Gene detail

Detailed information of XP_068739901.1 in Montipora capricornis

Genomic Location: chr1:2787670...2827828
NR annotation: XP_044179298.1, SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1 [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138037936

ATGTCTTCCGGCGGCTTAACAGAAGAACAAAAAAAGAGGATTGCAGAAAATCGCCGAAAAGCTCTCGAGAAACGAGCCGCTCTCTTGAGTCAACGACAGCGGCAGACAACTTCAAGTGCATCGTCAGCGACTTCCAGGGAGAAAACGGGCAAATTTATCAACGGTTTTGCCGTCTCAGCCCCCCAGAACGGACATGCATTGCTTCCTTCGAGCGCAGGGAACACGTCTATGCCTCAAACATGGCATTCAACTGGAAATAACGCAAACTCACGGTCGGACATGGGCCAAACGAAAGGCAACGTGAACATGTCAACAAATACTGGTGGTTATGCTAAAAAATCACTGATCGACCCCAGTGCGAAATCACAAGGATCATCGGGTGCTGTTTCGTCAATAAATAAATCCTCGAGCAACCCATGTTCATTAAATTCGTTTCAAAGCACCTTGTCCAAATTTTGTCGTACTCAGAATGATCCCTCATTAACTGTTTTAAAGAATTCTAAAACTTTAAATCCTCCTTCAACAAGTGCGTCAAACGCGGTAAATAGTGGAGCAGGAACTTCAAAGATAGGTGGTTCGTCTAGCTTGAATGTTAGGAAACCTGAAAAGGAAGTGAAGGGAAGCTGTGTGTTGATTAGCAGGGAAAGGTTTGCTGTTGTGGTACCTTACCAACCACAGCTCATTGGGATTTTTAAAACAATAGCAAGTAGGAAATATGATGCAAAAGCACTGCAGTGGGACTTTTCTCTGGACGACTATGTCAAACTCATGCAAGCAGTAAAGTCATTACCTGCACATGTGATCGTGGAGGGATTGCCTAAAGCTGTCATTTCAACATTTCTGAAAACTACACCAGGCATTTTGAAAGAAATGTCAACCGATGAGATCAACTTAAACTCAGTTGATTTTAAGCTTGTTGATGCATTGATGCCATTTCAGCGACATGGAGTGAGTTTTAGTATTCGTCATGATGGTCGTGTTCTGATAGCTGACGATATGGGCCTGGGTAAGACAATCCAAGCCATGTGTGTTGCATGTTATTATCGACCTGAGTGGCCTCTTCTTGTCATTACACCATCCTCACTTCGGATAACATGGCAACAGGCATTTATGAAGTGGCTTCCCTCTGTGGATCCTGATGACATCAATGTCATCCTGACAGGAAAGGACAGCCCAACAGCTGGTCTCATTAACATCATCAGTTATGACCTGTTGTCAAAATGTGTAGAGGATGTGAGAAGGAAGCAATTCAGGGTCATTATAGTGGATGAGTGTCATTTTATCAAGAATTATAAAGCTTCAAGAACTCAAGCTGCACTTCCCTTACTTAAGGCAGCTACTCGTGTTATCTTGTTATCTGGGACCCCAGCTCTCTCGAGACCCTTGGAGCTGTATACTCAGATCTGTGCAGTTCAACCAGGATTGTTTCCAACGTTTCATCAATTTGGAATCCGTTACTGTGCTGGCCAGCAGAATCGCTTTGGATGGGATTTCTCTGGGGCGTCCAATATGCAAGAGCTTCAGCTCTTACTGGAAGAAAAGCTAATGATCAGGCGATTGAAGAAAGATGTTCTCTCACAGTTGCCTTCCAAGCGGCGACAAATGGTTTTGTTGGATCCATCACTCGTTAAAACCAAGACTCTGGAAAGAGCTGCTAAAGAAGTATCGAAAGCCAAGCAAAAAGAACAGCACGGAGCCCTTCTTCATTACTTTTTCGAAACTTGTGCCAGTAAGATCCCAGCGGTCAGGGATTATATTTTAGACCTGCTGGAAGGTGGTCGAAAATTTCTGGTTTTTGCTCATCACAAAGGCATGTTGGACGCTATATGTACTTGCCTTACTCAGAAGAAATATAGGTTCATTCGTATCGATGGCAACACACCCGCCGGTGTCAGACAGAGTCTGTGCGATCAATTTCAGAAGGATGAAGGTTGCTTGGTAGCCGTGCTGTCTATCACTGCTGCTAACACAGGCTTGACTCTTACCGAGGCCAACGCGGTCGTGTTTGCAGAGCTTTTCTGGAACCCCGGGGCTCTTCTGCAGGCCGAGGATCGTGTTTATAGGATCGGCCAGAAGAATTCTGTCAACATTCATTACCTTGTAGCTAAAAAGACGGCAGATGACTACCTTTGGCCACTAATTCAGAATAAACTTGAAGTTTTAGGCAAAGCAGGGCTTTCCGAAGAGGAATTAGATGCTGACTGTACATTCTTCAAGGATCCCAAGCAACAAACATTGTTTTCTTGCGTTGAATCTTTTGTGGAGGATTGTGCAGCTGAGGATTCGAGAAAATTGTTCGATAGCGCAACTTCATCTTCCAGCAGTGCTTCAAACTCTAAGGCCAACTGTAAAGCCAAGATTTTAGAGCCAGCAAAGAAATTGGTGGGTGACAGATCTGATGGTAACGGATGTGACGCAAGGAAACGAAAGCCTCAATTCGATGCTCCTGAGACAAAAAGAGCTGACAATTTTAATTGGTTTGACGATATGTCAAATGACGATTTTGTTCCAGATGAATTTCTAGAATTCGATCAAATTAATAACAATAACGAATCTGGACCCTCCGTTAAGAGATATCGACGGTAA

