Gene detail

Detailed information of g6460.t1 in Montipora capitata

Genomic Location: Sc0000138:131455...166413
NR annotation: CAH3117948.1, unnamed protein product, partial [Porites lobata]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g6460.t1

atgtttaagcgctggcgcgatagaaagaaggaaaccgaacagcaacctgagagtccaacaagggaaaatcaacaacaattgctcaccgaaacctccggatttatatgcccagtgtgcatgatttcctttagctcaccagaagatcttcaaggtcactttgaaacagtacatgtcaagcaacctccttcaagtggagcatttatctgtcccttgtgcatgaaaactttcaacagtccaggagagttacaaagccattttgatcagcagcacgaatctcaaattgaagatgatgctacatctgtgatgccaacagttgctcctttatcccagagtttacccgcagacacaacaaagatatggagtgaaaaacatggatcccttttgtcttttgatgaagagcttccagcaccaaggaaagagtctgaagtttcactgttatctaaccagcttaaagaactggaagataaaacacaggagattttatacttacagcaagaacttaatgagttgaatgcatctttgaaggaggagaaatggtactctgctgctttgaaggaagaagttgacaagataaccaaggaaaaggttgatttggaggaaaagaacttcctactggaaaaggagaagcaagatttagagaaggaatctgaccaaaaagtcatggcagagaaagagaacagtgttaaatctatggcggagtatgctcaactgaaagtagagcttgccagagcattggaagctcagactggaagccaaagtgagcagatgaatttagctcaacgcacatcagaactggcaacagaaaatgctggacttaaagcatctttggaagaggagaaaaaacaacatcaattgaacagtgaagaaataagaaggctgaaggaacaactggaagataagaccagactcaatgataatttagaaaagcagctttctcgaagacccactggagatgaagtcatatctttgcagaaccaactctccgtagtgcaacaacaagtatcaacagtgcaacaagagaaagaacaggaacataaagcttggcaagaaaaaatgaatgcaaccttcacagaagtgaagagtctgcagatgaaagtaaaggaacttgaggttgaaaagactgctaaagttgaacaagttcaaagtttgcagacagcaatatcagcatccacagaaaacaggaagcaagcccaggaacaaagccaagaaaaacaacgacaagttatcaacctgcagcatgacctcagccaggctaatgtggtccttaaagaaaaggaaacttttattgaatatctgcaaaagcaacttgaagaaacaaaaagcaagctagattctgaggtcacactcagggaaaactctaatcaacaagtgcgaagcttgcaaaaccagttagaagaggaacagaggcaatctcaaaatagagaatcattggttaaagatcttgaaagtaatctccaacaaaagaaggaagatgttgccagatttgaagaggaacgaacagatcttattgcaaagattgaagctggtggtggaactgaaactgttattaatcaactaaaactagaaaaggagagctgccaagtgcggctggggcaagtggaaacgtcacttcaaactcaagcacaggaacattcaaggaagattgaagaaatgtacaaggagcagaataaggttgaagaagagttggccagagcaaaagaccattctgttaagctggaaaattctgtcagggatcttacatcgctttgtagcaattcttcacaacaattagaagagttaaaaaaggaactcaaggagaaaaatgaaagtcttgttgctcttgaagctgccaaggctgctgaaaaatctgtgttggatgagcaagtacgagtttcacaggagactttacaggaaaagcttcaagagctgagtgctattcagcaacaaaatgcgaaactcaaagacgataatgatggcttcagggaaaagcagtctaatctcgaacttcagataaaggcatcagagatggaaatcgaaacccaagcaaagagatgtgcacaattggaaggggaaataaaaggaaaggttgaagtgatgactttgctgcaacaagaaaaatcctctgagaaaatgacacttgaaaaacagatagaagatgcacagaaagctttagacaaaaaggaaaaagaatccctgtcgttacaagtggaaatgcgacaggcgaaagaaaaattgtctatgcaagttaaatcattggaaacagagaaggaacgacttctgttgaacctgacttctaccaatacattgttggaggagaaggaaaaatccttggctaaccaggaatcagctacccaagaagcaggcaaagaaattatatcaataaaagaacaattggcagctgtgacattacaagttttggagtcaaagatgtctgagttagagagctcttacaaaaaccagatatcagagttaatggatacactgaagaatatcaaagaaaaattaactgataaagagatccagaagcttgaaaaggagaaatcttccttggaggaagctatgcaggaacttggacaggctcaccaagaacgcattaccgccttggaaacaaattacagcagcaaggaaggaaagcttaaagaacagatagaagagcaggaaaagattgctggtgtgatgaaaacttcactggaacaaaaggatggaagaatgaatgaaatgcaaagaaaaattgaagaggagcaagaaaacatcagtcgtcttgagaaagatcttgaggctgctcgaggtgatatcaaggcaaagaatttattggaaacacaagtttttaatcttgatagtgaactgaaggccgaacgagagcagttagagaaaagcaagaaagaaaagagtttgcttgaacaagaattagagaatcaaagagaagctttcaatggactaagaatttcattgcaaacaagaatcggagaactagaaaaaaaacttactgcagaagaggaagcaaaagaaaaggtgcttcaagaggctcaagaaaagcagcaacttctaattaagcaaaagcttgagctagaaaataacttgcagaacagtgaaaaagatctaaaaaaggcaaatgaaacacaagaacatgaagaactcaagaagatcaaggagcaaactgaagccagactcaatattcagatttcgtctttgacagaaaaccttagtgctgcaagagctgaagcagaaaaacttcaacaagagacgagggcgactgaagagaagcttactgaggccgagaaacgaaatgatgatttgaaaggagagatgaccgttttggaagcaactattcaaaataatttggatgaaaggagaaaactgctagagagatgtgtgacaggagacgaggctttagaaaagcagaaaaaagagaatgctgatctcaaaaagaaaatggaaaatgcacaagccgccatgatggaattaacacaagaaaaccagtcgctacagattctaaatactcaaaagaacgcacggagatgggaaagcgatactgacgtgacagcttgtaacgggtgtgaaaaactattctcgctgtccatcagaaaggttggttatgaatcttcttgttatttgtcacattcttttacttga

