Gene detail

Detailed information of gfas1.m1.2011.m1 in Galaxea fascicularis

Genomic Location: Sc0000067:251681...261235
NR annotation: XP_020626184.1, numb-like protein [Orbicella faveolata]
Species Galaxea fascicularis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

gfas1.m1.2011.m1

CCGGTTCGTAAGCCAGTTCTTACTCCGAGCAAATGTATTTGTAAACTGTCTTCCATATCTTGTAATTCATTTTTTTTGTTTGTGTTCAATAAGAAATTTTTGTAGAATGAATAAGTTGAAGCGAAGCCTTAGTTTGAGAAGTTCAAAACGGCACATTCCGGAGAGTGTTAGACCGCAAATCTGGGAAAACGACAGCTATAAAGTACGGAATGGAGGCGTTAGTTTTCCAGTCAAGTACGTAGGATCCATAGAAGTAACTGAATCAAGAGGAACTCAAGTTTGCGCCGAGGCTTTTCGAAAGATGAAAGAGGTTGGTACTGTCAAGAAGAAGCGAATGCAGCTTCTTGTTACGGCAGATTGCGTTCGAGTCGTGGATGAGCAAACTAAGTCACTAGTTATTGATCAAACAATTGAAAAAGTTTCATTCTGTACTCCTGATCCAAGCAATGACCGAGTGTTCTCGTACATCTGTCGTGAAGGAACCACCAGACGATGGATGTGTCATTCCTTCATTGCCATGAGGGACACAGGTGAGCGCCTTAGTCATGCCGTTGGTTGTGCATTCACAGCATGTCTTCAGCGAAAACAGAAGGCTCAGGCTCTACAGCAGCAGCATAAAGAGCAGCAGCAGATACAACAACAACAACAACCAGGACAGCAAGTGCAACCACCTGCTACAGCAGCTGTGACACCTAGTCCTGCTAATACCACACCACTAGTCAATGGCACAAGTCCATCAAATTCACTACCACAAGAGCCATCACCAGGACAAATCACCACTCCTACCCCCACCCCCACCCCCACGTCAACTACAGCTCCTATAGCTGCTGCAGCAGTACCATCAAATGTGACTACAGCTCCCATTCAGAATGGTTCTGCAGTGACATCTACAACACAGCAGTTGCCTTCACCTGACCAACCAAATCAAAGCAATGCAACAGCTACTGTTCTTAAGCCACCACCGTCAGTAGCACGACCACGCCCACAGCCTTTCAATCCTTCACCATTCACTCGTCACATGTCTCTGCGATACCGCTCGAATCCTCTGTCTTTTATACCTCTACGTGGGGACACAAGTGGATATGAGACTCTGACGGAAGAACCAACAGTTCCTCAGTTGCCACCAGCAGTTGATGCCCTCATGCTGCAGAACAGCACCTCTTCTTCATCAGGAACACCTATTCTACAGCCTACTGTCCAGCCCAGCACTCCAAGTCAACCAGCGACCATGTACAATGGATTGAGTGCAAATTCATCATCAACAACAACAGCTTCCTCTACTTTACTGAACTTAAGTAGAGGAGGCAATGTGCCAAGTCAACCAGCTCCACTTCAGCCATATGCAGTACCTTCAGCTTCTCCCCTGGTCAGTGGTCCCTCACAGTGGGGTGCTGCAGGCCACCAACAGCAGCAACCACAACAGCAGTCCCAGCCTCAACCACAGCCTCAGCGAAAACGTAATCTTTCAGAAGCTGAAATGTGGCTAGCGTCAGCCTCTGCGGACACAGGTACACCACCTGGAACAACAGTACAAGCAAACCAAGGCCTGCTAACCACAGTAAATCCGTTTGCAGAAACGGCCTCCCAAATCAATGCTCTTTCAAATGCATGGACGCATGATTTGCAAGCGTCCTTACCAACAAGTACCTCGTCTCAGCCTGGGAATACGTCCTGGTCATCATCACCTTGGACACAAACGTCTGCGCGTGTGACAAATGGAGAAGAAGACTTTGCATCTTTCTTTGCCTCTCGGCAAGTGAGTCCCCCTACTGGAGCACCCCTCACAAGGAAGGATTCCAATCCATTTAAACCATCAACACAGGATGAAGTGTTTTGGGTGTGACAGGTTGTAATGTAAGGTGAAAACTTTAAGAATTCAAGAAATTGTTTTTGAAGGGAGACTGAATAAGGTGAAACTGTTTTACATTTAGGATAATTTACCAGTTGAACTGGTTTGTAGAAAGCTGAGTTTATTTGCCAAAATGTTAATAATATTAGTAACCATCATACGTATTTTAAGAGAGAGATGGACAATCCCTAGAAGTGCTCGAGAATTTTATTCAATGAGAGAAAAGCTGACTGCTTGATTCTTGATAAGAGGTGTGACAATAAGAAGCCTGTTAAACTTGTACTTTTTTTTCTGTTTGTTCAGATTGTTTTTAGATTGTTTTTTATGTGTTTTGCAGGTGCTTTTACATTCACATGTTTGTGTTAACAAGAAGAAAGATTTTTTTCTAGGTTAGGCAAGAGAGGGGATTGTTCAGTTAGTGCTAAGGCAAGCGTTTTTGTTTTATTACTATTTCACTTTGCCTATTTGAAGCTAAGAATGAGAAACAGGGCCAATTGTTTAACCATCAATCATAACTGTGGATATTGTATAGAATAAAGGGATTCCACTAGCAGTAAAATTGACAGGTTTATGATAGTGTGGCACCACTGGCAGATTTTTGTACACTCAGTTGGCTTCTGTAGTTGTAGTACTTACCAGTTCATCTGTTGTTGCTGCAATTACCAGTACTGTATGATTGATGATTAGATCAGTTTTTAACTGTGGTTCTTGTTATTGAATGGTGCAGTAAAATAATGTAATTACCTTGAGGGCACATGTATAGACCACAGTGTTTTGAAACCCCACTATTGATCAAAAGTTAGATTCTGTTAGGAATGTCCATGTATGATCAAACAAAAAACTTAATGGCAATGAAGGAAATAATCTCCAAGAGAAACTATGCTGATGTTTGAACAATTTGTGTAGCTGTTACTTCATAGAATAAGTGTAAACTCCCATGAATGATAATTATTTGTTTGTTGATAAATGTGGTCCATGCAAGTACTTATGTTTTACTTAGTATTAATATTACTTAATATGCACCTATCTCTACTTTAATTTTTTACTTTTACAGCACAGTAATTTATTATTGTCGGTAGTGATCTCCAAAAACAGTGAAAATTAAAAGTATTGGGGATTTTGTTTTATGTTCTCATATAGATATTAGAAATGGTTGTGCTCTTAGATTACTTGCGGAAGGCTTCCGTGTTCTCACAAAGTATCAGTTTTATTAAAATTATTCTCTATTGTACAGGTACCTCATATTTTCCTTATCAAATAATATTGCACTTATATATCTGTGTAGGAAGGTGAAATAATACATGGGTGACAACTCTAAGGATGTTTGTTTGGAGGGTAAAACAAAGTTCTTCCTGAAATGTGTGGATTTTGTAAAGAATTGGGAGACTAAGGGATAACGTTTTGGGAAATGTGAATTGATTATTAAAAAAATATGCAGAAGATGTGAGTAACATTGTTTTTGCAAGTTTTTAGATTTCTGTTTTTTGAATGAACCTTGGATTTCTGAAAGTTTGAAATTATTGCTGGAGTCTTCCTGAAAAATTCAGAGGATATTCTAAATTCATCAACAATATCAGTCAACTCACATATTACTCAAATAGCAGTTGCTAGAGTTGTCACTCTGTGATTAACAAATTTGGTTGTTACCATGACAATTTTCTTATGTAAGCAATAGCTTGGTTCTGAGATCTTAGTAATGGAATCAAGGTCAGCATTTTATAGTAAACTGGGAAGAACTGTCCAAAACTTGATGACCCAGAATCTTGTTACAACTGCCTTAGCAATATTTCAGAAATTAATGTGTAATAAATTAGCAATAATTTGTCAAATTATGAAAACTGTAGAAGCAGACAACCAGTTCCCCATCAAGGCAAAATGATTTAGCTGTTGTTGCATACGTTTTCATAATTTGCTGTAAATGCTTTTAATTTGCCTACATTAATATAAATTTGGCAACCTAATTAGTTATCTGCCACCAAATGACAGAGCATTGGGTTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O08919	Numb-like protein OS=Mus musculus OX=10090 GN=Numbl PE=1 SV=3
Q9Y6R0	Numb-like protein OS=Homo sapiens OX=9606 GN=NUMBL PE=1 SV=1
A1L1I3	Numb-like protein OS=Rattus norvegicus OX=10116 GN=Numbl PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007578 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00640 all species →	PID	Phosphotyrosine interaction domain (PTB/PID)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan
IPR006020 all species →	Domain	PTB/PI domain	Interproscan
IPR016698 all species →	Family	Numb/numb-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR47368 all species →	NUMB	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	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
K06057	NUMBL; numb	-	Membrane trafficking	ko04131	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of gfas1.m1.2011.m1 across 22 RNA-seq samples of Galaxea fascicularis. 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.

22Samples

22TPM > 0

4Conditions

138.7Max TPM

67.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
coral holosome · Control	7	7	57.48	92.41
coral holosome · 30ic treatment	6	6	80.89	138.68
coral holosome · Prometryn (herbicidess) treatment	5	5	57.09	64.70
coral holosome · Prometryn (herbicidess) and 30ic treatment	4	4	76.38	114.61

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27118491	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	92.41
SRR27118492	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	76.88
SRR27118480	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	59.13
SRR27118485	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	57.15
SRR27118487	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	50.15
SRR27118486	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	44.99
SRR27118488	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	21.64
SRR27118468	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	138.68
SRR27118476	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	77.63
SRR27118479	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	73.86
SRR27118478	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	70.48
SRR27118477	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	70.23
SRR27118466	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	54.49
SRR27118482	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	64.70
SRR27118484	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	60.29
SRR27118469	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	58.52
SRR27118481	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	52.60
SRR27118483	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	49.34
SRR27118489	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	114.61
SRR27118475	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	67.17
SRR27118472	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	67.05
SRR27118490	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	56.68

Source: CnidoSite RNA-seq expression matrices (GFASC_TPM, StringTie quantification over 22 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.