Gene detail

Detailed information of gfas1.m1.7899.m1 in Galaxea fascicularis

Genomic Location: Sc0000596:35773...45183
NR annotation: CAH3014399.1, unnamed protein product [Porites evermanni]
Species Galaxea fascicularis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

gfas1.m1.7899.m1

TACCGCGTTCCTTGCCGCTGGTCACCTGAAGCCACTTTCGCCCGAAACATATCCTCGTTGGAGCATGGCGTTCAGGCTTGCTGGTGTGTTACGGTCATTTAGCAGAAATCCTCGAGTGCCTCTTCACCGCCAGAAACTTTGCTGGAGTTCTGTGATATTATCTCGAGCAATGGCAACACGCAAAGAAACAGATAGTTTTGGAGATATAGAAGTGCCGGCTGAGAAGTACTATGGGGCACAGACTGCACGTTCAAAATTGAATTTTCCTATTGGTGATGAGACTGAATGTATGCCAGCTCCTGTGATCCGTGCATTTGGTATCCTAAAGAAAGCTGCTGCTGAAGTCAACAAGGAATTTGGATTGGATGAAAATATTGCCAATAACATCATGAAGGCAGCAGATGAGGTGATATCTGGTAAGCTGAAGAACAATTTTCCCCTTGTGGTGTGGCAGACAGGGTCTGGGACTCAGTCTAATATGAATGTGAATGAAGTGATTAGTAATCGCGCTATTGAGCTGATGGGTGGCCAGATGGGATCTAAGAAACCTGTCCACCCTAACGACCATGTCAACAAAAGCCAGGATGCTACACCCATTACTTTAGGCCAGGAATTCAGTGGCTATGTGCAACAGATACAGTATGGCATCTCCAGAGTGGAGGGCACCCTGGAACGAGTTTATGAGCTGGCCATTGGTGGAACAGCTGTTGGCACAGGGCTCAACACAAGGATAGGGTTTGCAGAGAAGATGGCAGCCAAGATTGCTGAATACACAAACCTGCCATTTACAAGTGCCCCTAACAAATTTGAAGCCCTTGCTGCTCATGATGCCATGGTTGAGCTCCATGGAGCACTGAATGTCATTGCATGTAGTCTTATGAAGATCGCCAATGATATCAGGTTTTTGGGCTCAGGTCCGCGCTGTGGACTGGGGGAGCTTTCTCTTCCTGAGAATGAACCTGGAAGCAGTATTATGCCAGGCAAAGTGAACCCCACACAGTGTGAGGCGATCACCATGGTTGCTGCCCAGGTTATAGGCAACCAGACAGCTGTCTCAGTTGGCGGAAGTAATGGCCACTTTGAACTGAATGTCTTTAAGCCGATGATCATCAGGAATGTCCTTCAGTCAATGCGACTGATTGGTGACGCTTGTGTGGCATTTACAGATAACTGTGTCGTTGGAATCCAAGCCAATGTGGATAAAATCAACAAGCTACGTGACGAGTCACTGATGTTGGTGACAGCACTCAACCCTCACATTGGCTATGATAATGCAGCAATGATCGCCAAGAAGGCTCACAAAGAAGGCACAACACTGAAAGAAGCCGCTATTAGCTTGGGATTGTTGACAGAAGAACAGTTTGAAAAGTGGGTCAGACCAGAGGACATGTTGGGACCAAAGTGATTAAATAATGTTGGAGCACGCAAGTCAACTGAAGAAGACAAAACAAAGAATATACTAACAAATTTTCAGTCAAAAAGTTTGAAAGTTTTGCTGCCTATGTATATTTATGGATACGAAGAGATTCTTTAGCAACTTCCTGTTTTTTTTTTTCTACAAACAACAAACTGTAGTTTAAAACGGTAATCAAGTTTATTGAAGGCCAACATACGTGTTCTTACAATGTATGCATTTTATGAAGTTTTGGTGGTACAGTTTACTGTGGTATTGAAATTTTTAACGTAAAAAATAAACACAAGAACCTCTTTCGGATGTTGAGGCTGACTGACTTGCCTCGAGACTGAATTTTTCGATCGCAAAGCCTGTTTAGATTCACAGTAAAGAGTACATCAGATATCCAAGCACTAATAAGCGGAGGTTTTTGGTTACATTTTGAGACACTCTTAATTCAGTATTGTCTGTAGATAAATGTATTTCTTAAAACCAAGTTCAAGGAACATACTGTTAGTCACGGACCAATGGCGTACGGTCCATATACATGTATCATCGGGAAAAAACGAGGAGCCGTAACTTACCGTAACGACAGAAAACGAAAAATCGAAGTTACTAAGATTTTTTCCGAGGTAAATCGAGCGCGCGGGAGAGGAAACGAGTTGAAGTCAAGCGGCCACTTTCAAATTTAGCTGACCGGATAGTAAAATACGGCCCGCAAAATTGACCGATCACAGCGTGCATACTAACTGAGATATATAATTATAGATATGGGTTCCCAAAGTGTTCATAAATAATTCCCCGAGAAATTCATTAGCCAATGTTCACTAAATTACTTGGCAATTTGAATTTCTATCCTGCTTGGCAGACGTGACTTCCTTTCAACTTCCTTTGAACTGCTAATTCAAGATTTGTTTTCAAGCAGCTCATCTTCGCCATCAGAGGTTTCAGGAATCACACTGTACAATACTCTTATACTAAAGCTACAGTCTGAACAACACACGATGTTGCGTCCATTTTCCAAATCATTTTGAGTTATCAGGAACTCTCCGCTGCAGCGGCACACGGTTGAGTAACTTCCTTGATCTGATGAATAAAATTGAAAGAGCATCAACTACTAGTAAATAAACTAAAGCATGCAACACAGTTTTTAGGTTAGAACGGCATACCTTTCATGTACAAAC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P14408	Fumarate hydratase, mitochondrial OS=Rattus norvegicus OX=10116 GN=Fh PE=1 SV=2
P97807	Fumarate hydratase, mitochondrial OS=Mus musculus OX=10090 GN=Fh PE=1 SV=3
P10173	Fumarate hydratase, mitochondrial OS=Sus scrofa OX=9823 GN=FH PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003360 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00206 all species →	Lyase_1	Lyase	Domain	Interproscan
