATCTGTCAGGTTGCTCAATGCTACACAGTGGAATTAGAACAATTCCCACAAGAATTGATAGATGTCTTACAGAAACATTATAGCATTATGGATGCTGACCTTAGAATGACATTTTGCAGAGCTCTTATTCTTCTTCGGAACAAGAACTTGTTATCACCAACAAGCCTCTTGGAGCTCTTTTTTCGCTTGTTTAGATGTATGGATAAATTACTGAGAGAGGTCTTATACAGTCATATTGTAACTGATATAAAGAATATCAATGCAAAACACAAGAACAATAAAGTTAATACTGTGCTTCAAAATTTTATGTATACAATGCTTCAAGACAACAATCCTGTAGCTGCTAAGAAATCCTTAGATGTGATGGTGGAGCTGTATCATAGGAATATTTGGAATGATGCGAAAACAGTCAACGTGATCACCACAGCTTGCTTCTCACCTGTGGCAAAGATTCTAGTGGCAGCACTGACATTTTTCCTTGGAAAAGATGAAGAAGATGACCAAGCCGGTGACAGTGATCAAGAGGTCGACCACTCTGAATTGAAAAGACTGCTTCATGCTCAAGGGGTCAGCAAAAAGTCCTTGAAAAAGAAGCAGAAATTTCAGAAGGCTTTGGCCAATTTGAGGAAACAAAAGAAGAAGCGCAAGCTCCCGTCTTCTGTGAATTTTTCTGCTCTTCATCTCATTAACGATCCCCAGGGTTTCAGTGAAAGATTGTTTAAGCAACTCGAAGCTTCAAAGGAGAGGTTTGAAGTGAAGATGATGATGATGGACGTCATATCAAGACTTGTAGGCGTTCATCAGCTCTTCTTGTTCAATTTTTATCCCTTTATTCAAAGATACCTGCAGCCACACCAAAGAGAGGTCACCAAGCTGCTGACTTGTTTCGCTCAAGCCTGTCACGAACTGGTTCCGCCAGAGGTCATTGAATCTGGACTGAAAGCCATTGTAAATAATTTTGTAACCGAAAGAAATTCCAACGAAGTAATGGCAGTTGGTCTGAATGCTATACGAGAAGTGTGTGCAAGATGTCCACTGGTCATGACGGACGACTTGTTGCAAGATTTAGCGCAGTACAAGAAATCGAAAGATAAAGGTGTTATGATGGCTGCTCGATCTCTCATACAGTTGTTCCGCGCCGTAAATCCAACACTTCTCCACAAGAAAGACAGAGGAAAACCGACAGAAGATAGTAAAGATTTTACAGTGAAACAGTATGGTGAATTGAAAGCAACAGACTTCGTTCCTGGAACTGAGGTTCTTGACGAAGAACCTGAGATTAGAAATGATGCGAAAGATGACTCGAACCATGGAATAAAATGCCTTGCAAACGCATTGGAAAGGGATGATGACGATTACGATGAGGGTGAATGGATAGACGTGCATCATTCTTCAGACGAGGCAGAAGAGAATGGGATGGACGAAGAGAATGACATTGTCAAGACTAAAGAAGAAGAAAAAGAAGAGTTGAAATCCAAAGCAGCGAGGATAAGTCAAACACGGATTCTAACCGATGAAGATTTCAAAAAGATTCGGTTGCGCGAAGCAGCACGTGCACTGAATTTTAAGACAGGGAAAAAGCGAAAGGCACAAAGGATTGATGGAATACCACCGGAAAGAGGTGAGCTGATTTCTGTAGGAGACATAGAGAACATCCATAAGAAGAGAAAACATGACAAGGAAGCAAGATGGGAAACTGTGCTTGCTGGTAGACAAGGCAGGGAGAAATTTGGTTCCAAACCGAAGACCAAGAAGAGACTAAATGAGTTTGCAAGCACGTCGAATAAGGAGAAAAGAAGAAAGAAGAATTTCATGATGATGCGACACAGCAAGGATGTGAGAGGAAAAACGAAACGTTCTTTTCGGGAGAAACAGATTGCCCTGAAAAACGCCCTGTTGAGAAGAATGAAAGCGAAATAA

