Gene detail

Detailed information of XP_068744153.1 in Montipora capricornis

Genomic Location: chr3:12276093...12289789
NR annotation: XP_029192054.2, glycine betaine transporter OpuD-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

LOC138042237

ATGGAAATAGAAGAAAACGTTCAGGAGAAGTTTCGTTGGTTTCGTTTTAGCTTGAAATGTGGACGATTTTCAATCACTATTCGATTCAACCCAGTCGTATCTATTCTTTCAGCCGTGATTATTTGGGCCTTTGTGATCTGGTGTTCGATTGAGGCCGAATCGGCAGAGAAAGAGATGATTAAATGGATGAAATGGATCACGCACACCTGTACCTGGTTATACATTGGTTCACAAGATGTCTGGGCTATCTTCATCATCGTGCTGTACTTCTCCAAATACGGCAACATGAAACTGGGAAAACCGGCCGACAAACCGGATTTTAGTGACGCTACGTACTTCACGATGCTCTTCGCTGCTGGAATTGGTGTCGGTCTGTTCTACTTCGGAGTTGCTGAACCAGTTTTCCATTATGCCTCTACAGTAAGCTACAAGTCTGGAAATCGCTATTTTGGCAGGTATAACGATAATCAGAGAGCTCAGGATGCTATGAATTTGACTCTCTTTCATTGGGGTATACACGCCTGGATCGTGTACGTTATCGTTGGACTTCTCCTTGCCTTTGTTGGTTACAAAAAAGGCCTTCCTATGACCATTCGATCCTGCTTCTACCCTCTTATCGGAGACAAGATATTCGGTTGGATGGGCGATGCAGTGGATATCCTGTCAGTAGTTTGCACCATGTTTGGCGTTTGCACCAGTCTTGGACTCGGCTGCATCCAGATGAATACCGGCTTCAACCGCGTTTTTGACAAGATCGAATTCTCTAAAACGAATCAAATCATCATCATTTGGTGCGTGACAGCCTGTGCGACTGCCTCAGTTGTCAGTGGCCTGAAAGTTGGAATTCGACGGCTAAGCGAGATCTGCTTCACCATTGGCATGTTCATCATGTTGATTGGCTTCTTCTACGAGGACACTTGGCACATACTCAATGTTTACGTTCAAAGCATTGGATACTACATCCAGTGGATCGTCCAACTTGGCTTCCACACAGATGCATTTGCTCAACTCGGAAACGCACCAGACGGAAAACAGGCGCAGTTTTGGATGAACGATTGGACGATCTTCTACTGGGGCTGGTGGATCGCATGGTCTCCTTTCGTGGGTATGTTTATCGCCAAGATCTCAAAAGGTAGAACCATCAAACAATTCATTAATGGTACAATGACAGCTCCAATTATATATTCGTTTCTGTGGTTTTGCATCTTTGGCAGTGCAGGCTTGAAAATGGAAAGAGATGCCGAGAGAGCAAACATCACGTGTTCATCTGCCCTTGGAGGAAAGAACAGTACAGAGTCGATGAACGGACTGTACCGGTTATCGTGTAGACAAACGAACGAGATGTGGTTTGACGTAATGGGCCAATATGGTGATCTTGGAATGTTCCTCTCAATCGTGTCTCTCATTGGAATCATCTTCTACTTCGTCACAAGCTCCGACAGCGGTTCCTTAGTGATTGATTGTCTCTCCGCCAACGGTGATCCGGATCCTCCTATCATCCAGCGTGTATTTTGGGCCTTAACCGAAGGCGCATGTGCCACAGCTCTGCTCTATGCGGGAGGCCCAAGCGGACTAAAGGCTCTTCAATCAATGTCCATAGCATCAGGTGTCCCTTATACTATTCTACTGTGCTTCATGTGCGTGGCATTGTGGAGAGCAGTTAAGATGGAAGCTGGTGACCTTGATCAGCACGGTCCAAAGTTCAGCACTGGTCTATTAGACGTAATAAGCAATCCGACGTTCTCAGGCATCGGTAAAGTACTTTTGGCTGCCGTCGCCCCATGGTATCCCATGGGAAGAGCTGCTTACAAACTTGGTGGATCAAAAGACCGGCAATGGCTCTACATGCTCATTCTGGCAGTTCCGTTTTATCTTTGGATTTTACTGTTATGTCTGGAATCTGTCGTTGCTGGCCTATCCTACGTTGGGTGGGCTGTGCTGTTTGGGTTCTTCGCGTATGGCACAGCCATTCGCAATGCCATGCGGGAGAAGTACAACATATACGGAAACATGGTTGAAGATTTCTTTGCAGTGATGTTAACGTACCCTTTTGCTGCTGCTCAGATGGAACATCACGTCAATCATATCAATAGTATCGACCTGGGTGGAAAAAGTGCTGCAAACGGTGCATCAAGCCATGAAATTGATCTGTGTGAGGTTCACACAAATACCGTGGCTGAAAACGGCAGTGGCATGGAGACGAGACATACCAACGGCGCGATCTCCACTCCAAAAACTAAAAATGATGCCGCCCCGTCGAAATTTGACCAGCCCTCTATTGTGGTAGCTAATCTAACGCACACTGATGAGAACCTTCCTCCTTATGAGGATGCGAAGTTATAA