PF10415 all species →	FumaraseC_C	Fumarase C C-terminus	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008948 all species →	Homologous_superfamily	L-Aspartase-like	Interproscan
IPR000362 all species →	Family	Fumarate lyase family	Interproscan
IPR020557 all species →	Conserved_site	Fumarate lyase, conserved site	Interproscan
IPR024083 all species →	Homologous_superfamily	Fumarase/histidase, N-terminal	Interproscan
IPR005677 all species →	Family	Fumarate hydratase, class II	Interproscan
IPR022761 all species →	Domain	Fumarate lyase, N-terminal	Interproscan
IPR018951 all species →	Domain	Fumarase C, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11444 all species →	ASPARTATEAMMONIA/ARGININOSUCCINATE/ADENYLOSUCCINATE LYASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0004333 all species →	Molecular Function	fumarate hydratase activity	Interproscan
GO:0006106 all species →	Biological Process	fumarate metabolic process	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006099 all species →	Biological Process	tricarboxylic acid cycle	Interproscan
GO:0006108 all species →	Biological Process	malate metabolic process	Interproscan
GO:0016829 all species →	Molecular Function	lyase 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
K01679	E4.2.1.2B, fumC, FH; fumarate hydratase, class II	EC:4.2.1.2	Cushing syndrome	ko04934	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.m1.7899.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

17TPM > 0

4Conditions

69.1Max TPM

32.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
coral holosome · Control	7	5	23.90	41.57
coral holosome · 30ic treatment	6	5	41.96	69.06
coral holosome · Prometryn (herbicidess) treatment	5	4	33.29	44.61
coral holosome · Prometryn (herbicidess) and 30ic treatment	4	3	33.42	47.28

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27118487	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	41.57
SRR27118486	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	40.36
SRR27118480	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	36.57
SRR27118492	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	27.56
SRR27118491	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	21.25
SRR27118485	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118488	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118477	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	69.06
SRR27118479	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	51.14
SRR27118478	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	50.37
SRR27118476	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	47.12
SRR27118466	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	34.06
SRR27118468	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	0.00
SRR27118484	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	44.61
SRR27118469	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	43.48
SRR27118481	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	39.61
SRR27118483	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	38.77
SRR27118482	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	0.00
SRR27118475	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	47.28
SRR27118490	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	43.47
SRR27118472	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	42.91
SRR27118489	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	0.00

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.