Transcript

rna-XM_068845901.1

GCATCGAAACGAGGCAGAAACATGGCCGACGGTGGAACATgaagaaattgacaattttttttaatcgtgttgtttttcttggtttaaattattttgaGCGCTGTGATGAGTAAGCGAAACGGGAACCAGTTGCCTAACAACTTGCCACAGCTGCAAAACCTTGTGAAAAGAGATCCCGATTCCTACAGAGAAGAGttttttcaacAGTTTAGACACTTTGAATGCAGTATTCAGATTTTTGAGCTTGATCCCTCAAATGCAAATAAAACTCTTGGAGAGTTGGTCATGTTTATCTGTCAGGTTGCTCAATGCTACACAGTGGAATTAGAACAATTCCCACAAGAATTGATAGATGTCTTACAGAAACATTATAGCATTATGGATGCTGACCTTAGAATGACATTTTGCAGAGCTCTTATTCTTCTTCGGAACAAGAACTTGTTATCACCAACAAGcctCTTGGAGCTCTTTTTTCGCTTGTTTAGATGTATGGATAAATTACTGAGAGAGGTCTTATACAGTCATATTGTAACTGATATAAAGAATATCAATGCAAAACACAAGAACAATAAAGTTAATACTGTGCTTCAAAATTTTATGTATACAATGCTTCAAGACAACAATCCTGTAGCTGCTAAGAAATCCTTAGATGTGATGGTGGAGCTGTATCATAGGAATATTTGGAATGATGCGAAAACAGTCAACGTGATCACCACAGCTTGCTTCTCACCTGTGGCAAAGATTCTAGTGGCAGCACTGACATTTTTCCTTGGAAAAGATGAAGAAGATGACCAAGCCGGTGACAGTGATCAAGAGGTCGACCACTCTGAATTGAAAAGACTGCTTCATGCTCAAGGGGTCAGcaaaaagtccttgaaaaagAAGCAGAAATTTCAGAAGGCTTTGGCCAATTTGAGGaaacaaaagaagaagcgCAAGCTCCCGTCTTCTGTGAATTTTTCTGCTCTTCATCTCATTAACGATCCCCAGGGTTTCAGTGAAAGATTGTTTAAGCAACTCGAAGCTTCAAAGGAGAGGTTTGaagtgaagatgatgatgatggacgTCATATCAAGACTTGTAGGCGTTCATCAGCTCTTCTTGTTCAATTTTTATCCCTTTATTCAAAGATACCTGCAGCCACACCAAAGAGAGGTCACCAAGCTGCTGACTTGTTTCGCTCAAGCCTGTCACGAACTGGTTCCGCCAGAGGTCATTGAATCTGGACTGAAAGccattgtaaataattttgtaacCGAAAGAAATTCCAACGAAGTAATGGCAGTTGGTCTGAATGCTATACGAGAAGTGTGTGCAAGATGTCCACTGGTCATGACGGACGACTTGTTGCAAGATTTAGCGCAGTACAAGAAATCGAAAGATAAAGGTGTTATGATGGCTGCTCGATCTCTCATACAGTTGTTCCGCGCCGTAAATCCAACACTTCTCCACAAGAAAGACAGAGGAAAACCGACAGAAGATAGTAAAGATTTTACAGTGAAACAGTATGGTGAATTGAAAGCAACAGACTTCGTTCCTGGAACTGAGGTTCTTGACGAAGAACCTGAGATTAGAAATGATGCGAAAGATGACTCGAACCATGGAATAAAATGCCTTGCAAACGCATTGGAAAGGGATGATGACGATTACGATGAGGGTGAATGGATAGACGTGCATCATTCTTCAGACGAGGCAGAAGAGAATGGGATGGACGAAGAGAATGACATTGTCAAGactaaagaagaagaaaaagaagagttgAAATCCAAAGCAGCGAGGATAAGTCAAACACGGATTCTAACCGATGAAGATTTCAAAAAGATTCGGTTGCGCGAAGCAGCACGTGCACTGAATTTTAAGACAGGGAAAAAGCGAAAGGCACAAAGGATTGATGGAATACCACCGGAAAGAGGTGAGCTGATTTCTGTAGGAGACATAGAGAACATCCATAAGAAGAGAAAACATGACAAGGAAGCAAGATGGGAAACTGTGCTTGCTGGTAGACAAGGCAGGGAGAAATTTGGTTCCAAACCGAAGACCAAGAAGAGACTAAATGAGTTTGCAAGCACGTCGAATAAGgagaaaagaagaaagaagaatttCATGATGATGCGACACAGCAAGGATGTGAGAGGAAAAACGAAACGTTCTTTTCGGGAGAAACAGATTGCCCTGAAAAACGCCCtgttgagaagaatgaaagCGAAATAATGGAACGTCTTTTTAAAGTTTAAGTTATTTTCCTGACTGGATAAGATAGGCggggagagaaaaaaaaaagacaggcAAAGCATTCTCGTTCAGTTGAGGAAGATCGCGCTCGAGACCAGCTTTACCATTGAAGTTGCTTAACTACAGAAGCCTCTTCTGAACTTAGATAAAAGTGAATGGAAGTCGGCAATCGCCGTTTTGTAACCATTCTGGACTCTGGTCTGCTCTGACACTTTCTTCTGCGCTAACGAAAGGGTGCTGACAAAACACGGGTCGAAATGGATTGTTCTTTTGTGAAACGCATGGAGGCTTTGAGAGGCGTTAAAAGAAACTGAAACTTACTTCCGAAAAGGTCAAAGtcgaaactgaaactgaaagaCGTGAGGAGCAGGGCATACAAGAAGTATTGACCCACATTGAGAAATCGAATGGGAGAAGAGACAATTGAGGAGTGGAGTCTTGCACGTTCCCTCAGATTGTAACTTTGAAATAGTTTTGCGTGATGGTTTCGAACACTTATTAACTTCTTTGATCATTGCATTAAACTTTTTAAactgtga

