Gene detail

Detailed information of g11406.t1 in Montipora capitata

Genomic Location: Sc0000342:68679...102941
NR annotation: XP_029179547.2, ATP-binding cassette sub-family F member 1-like [Acropora millepora]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g11406.t1

atggtgaaaaagaagggcaaaaagagctctgagagcaagaaaaaattggatcttgcggctgcagttgaggcagcagagcaaggatttgaagatgaagtttcaaagctgaacttgaattcgactgattttgaaacctcagtgtcagaagatccaactggaaatgaaggcgcaaatgacgatgagatcggcacaagcaacaacgaagaagaaggtgctgccctcatgaattataaccccccagaagaaaacgcctcgacagaaaatatagaggatacagttgatcaacagaaactgagcaaaaaagagctaaagaaactcaagaaaaagcaaaagtttgaatcagaagttcaagaagtagcaggatcccagttttcagtgtctcagcaagagtcatcctcaaaaactggaattttggaaaatgcccttgatataaaggtagagaagtttagtatttctgcccgtggaaaagatctctttgtgaacgcaaacctgaatatcactgctggcagacgatatggcttagttggacctaatggtatgggaaaaacaacccttttaacacatattgctgccagaaagcttgccattcctccaaacatagatgttcttctttgtgagcaagatgtggaggcaactgaagcacctgcatttgatgtggtgttaaaagcagataagaaaagacttgagttgttagaagaggaaaagcgtttggttgcattgagtgaaaatggagatgaagaagcaacagaaaaactgaaggaggtgtatgttgagttagaggctataggtgcagcatctgcagaatcaagagtccgcaggatattggcgggtcttggtttcacatcagaaatgcaacagagacctgtcaatcacttttctggtggatggaggatgcgtgtttcccttgcaagagctctctttatggaacctacactactgatgttagatgaacccacaaaccatctggatctgaatgcagtcatttggctagacaactaccttcaaaactggaagaagacattgctcattgtgtctcacgatcaatactttctggacagcatctgtacagatattatgcatttagatcaacagaaactgtactactaccgaggaaattatgagcagtttaagaaaatgtacctacagaaggttaaagaacaagagaaagcttataataaacagcaaaagcaactgaaggatctcaaagcatctggtcaatcaaggaagcaagcggaagagaaaacaaaggcagtgcaaggaagaaagaacaaaaagggaggaaagaaagatttgcccaatgaggatgatcttgaacctgtggaacttatcaagaaacccaaagagtatgttgtcaagttctcctttcctttgccaccgccactcaatccacctatcttgggtttgaaatctgtaacatttggttaccccaaccaacctaagttgttcattaatctggattttggaattgacatgaaatctcgaattgctgttgtgggtaataatggagttggtaaaagtactcttttgaagcttttaataggtcaacttgaaccgttgaagggagagtcaatacgaaatcacagacttcgtttaggttcttataaccaacactctgctgatcagctaaatatggaagattcaccagtggagtatcttcagaaaaagtataacttggattatcaaacagcaagaaaacacctgggaagatttggtctagtgagccatgctcacaccatcaaaactagagatttatcaggtggacagaagtcacgtgttgctttcgcggatttggcactcagtaacccggatgtcattgtactggacgaacctacgaataacttggacatagaatctatagatgctcttgctgacgccataaatgaatttactggaggagtcttactagtgagccacgatgcgcgtcttattcttgaaacatcttgtcaactgtgggttgtggaaagtcagacaataactgaagtggatggtgatttcgatgattataggcaagaaatattggagaaacttggtgaagaagttattgccaagtcgcattaa

