Gene detail

Detailed information of XP_068744544.1 in Montipora capricornis

Genomic Location: chr3:21066321...21072565
NR annotation: XP_029194440.1, single-stranded DNA-binding protein, mitochondrial-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_068888443.1

TGGGCTGCAGTGAGATGTTCCTTTGGAGAGAGAAGAAATAGTCTGATGGAACCGGTTACATAGGAAAGAAATTGATTTGAGCCTCCCTATGATGAAATTATGAACAAAATGATTATCAATCATATTTTTTTCTGGAAGAATAAAAACTCCCGTTGCACACCTCTTCCCTGAGAGACCATGCgcgggaaagaaagaaaaagcgaGGTTACATAGATTGTGTTCGAACAACTTGTAGCAAGATGTTTCGTCGACAGTGTTTCCAGCAGCTCAAACGTTTCGCAGCAAGATGTGAGGGAGACCTACCTCGAAGAAGCGGGAAATGCCTTAACAGCGTCCAACTGATTGGTTACTCTGGCAGTGATCCATTGCAAGGCAGTAATGAATTTCAGCCAACAAAATTCAGTTTAGCAACAACAGTTTACTACAAATCAAGAGATGaaaaactgGAAAGCAGGACTGAATGGCACAACATATCAGTTTTTAAACCTTCACTTCAAGAAAAAGTAAATGCATACATCAGGAAAGGAACAAGGCTTTTTGTCCAAGGGTCAATACAGTACAGCAACTATGTAGATCAGGAGGGAATCAAGCGATACAACACAAGCATTGTGCCAAatgatattattgttctttCTCAACCAGTTTCCATGGACGAAGCTGGCTATTAACATGTCAACCAGGAATCTCTTctattttattaaattaataCTTGTGTAGATTAGTAGGATTTATGATTGGTCAGTTAATCATAAAATGTAGATGATATACCATTCAACTACAAATGTGTTAAAATGCTATAATATTTTGAAGTACATATCACTTCCACAAGCTCTTGCTAGAATATTATTCTGCACATGTTTAAGGCATACTTTTGTTGATTTCTTCTAAAAACTCTCCCCTTTCCCTTTCATTGGCCTTGAGAGATGAGGGAACTAGCCATAGTTTGTAAACACAGACAAGCAAGGAAAGGGTATCAGCTCATTCCATACCGGATTGGCATCACAAACTACTTTGCTcccctgttttcaaagaactttcCCAATGAAAAGTTGTTTagacatttttttgttgttagtAAAAAGCCATGCAATGTCAGGTTCAGGGCCTTAAGCATCCTACTTTCACTGAGTGGGTTTCCAAAAGTGCCAAAGTAATGGGAAAATTTGTTCGTTGTATCGGGGTCTTGTTGTACACTTGATCGTCATCATGTTGtgtttacaatacaatacaatacaactttatttcactacgctagccacacacaacaaaagctggtttccaggtggggcgtaggtaaacacgttacaataaagtatatatatatatatatatatatatatttaaaatagaagtatattacatagaatcagTGCGATCCAGTAGAAGGCATGGAGGGCGAGGAGGCAAGTTTGCGTTTGAAATCAAAAAGCGATTTTGCGGTCTTTGCCTCATAGGaaagattattccagagcattgcaccactatACTTAAAGCTGCGCTTCAAACAATTTGTGTATGGCCTTGGAAGTGCTAAATCAGTCTCGATATTCCTAAGATTGTAATTTATGTTAGTATCATTCAGCTTTACAAAAGAGTTACTCAGTTGGGGGGCAAATAGATCAGATAAATCTCCAGATGTAGTGTTCAAATTATATGTTGACCCAACAATCATTAACTTAGTTTTGAGAGGGTGGAATTGGAGCTTATTAACAGTGAGCCAGTCGCTTagattttttaaatcagaatttATATTATTGGCAAGTGCGCCAATATCAAAACTAGGGGTAAAGATttgagtatcgtctgcatataaACAGGGGGTAgtgaattttaaacaatttggtaaatcatttatgTAGATAAGGAAAAGGAGAGGGCCAGGAATAGAGCCTTGGGGAACTCCACAGAGTAAGTTACTTTGAGAAGATAAGCAACCATTTATTAAACATTGTTGTTGTCGGGCAGTAAGGTAAGACTTGAACCACATCAATTCTCTATCAGGGACTCCATAAAACTTAACTTTCTCTAGTAAAATCGAATGATCAACTGAGTCGAAGGCCTTACGAATATCAAGAAAAACTACACCTGTCAATTTTCCCTTATCCATATTATCAGACCAATCATCGCACATTTGAATCAACGCCGAGACAGTCGAGTGGAGAGGGCGGAAACCAGACTGGAATTTAGAGAGAACAGAATTAACTTTCAAATAGTGATAAATTTACGTATTATTGGCAGGATTGAAATGGGTCTATAATTTCCCATATCACGACGGTCATTGCCTTTATAGACACGCGCGCATTTTTCCAGTCATCAATAAAAATTCCAGAGGAAAGTgacaaattaaatataaaagtcAAAGATGGAGCAATTATACTAGACGCGATTTTAAGGACCTTGGCAGGAATCTTATCAAGGCCAGTGCTTTTCGACACCTTTAAGTTTTTTAGCGTAAGCGCGACATTTTCCACTGGTATATTAGAGAATCGAAAGGCTGAAAAACTATTCTGAATGTTGCTGAGATATGTGTTAACGCTATTGGAGGACCTTTTCGTTGATTCAGCGGCCAAAGTTGGTCTTATGTTTACAAAGAAATCATTAAATGACTCGGAAATACCTTTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q95KK4	Single-stranded DNA-binding protein, mitochondrial OS=Oryctolagus cuniculus OX=9986 GN=SSBP1 PE=2 SV=1
B8A5I7	Single-stranded DNA-binding protein, mitochondrial OS=Danio rerio OX=7955 GN=ssbp1 PE=1 SV=1
P28042	Single-stranded DNA-binding protein, mitochondrial OS=Rattus norvegicus OX=10116 GN=Ssbp1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007472 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00436 all species →	SSB	Single-strand binding protein family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR000424 all species →	Family	Primosome PriB/single-strand DNA-binding	Interproscan
IPR011344 all species →	Family	Single-stranded DNA-binding protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10302 all species →	SINGLE-STRANDED DNA-BINDING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	Interproscan
GO:0006264 all species →	Biological Process	mitochondrial DNA replication	Interproscan
GO:0009295 all species →	Cellular Component	nucleoid	Interproscan
GO:0042645 all species →	Cellular Component	mitochondrial nucleoid	Interproscan
GO:0051096 all species →	Biological Process	positive regulation of helicase 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
K03111	ssb; single-strand DNA-binding protein	-	Mitochondrial biogenesis	ko03029	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_068744544.1 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

68.1Max TPM

17.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	30	17.45	68.05

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	68.05
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	44.51
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	30.35
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	25.98
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	25.65
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	25.58
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	25.30
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	24.22
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	23.46
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	23.31
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	21.70
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	20.42
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	18.72
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	18.69
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	17.76
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	17.51
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	17.29
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	17.06
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	16.89
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	16.62
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	16.18
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	15.28
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	13.65
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	12.59
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	12.56
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	12.28
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	12.19
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	12.13
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	11.59
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	10.64
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.