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A7S6A5	Protein SDA1 homolog OS=Nematostella vectensis OX=45351 GN=sdad1 PE=3 SV=1
A5D7C2	Protein SDA1 homolog OS=Bos taurus OX=9913 GN=SDAD1 PE=2 SV=1
Q80UZ2	Protein SDA1 homolog OS=Mus musculus OX=10090 GN=Sdad1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004443 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08158 all species →	SDA1_HEAT	SDA1, HEAT repeat	Repeat	Interproscan
PF05285 all species →	SDA1_dom	SDA1, conserved domain	Domain	Interproscan
PF21638 all species →	SDA1_C	SDA1, C-terminal	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012977 all species →	Domain	SDA1, N-terminal	Interproscan
IPR007949 all species →	Domain	SDA1, middle domain	Interproscan
IPR048292 all species →	Domain	SDA1, C-terminal domain	Interproscan
IPR016024 all species →	Homologous_superfamily	Armadillo-type fold	Interproscan
IPR027312 all species →	Family	Sda1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12730 all species →	HSDA/SDA1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000055 all species →	Biological Process	ribosomal large subunit export from nucleus	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	Interproscan
GO:0042273 all species →	Biological Process	ribosomal large subunit biogenesis	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
K14856	SDA1, SDAD1; protein SDA1	-	Ribosome biogenesis	ko03009	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_068702002.1 across 36 RNA-seq samples of Montipora foliosa. 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
SRR12710845	Polyps	Polyps	OA4 day3	not recorded	SRP199550
SRR12710852	Polyps	Polyps	OA4 day9	not recorded	SRP199550
SRR12710853	Polyps	Polyps	OA4 day9	not recorded	SRP199550
SRR12710854	Polyps	Polyps	OA4 day9	not recorded	SRP199550
SRR12710865	Polyps	Polyps	OA4 day3	not recorded	SRP199550
SRR12710866	Polyps	Polyps	OA4 day3	not recorded	SRP199550
SRR12786895	Polyps	Polyps	OA4 day0	not recorded	SRP199550
SRR12786903	Polyps	Polyps	OA4 day0	not recorded	SRP199550
SRR12786904	Polyps	Polyps	OA4 day0	not recorded	SRP199550
SRR12807380	Polyps	Polyps	OA4 day0	not recorded	SRP199550
SRR12849112	Polyps	Polyps	OA4 day0	not recorded	SRP199550
SRR12904780	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR12904791	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR12904792	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR12927879	Polyps	Polyps	E4 day0	not recorded	SRP199550
SRR12959181	Polyps	Polyps	E4 day0	not recorded	SRP199550
SRR12959185	Polyps	Polyps	E4 day21	not recorded	SRP199550
SRR12959186	Polyps	Polyps	E4 day21	not recorded	SRP199550
SRR12959187	Polyps	Polyps	E4 day21	not recorded	SRP199550
SRR12959198	Polyps	Polyps	E4 day15	not recorded	SRP199550
SRR12959199	Polyps	Polyps	E4 day15	not recorded	SRP199550
SRR12959200	Polyps	Polyps	E4 day15	not recorded	SRP199550
SRR12959211	Polyps	Polyps	E4 day9	not recorded	SRP199550
SRR12959212	Polyps	Polyps	E4 day9	not recorded	SRP199550
SRR12959213	Polyps	Polyps	E4 day9	not recorded	SRP199550
SRR12959224	Polyps	Polyps	E4 day3	not recorded	SRP199550
SRR12959225	Polyps	Polyps	E4 day3	not recorded	SRP199550
SRR12959226	Polyps	Polyps	E4 day3	not recorded	SRP199550
SRR12959237	Polyps	Polyps	E4 day0	not recorded	SRP199550
SRR12959238	Polyps	Polyps	E4 day0	not recorded	SRP199550
SRR12963483	Polyps	Polyps	E4 day0	not recorded	SRP199550
SRR27940177	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR27940179	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR27940180	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR9129315	Polyps	Polyps	not recorded	not recorded	SRP199550
SRR9613518	Polyps	Polyps	not recorded	not recorded	SRP199550

Source: CnidoSite RNA-seq expression matrices (MFOLI_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.