Gene detail

Detailed information of g15237.t1 in Montipora capitata

Genomic Location: Sc0000592:132066...138839
NR annotation: XP_015762628.1, PREDICTED: glycine betaine transporter OpuD-like [Acropora digitifera]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g15237.t1

atggaggctgaagaaaatctgcaggaacatttgaaaaaatgtcgttggttgaagatacactggctttggtcgaaaatcggcaaagtgaaacttggtatctttctgaggttcaatccactggtaagcttcctttcggctgccattatctggggctttgttatttggtgtgtagtgaagtcagaggctgccagcgaagagatgggacgatggaagatctggataacggagaagttcacgtggatgtacatcggaactcaggacatttgggccgttatcatcataatgttgtacttttccaagtattcgaacatgaagctcggacgagacgatgaagagcccgaattcaacgatgtcacctatttcacgatgctgtttgcagctggtattggtatcggactcttttacttcggtgttgctgagccaatttatcattatgctcctggtccgtatggcaaccggtacgaaggaaggtacaccgataaccagttggcccaagacgctatgaatctgacgtttttccactggggtattcatggttggattgtttacgtagtagttggacttctcctggcttttgtatgctataggcaaggtcttccaatgaccgtccgttcgtgcttctacccactcattggggacaaagtctatgggtggatgggcgatgtcatcgacattctttcaatttgtggtaccatgttcggcgtctgcaccagtcttggattgggtgcaattcaacttaatgcaggtattcatcgtctgaacccaagcatcgagatttcatccaccaaccagataatcatcatctggtgcgtgactgcctgcgccactgtgtctgttattactggcctcaagctcggaatacgacgtctaagcgaaatatgctttggcatcggcatgcttctcatgcttgttgtattcttccacgacgatacctggttcctgcttaacttgtacacacagagtgtgggctactacctgcaatggatcatacagcttggtttccacacagacgcctttgcccaaatggggaattccaaggacaaacatgaagtggtaaattggatgaacgactggacaatcttttactggggatggtggatcgcctggagcccttttgtcggaatgttcattgccaaaatttcccgaggtcgcaccatcaagcagtttattaatgccaccatgactgctcccattgtgtactccttcatgtggctgacgatctttggcggagctggtatcaggatggagcgtttagcgttccacgctaacgtttcctgtgactctcgtctcggggggaagatgtccactgagagcttcaacggattgtaccgtctgtcctgtcgcagcagcgatgacatgtggtttgatctagtggagcaatatggcgacattggatcagtgctgtccattatatccttagccggcatcatcctgtactttgtaaccagttctgatagtggctctctcgtcattgactgtctctcagcaaatggtgatcctgatcccccaatccttcagcgtatcttctgggcactaacagagggagctaccgccacagcactgctatttgctggcggtccccaggctttgacagctctgcaaacggtgtccatagcagctggagttccctacaccatattgttatgtttcatgtgcgttgcattatggcgtgctgtccacattgaaggtggggcccttgatcctaatggtccagctttcagtgtcgaccttcttgaagtccttagtaatcccactctcaattccttgggcagagttgctttggccattttttgtccatggtatcccatgggaaaagctgcctggaggcttgatggcggcaaaggaagtccaataagctactatatgtccattgcaattccattctatctctgggtcatcggtatggccttagaaccagttgtcgagggcttgagttacctggcctgggcaatactgttcgcatttttcgcgtacggcactgcgatccgtattggcatccgtgagaaatttggcatcaatggtaacatggtggaggacttcttcgctgtgatgcttctctacccgtttgcagcctaccagatggatcactttatggaaaaccctcccttttcacccttacatggtgcctacaacgtcgacgcttatgggaatggcaaaggcgtggcatacgagaacaagggtgttgatgatgtccctctcgaaaaagtagacactgcgttctga