Transcript

g11406.t1

ATGGTGAAAAAGAAGGGCAAAAAGAGCTCTGAGAGCAAGAAAAAATTGGATCTTGCGGCTGCAGTTGAGGCAGCAGAGCAAGGATTTGAAGATGAAGTTTCAAAGCTGAACTTGAATTCGACTGATTTTGAAACCTCAGTGTCAGAAGATCCAACTGGAAATGAAGGCGCAAATGACGATGAGATCGGCACAAGCAACAACGAAGAAGAAGGTGCTGCCCTCATGAATTATAACCCCCCAGAAGAAAACGCCTCGACAGAAAATATAGAGGATACAGTTGATCAACAGAAACTGAGCAAAAAAGAGCTAAAGAAACTCAAGAAAAAGCAAAAGTTTGAATCAGAAGTTCAAGAAGTAGCAGGATCCCAGTTTTCAGTGTCTCAGCAAGAGTCATCCTCAAAAACTggaattttggaaaatgccctTGATATAAAGGTAGAGAAGTTTAGTATTTCTGCCCGTGGAAAAGATCTCTTTGTGAACGCAAACCTGAATATCACTGCTGGCAGACGATATGGCTTAGTTGGACCTAATGGTATGGGAAAAACAACCCTTTTAACACATATTGCTGCCAGAAAGCTTGCCATTCCTCCAAACATAGATGTTCTTCTTTGTGAGCAAGATGTGGAGGCAACTGAAGCACCTGCATTTGATGTGGTGTTAAAAGCAGATAAGAAAAGACTTGAGTTGTTAGAAGAGGAAAAGCGTTTGGTTGCATTGAGTGAAAATGGAGATGAAGAAGCAACAGAAAAACTGAAGGAGGTGTATGTTGAGTTAGAGGCTATAGGTGCAGCATCTGCAGAATCAAGAGTCCGCAGGATATTGGCGGGTCTTGGTTTCACATCAGAAATGCAACAGAGACCTGTCAATCACTTTTCTGGTGGATGGAGGATGCGTGTTTCCCTTGCAAGAGCTCTCTTTATGGAACCTACACTACTGATGTTAGATGAACCCACAAACCATCTGGATCTGAATGCAGTCATTTGGCTAGACAACTACCTTCAAAACTGGAAGAAGACATTGCTCATTGTGTCTCACGATCAATACTTTCTGGACAGCATCTGTACAGATATTATGCATTTAGATCAACAGAAACTGTACTACTACCGAGGAAATTAtgAGCAGTTTAAGAAAATGTACCTACAGAAGGTTAAAGAACAAGAGAAAGCTTATAATAAACAGCAAAAGCAACTGAAGGATCTCAAAGCATCTGGTCAATCAAGGAAGCAAGCGGAAGAGAAAACAAAGGCAGTGCAAGgaagaaagaacaaaaagggaggaaagaaagatttgCCCAATGAGGATGATCTTGAACCTGTGGAACTTATCAAGAAACCCAAAGAGTATGTTGTCAAGTTCTCCTTTCCTTTGCCACCGCCACTCAATCCACCTATCTTGGGTTTGAAATctGTAACATTTGGTTACCCCAACCAACCTAAGTTGTTCATTAATCTGGATTTTGGAATTGACATGAAATCTCGAATTGCTGTTGTGGGTAATAATGGAGTTGGTAAAAGTACTCTTTTGAAGCTTTTAATAGGTCAACTTGAACCGTTGAAGGGAGAGTCAATACGAAATCACAGACTTcgtTTAGGTTCTTATAACCAACACTCTGCTGATCAGCTAAATATGGAAGATTCACCAGTGGAGTATCTTCAGAAAAAGTATAACTTGGATTATCAAACAGCAAGAAAACACCTGGGAAGATTTGGTCTAGTGAGCCATGCTCACACCATCAAAACTAGAGATTTATCAGGTGGACAGAAGTCACGTGTTGCTTTCGCGGATTTGGCACTCAGTAACCCGGATGTCATTGTACTGGACGAACCTACGAATAACTTGGACATAGAATCTATAGATGCTCTTGCTGACGCCATAAATGAATTTACTGGAGGAGTCTTACTAGTGAGCCACGATGCGCGTCTTATTCTTGAAACATCTTGTCAACTGTGGGTTGTGGAAAGTCAGACAATAACTGAAGTGGATGGTGATTTCGATGATTATAGGCAAGAAATATTGGAGAAACTTGGTGAAGAAGTTATTGCCAAGTCGcattaa

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6MG08	ATP-binding cassette sub-family F member 1 OS=Rattus norvegicus OX=10116 GN=Abcf1 PE=1 SV=1
Q6P542	ATP-binding cassette sub-family F member 1 OS=Mus musculus OX=10090 GN=Abcf1 PE=1 SV=1
Q8NE71	ATP-binding cassette sub-family F member 1 OS=Homo sapiens OX=9606 GN=ABCF1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000995 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12848 all species →	ABC_tran_Xtn	ABC transporter	Domain	Interproscan
PF00005 all species →	ABC_tran	ABC transporter	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan
IPR032781 all species →	Domain	ABC-transporter extension domain	Interproscan
IPR017871 all species →	Conserved_site	ABC transporter-like, conserved site	Interproscan
IPR003439 all species →	Domain	ABC transporter-like, ATP-binding domain	Interproscan
IPR050611 all species →	Family	ATP-binding cassette sub-family F member, EF3 subfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19211 all species →	ATP-BINDING TRANSPORT PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	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
K06184	ABCF1; ATP-binding cassette, subfamily F, member 1	-	Translation factors	ko03012	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of g11406.t1 across 48 RNA-seq samples of Montipora capitata. 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

48TPM > 0

3Conditions

146.3Max TPM

59.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	60.98	146.32
whole organisms · low pH treatment	15	15	55.34	131.25
whole organisms · extra low pH treatment pH treatment	12	12	63.37	131.24

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	146.32
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	143.37
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	106.82
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	94.67
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	92.80
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	78.88
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	64.81
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	60.69
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	59.41
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	53.68
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	46.92
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	45.07
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	43.57
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	41.32
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	38.45
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	34.58
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	33.49
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	30.37
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	24.71
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	22.75
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	17.87
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	131.25
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	115.77
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	107.68
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	64.80
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	53.11
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	53.06
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	52.94
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	52.47
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	49.69
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	33.22
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	33.18
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	29.62
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	20.27
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	19.01
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	14.07
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	131.24
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	124.57
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	112.20
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	76.76
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	65.13
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	51.44
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	49.07
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	39.09
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	34.03
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	33.01
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	23.04
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	20.87

Source: CnidoSite RNA-seq expression matrices (MCAPI_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.