Transcript

rna-XM_068883800.1

GGGTAATCTTTTTACTGATTTCTTATGTGGTCAGCGGTCAATCTAGTCATGGCGGCGATTTCGAAGCACAGGTCAACTAAAAACCTGAAAATGCTGCCAATTACAACGCGTTAGATTTTAAATTGCATAGCATCCATGTCTTCCGGCGGCTTAacagaagaacaaaaaaagagGATTGCAGAAAATCGCCGAAAAGCTCTCGAGAAACGAGCCGCTCTCTTGAGTCAACGACAGCGGCAGACAACTTCAAGTGCATCGTCAGCGACTTCCAGGGAGAAAACGGGCAAATTTATCAACGGTTTTGCCGTCTCAGCCCCCCAGAACGGACATGCATTGCTTCCTTCGAGCGCAGGGAACACGTCTATGCCTCAAACATGGCATTCAACTGGAAATAACGCAAACTCACGGTCGGACATGGGCCAAACGAAAGGCAACGTGAACATGTCAACAAATACTGGTGGTTATGCTAAAAAATCACTGATCGACCCCAGTGCGAAATCACAAGGATCATCGGGTGCTGTTTCGTCAATAAATAAATCCTCGAGCAACCCATGTTCATTAAATTCGTTTCAAAGCACCTTGTCCAAATTTTGTCGTACTCAGAATGATCCCTCATTAACTGTTTTAAAGAATTCTAAAACTTTAAATCCTCCTTCAACAAGTGCGTCAAACGCGGTAAATAGTGGAGCAGGAACTTCAAAGATAGGTGGTTCGTCTAGCTTGAATGTTAGGAAACCTGAAAAGGAAGTGAAGGGAAGCTGTGTGTTGATTAGCAGGGAAAGGTTTGCTGTTGTGGTACCTTACCAACCACAGCTCATTGggatttttaaaacaatagcaAGTAGGAAATATGATGCAAAAGCACTGCAGTGGGACTTTTCTCTGGACGACTATGTCAAACTCATGCAAGCAGTAAAGTCATTACCTGCACATGTGATCGTGGAGGGATTGCCTAAAGCTGTCATTTCAACATTTCTGAAAACTACACCAGgcattttgaaagaaatgtcAACCGATGAGATCAACTTAAACTCAGTTGATTTTAAGCTTGTTGATGCATTGATGCCATTTCAGCGACATGGAGTGAGTTTTAGTATTCGTCATGATGGTCGTGTTCTGATAGCTGACGATATGGGCCTGGGTAAGACAATCCAAGCCATGTGTGTTGCATGTTATTATCGACCTGAGTGGCCTCTTCTTGTCATTACACCATCCTCACTTCGGATAACATGGCAACAGGCATTTATGAAGTGGCTTCCCTCTGTGGATCCTGATGACATCAATGTCATCCTGACAGGAAAGGACAGCCCAACAGCTGGTCTCATTAACATCATCAGTTATGACCTGTTGTCAAAATGTGTAGAGGATGTGAGAAGGAAGCAATTCAGGGTCATTATAGTGGATGAGTGTCATTTTATCAAGAATTATAAAGCTTCAAGAACTCAAGCTGCACTTCCCTTACTTAAGGCAGCTACTCGTGTTATCTTGTTATCTGGGACCCCAGCTCTCTCGAGACCCTTGGAGCTGTATACTCAGATCTGTGCAGTTCAACCAGGATTGTTTCCAACGTTTCATCAATTTGGAATCCGTTACTGTGCTGGCCAGCAGAATCGCTTTGGATGGGATTTCTCTGGGGCGTCCAATATGCAAGAGCTTCAGCTCTTACTGGAAGAAAAGCTAATGATCAGGCGATTGAAGAAAGATGTTCTCTCACAGTTGCCTTCCAAGCGGCGACAAATGGTTTTGTTGGATCCATCACTCGTTAAAACCAAGACTCTGGAAAGAGCTGCTAAAGAAGTATCGAAAGCCAAGCAAAAAGAACAGCACGGAGCCCTTCTTCATTACTTTTTCGAAACTTGTGCCAGTAAGATCCCAGCGGTCAGGGATTATATTTTAGACCTGCTGGAAGGTGGTCGAAAATTTCTGGTTTTTGCTCATCACAAAGGCATGTTGGACGCTATATGTACTTGCCTTACTCAGAAGAAATATAGGTTCATTCGTATCGATGGCAACACACCCGCCGGTGTCAGACAGAGTCTGTGCGATCAATTTCAGAAGGATGAAGGTTGCTTGGTAGCCGTGCTGTCTATCACTGCTGCTAACACAGGCTTGACTCTTACCGAGGCCAACGCGGTCGTGTTTGCAGAGCTTTTCTGGAACCCCGGGGCTCTTCTGCAGGCCGAGGATCGTGTTTATAGGATCGGCCAGAAGAATTCTGTCAACATTCATTACCTTGTAGCTAAAAAGACGGCAGATGACTACCTTTGGCCACTAATTCAGAATAAACTTGAAGTTTTAGGCAAAGCAGGGCTTTCCGAAGAGGAATTAGATGCTGACTGTACATTCTTCAAGGATCCCAAGCAACAAACATTGTTTTCTTGCGTTGAATCTTTTGTGGAGGATTGTGCAGCTGAGGATTCGAGAAAATTGTTCGATAGCGCAACTTCATCTTCCAGCAGTGCTTCAAACTCTAAGGCCAACTGTAAAGCCAAGATTTTAGAGCCAGCAAAGAAATTGGTGGGTGACAGATCTGATGGTAACGGATGTGACGCAAGGAAACGAAAGCCTCAATTCGATGCTCCTGAGACAAAAAGAGCTGACAATTTTAATTGGTTTGACGATATGTCAAATGACGATTTTGTTCCAGATGAATTTCTAGAATTCGAtcaaattaataacaataacgaATCTGGACCCTCCGTTAAGAGATATCGACGGTAACCTGTGTATGACATTCACTTTTATGTGTTGTGAAGTGTTCGCATTCGGTTTTGTTGGGTGGAAATCCTTTGGCAGCAAGGATCAAAATCAACCACTGAACCAAGTCCGTGAGAATGGAACTCTAGACAAACTCCTTGTTGTTACAGCAACCGCTTATCACTGTTAAGTGTCCatattttttgtttgcgtttttATACATTGGAGTCTCTGTGATTGGTCAAGGACACACGCGCGACTGATAAGTCAACCAATCACATGTTCGCATGTGTTTTCGCGCGCTTGGCGTCATGGGACATACAATGATGGTCGTTGTTTTGTTCTTCGCTCACCCGGGCTCTTtcacctttcctttttcctttgtcATCGAAGACATTGAAGGAGAAATGGACAGCCATGCATGGTTCGAGGTCGTTTTGTTTGTTGGCATAACTcgtttgttttggtattgttttGGTAAAAATTTTTTACGTTTAAGTTTGCGGCACCTTTTGTTACGTACACATGAGAAAGGTGAAACCAAATCCCGCGTTATTTGCGTGCAAGGTGTCTACCTTGTCAAAGCATTTGGCACATCCCCTTTCTGGAAAGGCGGGAAATTTAGATTTAGCATAAATGATTTGTGACTGAAAATAGATCATGAAATTGAAATAATGTAAGGAATCTCCTAAGGACGGAACTTATTGTTCTCTGTACAACGTGATttgaccaaagaaaaaaaaagaaatagaagtTACTCAACACGTGGAAGAttgttattacttttttttagtCCTGAGTAATCAAGTGAGTGTGATATCTTGTGAAACtatattgttttgttatttcgtGCCCGTCACACAAACAATCGCGTTGCGAAACTCCGTGTTGCCTAAAGACATTTTACGGTGCATTCTTTtggaaaaacatcaaacaaacaGCGGCCACAAACATAAGGATAAAACGCATTTTACTttggacttgacgtttcgtatgctacaacatacatcttcagaagtgacggttgaacaaattcaaatatgatatatatgtaaaattaagaagactggtaactaAAGAGAATAGGAATAAACCTCAAAGTAATATTCCAGAGCAC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q498E7	SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1 OS=Xenopus laevis OX=8355 GN=smarcal1 PE=2 SV=1
Q0P4U8	SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1 OS=Xenopus tropicalis OX=8364 GN=smarcal1 PE=2 SV=1
B4F769	SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1 OS=Rattus norvegicus OX=10116 GN=Smarcal1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001424 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00176 all species →	SNF2-rel_dom	SNF2-related domain	Domain	Interproscan
PF07443 all species →	HARP	HepA-related protein (HARP)	Family	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR000330 all species →	Domain	SNF2, N-terminal	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR010003 all species →	Domain	HARP domain	Interproscan
IPR049730 all species →	Domain	SNF2/RAD5-like, C-terminal helicase domain	Interproscan
IPR038718 all species →	Homologous_superfamily	SNF2-like, N-terminal domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45766 all species →	DNA ANNEALING HELICASE AND ENDONUCLEASE ZRANB3 FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0031297 all species →	Biological Process	replication fork processing	Interproscan
GO:0048478 all species →	Biological Process	obsolete replication fork protection	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0140658 all species →	Molecular Function	ATP-dependent chromatin remodeler 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
K14440	SMARCAL1, HARP; SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A-like protein 1	EC:5.6.2.-	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_068739901.1 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

6.7Max TPM

2.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	27	2.15	6.70

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	6.70
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	6.69
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	4.28
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	4.15
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	4.11
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	3.94
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	3.85
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	3.63
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	3.63
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	3.56
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	3.18
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	3.16
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	2.76
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	2.75
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	2.45
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	2.24
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	2.20
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	2.15
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	1.87
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	1.86
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	1.52
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	1.45
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	1.44
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	1.01
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	0.99
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	0.94
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	0.80
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.