Transcript

rna-XM_068888052.1

TTCCTCGCTGGTCGCACTCGCACTGGCTCCTATGAGCCTGATTTCAAATGttccctcttttttttttttttttttaagaagtcGCTATACCAGTGTTTATGGACTTTGAATCGGCAGGATAAAAAGCTTGGTTCACGAATTTATGGTGATTTCAAGAATTTGCGAGGATTTCTTTGCTTTGTGTGAACAAGTCATGTTGGCGCAAATTGATTTTTGATATTAATTAACGATAATTTGTGAGCGTGTAAGTTAAATGCACTTTCAGCTAGGCAAAAGGTCTATACTAGTTTCcaaaagtggtcagtgatttggCATATCAGACTCTATGTGAAAATACACGATCCCGGAAAATTACTTTCCCTATTTGACAGACAACTGCTAGAAAGATTGACGTGCCTCAGTTTACATTCCATTGATACTCACAAAAGCCAATAAATCAGATAGATTGACCTGAAAATTCATTTGAGCACGCTCCTTACTTTAGTGGAGTTCATACGCTTAAACGATcgcagaaaaaaatggaaatagaaGAAAACGTTCAGGAGAAGTTTCGTTGGTTTCGTTTTAGCTTGAAATGTGGACGATTTTCAATCACTATTCGATTCAACCCAGTCGTATCTATTCTTTCAGCCGTGATTATTTGGGCCTTTGTGATCTGGTGTTCGATTGAGGCCGAATCGGCAGAGAAAGAGATGATTAAATGGATGAAATGGATCACGCACACCTGTACCTGGTTATACATTGGTTCACAAGATGTCTGGGCTATCTTCATCATCGTGCTGTACTTCTCCAAATACGGCAACATGAAACTGGGAAAACCGGCCGACAAACCGGATTTTAGTGACGCTACGTACTTCACGATGCTCTTCGCTGCTGGAATTGGTGTCGGTCTGTTCTACTTCGGAGTTGCTGAACCAGTTTTCCATTATGCCTCTACAGTAAGCTACAAGTCTGGAAATCGCTATTTTGGCAGGTATAACGATAATCAGAGAGCTCAGGATGCTATGAATTTGACTCTCTTTCATTGGGGTATACACGCCTGGATCGTGTACGTTATCGTTGGACTTCTCCTTGCCTTTGTTGGTTACAAAAAAGGCCTtcctatgaccattcgatcctGCTTCTACCCTCTTATCGGAGACAAGATATTCGGTTGGATGGGCGATGCAGTGGATATCCTGTCAGTAGTTTGCACCATGTTTGGCGTTTGCACCAGTCTTGGACTCGGCTGCATCCAGATGAATACCGGCTTCAACCGCGTTTTTGACAAGATCGAATTCTCTAAAACGAATCAAATCATCATCATTTGGTGCGTGACAGCCTGTGCGACTGCCTCAGTTGTCAGTGGCCTGAAAGTTGGAATTCGACGGCTAAGCGAGATCTGCTTCACCATTGGCATGTTCATCATGTTGATTGGCTTCTTCTACGAGGACACTTGGCACATACTCAATGTTTACGTTCAAAGCATTGGATACTACATCCAGTGGATCGTCCAACTTGGCTTCCACACAGATGCATTTGCTCAACTCGGAAACGCACCAGACGGAAAACAGGCGCAGTTTTGGATGAACGATTGGACGATCTTCTACTGGGGCTGGTGGATCGCATGGTCTCCTTTCGTGGGTATGTTTATCGCCAAGATCTCAAAAGGTAGAACCATCAAACAATTCATTAATGGTACAATGACAGCTCCAATTATATATTCGTTTCTGTGGTTTTGCATCTTTGGCAGTGCAGGCTTGAAAATGGAAAGAGATGCCGAGAGAGCAAACATCACGTGTTCATCTGCCCTTGGAGGAAAGAACAGTACAGAGTCGATGAACGGACTGTACCGGTTATCGTGTAGACAAACGAACGAGATGTGGTTTGACGTAATGGGCCAATATGGTGATCTTGGAATGTTCCTCTCAATCGTGTCTCTCATTGGAATCATCTTCTACTTCGTCACAAGCTCCGACAGCGGTTCCTTAGTGATTGATTGTCTCTCCGCCAACGGTGATCCGGATCCTCCTATCATCCAGCGTGTATTTTGGGCCTTAACCGAAGGCGCATGTGCCACAGCTCTGCTCTATGCGGGAGGCCCAAGCGGACTAAAGGCTCTTCAATCAATGTCCATAGCATCAGGTGTCCCTTATACTATTCTACTGTGCTTCATGTGCGTGGCATTGTGGAGAGCAGTTAAGATGGAAGCTGGTGACCTTGATCAGCACGGTCCAAAGTTCAGCACTGGTCTATTAGACGTAATAAGCAATCCGACGTTCTCAGGCATCGGTAAAGTACTTTTGGCTGCCGTCGCCCCATGGTATCCCATGGGAAGAGCTGCTTACAAACTTGGTGGATCAAAAGACCGGCAATGGCTCTACATGCTCATTCTGGCAGTTCCGTTTTATCTTTGGATTTTACTGTTATGTCTGGAATCTGTCGTTGCTGGCCTATCCTACGTTGGGTGGGCTGTGCTGTTTGGGTTCTTCGCGTATGGCACAGCCATTCGCAATGCCATGCGGGAGAAGTACAACATATACGGAAACATGGTTGAAGATTTCTTTGCAGTGATGTTAACGTACCCTTTTGCTGCTGCTCAGATGGAACATCACGTCAATCATATCAATAGTATCGACCTGGGTGGAAAAAGTGCTGCAAACGGTGCATCAAGCCATGAAATTGATCTGTGTGAGGTTCACACAAATACCGTGGCTGAAAACGGCAGTGGCATGGAGACGAGACATACCAACGGCGCGATCTCCACtccaaaaactaaaaatgaTGCCGCCCCGTCGAAATTTGACCAGCCCTCTATTGTGGTAGCTAATCTAACGCACACTGATGAGAACCTTCCTCCTTATGAGGATGCGAAGTTATAAATAAGGCCAAGATTTTTAAAATAGTCAAGTGAAGTCACTTTTAACTATTGAATATCTTTCGAGAGCTATCCCTTCTTCTATTTTTATTAAAACCAATTAGTGGTCTAttcatttgttttatttatagAATATACATTGCGAGCCATTTTAGTACgaaatgaatttttcaaaaGATTCTGATTTATTCTGTACCACATATTAAGTAGCAAAATTTGGGCACCTGTTATGGTTGCATTTTTACCTAGATGAGGTTTCAAATGAACCAGTTATGTCATATTATTCCGCAACTTGGCACCTAACAGCCGCCATTTCAGGTGCTCCATGATAAGAAGAACTAAATTTTTTGCAGTAGTGTAATACGACTTAAGAACGTTTCAACATTCGGCAGCTGAACATGGCATTGTTCTCAATGGTGCAGTAAAACGCGTTACTTGAGGTAACATGAACATGCGAGTGAAAATTTATTAGGTATGGCGTATAGTGGCGTCTTTGGGCATCATCATTTGCCCCGTATTTAAATCTGCGCAAGGATGTGTAAGACTGGAAGTAGGAGAAAAGATGTCTGCTAAACGATCAGTATCAGCTTCACTAGTTTTGTGTTTTATCACAGCTAGAACCGCATGAATGTGACAACTGGTCGACTCTTTCCGAATAATAAGTTAATGCTTGTTGCATAGTAAAAGTTTTAGAATAGTGAACGTA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q87NG3	Glycine betaine transporter 1 OS=Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633) OX=223926 GN=VP1905 PE=1 SV=1
A0A0B5RUB0	Trimethylamine transporter OS=Myroides profundi OX=480520 GN=tmaT PE=1 SV=1
P9WPR6	Uncharacterized transporter MT0942 OS=Mycobacterium tuberculosis (strain CDC 1551 / Oshkosh) OX=83331 GN=MT0942 PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000606 (this species only) · gene tree & orthology

Pfam domain

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

InterPro

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

No KEGG orthology assignment for XP_068744153.1.

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

Expression pattern (RNA-seq)

Transcript abundance of XP_068744153.1 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

29TPM > 0

1Conditions

115.9Max TPM

29.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	29	29.28	115.93

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	115.93
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	112.46
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	109.45
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	55.13
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	53.95
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	52.14
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	42.21
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	41.89
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	35.71
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	32.62
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	31.11
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	27.76
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	27.53
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	25.62
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	24.53
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	24.46
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	23.62
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	22.34
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	21.96
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	21.74
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	21.25
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	17.95
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	17.13
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	16.77
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	16.74
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	16.26
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	15.94
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	15.50
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	14.29
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
SRR12959230	Polyps	Polyps	E3 day3	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.