Transcript

g15237.t1

atggAGGCTGAAGAAAATCTGcaggaacatttgaaaaaatgtCGTTGGTTGAAGATACACTGGCTTTGGTCGAAAATCGGCAAAGTGAAACTTGGTATCTTTCTGAGGTTCAATCCACTGGTAAGCTTCCTTTCGGCTGCCATTATCTGGGGCTTTGTTATTTGGTGTGTAGTGAAGTCAGAGGCTGCCAGCGAAGAGATGGGACGATGGAAGATCTGGATAACGGAGAAGTTCACGTGGATGTACATCGGAACTCAGGACATTTGGGCCGTTATCATCATAATGTTGTACTTTTCCAAGTATTCGAACATGAAGCTCGGACGAGACGATGAAGAGCCCGAATTCAACGATGTCACCTATTTCACGATGCTGTTTGCAGCTGGTATTGGTATCGGACTCTTTTACTTCGGTGTTGctGAGCCAATTTATCATTATGCTCCTGGTCCGTATGGCAACCGGTACGAAGGAAGGTACACCGATAACCAGTTGGCCCAAGACGCTATGAATCTGACGTTTTTCCACTGGGGTATTCATGGTTGGATTGTTTACGTAGTAGTTGGACTTCTCCTGGCTTTTGTATGCTATAGGCAAGGTCTTCCAATGACCGTCCGTTCGTGCTTCTACCCACTCATTGGGGACAAAGTCTATGGGTGGATGGGCGATGTCATCGACATTCTTTCAATTTGTGGTACCATGTTCGGCGTCTGCACCAGTCTTGGATTGGGTGCAATTCAACTTAATGCAGGTATTCATCGTCTGAACCCAAGCATCGAGATTTCATCCACCAACCAGATAATCATCATCTGGTGCGTGACTGCCTGCGCCACTGTGTCTGTTATTACTGGCCTCAAGCTCGGAATACGACGTCTAAGCGAAATATGCTTTGGCATCGGCATGCTTCTCATGCTTGTTGTATTCTTCCACGACGATACCTGGTTCCTGCTTAACTTGTACACACAGAGTGTGGGCTACTACCTGCAATGGATCATACAGCTTGGTTTCCACACAGACGCCTTTGCCCAAATGGGGAATTCCAAGGACAAACATGAAGTGGTAAATTGGATGAACGACTGGACAATCTTTTACTGGGGATGGTGGATCGCCTGGAGCCCTTTTGTCGGAATGTTCATTGCCAAAATTTCCCGAGGTCGCACCATCAAGCAGTTTATTAATGCCACCATGACTGCTCCCATTGTGTACTCCTTCATGTGGCTGACGATCTTTGGCGGAGCTGGTATCAGGATGGAGCGTTTAGCGTTCCACGCTAACGTTTCCTGTGACTCTCGTCTCGGGGGGAAGATGTCCACTGAGAGCTTCAACGGATTGTACCGTCTGTCCTGTCGCAGCAGCGATGACATGTGGTTTGATCTAGTGGAGCAATATGGCGACATTGGATCAGTGCTGTCCATTATATCCTTAGCCGGCATCATCCTGTACTTTGTAACCAGTTCTGATAGTGGCTCTCTCGTCATTGACTGTCTCTCAGCAAATGGTGATCCTGATCCCCCAATCCTTCAGCGTATCTTCTGGGCACTAACAGAGGGAGCTACCGCCACAGCACTGCTATTTGCTGGCGGTCCCCAGGCTTTGACAGCTCTGCAAACGGTGTCCATAGCAGCTGGAGTTCCCTACACCATATTGTTATGTTTCATGTGCGTTGCATTATGGCGTGCTGTCCACATTGAAGGTGGGGCCCTTGATCCTAATGGTCCAGCTTTCAGTGTCGACCTTCTTGAAGTCCTTAGTAATCCCACTCTCAATTCCTTGGGCAGAGTTGCTTTGGCCATTTTTTGTCCATGGTATCCCATGGGAAAAGCTGCCTGGAGGCTTGATGGCGGCAAAGGAAGTCCAATAAGCTACTATATGTCCATTGCAATTCCATTCTATCTCTGGGTCATCGGTATGGCCTTAGAACCAGTTGTCGAGGGCTTGAGTTACCTGGCCTGGGCAATACTGTTCGCATTTTTCGCGTACGGCACTGCGATCCGTATTGGCATCCGTGAGAAATTTGGCATCAATGGTAACATGGTGGAGGACTTCTTCGCTGTGATGCTTCTCTACCCGTTTGCAGCCTACCAGATGGATCACTTTATGGAAAACCCTCCCTTTTCACCCTTACATGGTGCCTACAACGTCGACGCTTATGGGAATGGCAAAGGCGTGGCATACGAGAACAAGGGTGTTGATGATGTCCCTCTCGAAAAAGTAGACACTGCGTTCTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P9WPR6	Uncharacterized transporter MT0942 OS=Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh) OX=83331 GN=MT0942 PE=3 SV=1
P9WPR7	Uncharacterized transporter Rv0917 OS=Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv) OX=83332 GN=Rv0917 PE=3 SV=1
P63696	Uncharacterized transporter Mb0941 OS=Mycobacterium bovis (strain ATCC BAA-935 / AF2122/97) OX=233413 GN=BQ2027_MB0941 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000591 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04749 all species →	PLAC8	PLAC8 family	Family	Interproscan
PF02028 all species →	BCCT	BCCT, betaine/carnitine/choline family transporter	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000060 all species →	Family	BCCT transporter family	Interproscan
IPR018093 all species →	Conserved_site	BCCT transporter, conserved site	Interproscan
IPR006461 all species →	Family	PLAC8 motif-containing protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR30047 all species →	HIGH-AFFINITY CHOLINE TRANSPORT PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006810 all species →	Biological Process	transport	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0016021 all species →	Cellular Component	membrane	Interproscan
GO:0022857 all species →	Molecular Function	transmembrane transporter activity	Interproscan
GO:0071705 all species →	Biological Process	nitrogen compound transport	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
K02168	betT, betS; choline/glycine/proline betaine transport protein	-	Transporters	ko02000	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g15237.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

412.7Max TPM

210.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	226.41	412.67
whole organisms · low pH treatment	15	15	187.32	289.08
whole organisms · extra low pH treatment pH treatment	12	12	210.87	329.81

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	412.67
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	374.96
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	364.76
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	338.96
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	306.21
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	282.01
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	252.98
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	231.78
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	210.54
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	207.29
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	192.84
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	190.39
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	171.71
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	167.56
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	161.63
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	155.25
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	152.82
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	147.96
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	146.68
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	143.50
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	142.18
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	289.08
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	245.73
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	240.97
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	235.85
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	230.27
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	196.47
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	173.95
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	172.13
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	166.03
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	161.58
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	153.89
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	146.11
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	133.00
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	132.43
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	132.30
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	329.81
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	307.75
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	278.63
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	267.82
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	241.87
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	186.70
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	173.95
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	163.36
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	156.78
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	156.67
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	145.94
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	121.18

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.