Transcript

g6460.t1

ATGTTTAAGCGCTGGCGCGATAGAAAGAAGGAAACCGAACAGCAACCTGAGAGTCCAACAAGGGAAAATCAACAACAATTGCTCACCGAAACCTCCGGATTTATATGCCCAGTGTGCATGATTTCCTTTAGCTCACCAGAAGATCTTCAAGGTCACTTTGAAACAGTACATGTCAAGCAACCTCCTTCAAGTGGAGCATTTATCTGTCCCTTGTGCATGAAAACTTTCAACAGTCCAGGAGAGTTACAAAGCCATTTTGATCAGCAGCACGAATCTCAAATTGAAGATGATGCTACATCTGTGATGCCAACAGTTGCTCCTTTATCCCAGAGTTTACCCGCAGACACAACAAAGATATGGAGTGAAAAACATGGATCCCTTTTGTCTTTTGATGAAGAGCTTCCAGCACCAAGGAAAGAGTCTGAAGTTTCACTGTTATCTAACCAGCTTAAAGAACTGGAAGATAAAACACAGGAGATTTTATACTTACAGCAAGAACTTAATGAGTTGAATGCATCTTTGAAGGAGGAGAAATGGTACTCTGCTGCTTTGAAGGAAGAAGTTGACAAGATAACCAAGGAAAAGGTTGATTTGGAGGAAAAGAACTTCCTACTGGAAAAGGAGAAGCAAGATTTAGAGAAGGAATCTGACCAAAAAGTCATGGCAGAGAAAGAGAACAGTGTTAAATCTATGGCGGAGTATGCTCAACTGAAAGTAGAGCTTGCCAGAGCATTGGAAGCTCAGACTGGAAGCCAAAGTGAGCAGATGAATTTAGCTCAACGCACATCAGAACTGGCAACAGAAAATGCTGGACTTAAAGCATCTTTGGAAGAGGAGAAAAAACAACATCAATTGAACAGTGAAGAAATAAGAAGGCTGAAGGAACAACTGGAAGATAAGACCAGACTCAATGATAATTTAGAAAAGCAGCTTTCTCGAAGACCCACTGGAGATGAAGTCATATCTTTGCAGAACCAACTCTCCGTAGTGCAACAACAAGTATCAACAGTGCAACAAGAGAAAGAACAGGAACATAAAGCTTGGCAAGAAAAAATGAATGCAACCTTCACAGAAGTGAAGAGTCTGCAGATGAAAGTAAAGGAACTTGAGGTTGAAAAGACTGCTAAAGTTGAACAAGTTCAAAGTTTGCAGACAGCAATATCAGCATCCACAGAAAACAGGAAGCAAGCCCAGGAACAAAGCCAAGAAAAACAACGACAAGTTATCAACCTGCAGCATGACCTCAGCCAGGCTAATGTGGTccttaaagaaaaggaaacttttATTGAATATCTGCAAAAGCAACTTGAAGAAACAAAAAGCAAGCTAGATTCTGAGGTCACACTCAGGGAAAACTCTAATCAACAAGTGCGAAGCTTGCAAAACCAGTTAGAAGAGGAACAGAGGCAATCTCAAAATAGAGAATCATTGGTTAAAGATCTTGAAAGTAATCTCCAACAAAAGAAGGAAGATGTTGCCAGATTTGAAGAGGAACGAACAGATCTTATTGCAAAGATTGAAGCTGGTGGTGGAACTGAAACTGTTATTAATCAACTAAAACTAGAAAAGGAGAGCTGCCAAGTGCGGCTGGGGCAAGTggaaacgtcacttcaaactcAAGCACAGGAACATTCAAGGAAGATTGAAGAAATGTACAAGGAGCAGAATAAGGTTGAAGAAGAGTTGGCCAGAGCAAAAGACCATTCTGTTAAGCTGGAAAATTCTGTCAGGGATCTTACATCGCTTTGTAGCAATTCTTCACAACAATTAGAAGAGTTAAAAAAGGAACTCAAGGAGAAAAATGAAAGTCTTGTTGCTCTTGAAGCTGCCAAGGCTGCTGAAAAATCTGTGTTGGATGAGCAAGTACGAGTTTCACAGGAGACTTTACAGGAAAAGCTTCAAGAGCTGAGTGCTATTCAGCAACAAAATGCGAAaCTCAAAGACGATAATGATGGCTTCAGGGAAAAGCAGTCTAATCTCGAACTTCAGATAAAGGCATCAGAGATGGAAATCGAAACCCAAGCAAAGAGATGTGCACAATTGGAAGGGGAAATAAAAGGAAAGGTTGAAGTGATGACTTTGCTGCAACAAGAAAAATCCTCTGAGAAAATGACACTTGAAAAACAGATAGAAGATGCACAGAAAGCTttagacaaaaaggaaaaagaatccCTGTCGTTACAAGTGGAAATGCGACAGGCGAAAGAAAAATTGTCTATGCAAGTTAAATCATTGGAAACAGAGAAGGAACGACTTCTGTTGAACCTGACTTCTACCAATACATTGTTGGAGGAGAAGGAAAAATCCTTGGCTAACCAGGAATCAGCTACCCAAGAAGCAGGCAAAGAAATTATATCAATAAAAGAACAATTGGCAGCTGTGACATTACAAGTTTTGGAGTCAAAGATGTCTGAGTTAGAGAGCTCTTACAAAAACCAGATATCAGAGTTAATGGATACACTGAAGAATATCAAAGAAAAATTAACTGATAAAGAGATCCAGAAGCTTGAAAAGGAGAAATCTTCCTTGGAGGAAGCTATGCAGGAACTTGGACAGGCTCACCAAGAACGCATTACCGCCTTGGAAACAAATTACAGCAGCAAGGAAGGAAAGCTTAAAGAACAGATAGAAGAGCAGGAAAAGATTGCTGGTGTGATGAAAACTTCACTGGAACAAAAGGATGGAAGAATGAAtgaaatgcaaagaaaaatTGAAGAGGAGCAAGAAAACATCAGTCGTCTTGAGAAAGATCTTGAGGCTGCTCGAGGTGATATCAAGGCAAAGAATTTATTGGAAACACAAGTTTTTAATCTTGATAGTGAACTGAAGGCCGAACGAGAGCAGTTAGAGAAAAGCAAGAAAGAAAAGAGTTTGCTTGAACAAGAATTAGAGAATCAAAGAGAAGCTTTCAATGGACTAAGAATTTCATTGCAAACAAGAATCGGAGAACTAGAAAAAAAACTTACTGCAGAAGAGGAAGCAAAAGAAAAGGTGCTTCAAGAGGCTCAAGAAAAGCAGCAACTTCTAATTAAGCAAAAGCTTGAGCTAGAAAATAACTTGCAGAACAGTGAAAAAGATCTAAAAAAGGCAAATGAAACACAAGAACATGAAGAACTCAAGAAGATCAAGGAGCAAACTGAAGCCAGACTCAATATTCAGATTTCGTCTTTGACAGAAAACCTTAGTGCTGCAAGAGCTGAAGCAGAAAAACTTCAACAAGAGACGAGGGCGACTGAAGAGAAGCTTACTGAGGCCGAGAAACGaaatgatgatttgaaaggagaGATGACCGTTTTGGAAGCAACTATTCAAAATAATTTGGATGAAAGGAGAAAACTGCTAGAGAGATGTGTGACAGGAGACGAGGCTTtagaaaagcagaaaaaagagAATGCTgatctcaaaaagaaaatggaaaatgcaCAAGCCGCCATGATGGAATTAACACAAGAAAACCAGTCGCTACAGatTCTAAATACTCAAAAGAACGCACGGAGATGGGAAAGCGATACTGACGTGACAGCTTGTAACGGGTGTGAAAAACTATTCTCGCTGTCCATCAGAAAGGTTGGTTATGAATCTTCTTGTTATTTGTCACATTCTTTTACTTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8BL66	Early endosome antigen 1 OS=Mus musculus OX=10090 GN=Eea1 PE=1 SV=2
Q15075	Early endosome antigen 1 OS=Homo sapiens OX=9606 GN=EEA1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002338 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12874 all species →	zf-met	Zinc-finger of C2H2 type	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013087 all species →	Domain	Zinc finger C2H2-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23164 all species →	EARLY ENDOSOME ANTIGEN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005545 all species →	Molecular Function	1-phosphatidylinositol binding	Interproscan
GO:0005769 all species →	Cellular Component	early endosome	Interproscan
GO:0006897 all species →	Biological Process	endocytosis	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
K12478	EEA1; early endosome antigen 1	-	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 g6460.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

43.5Max TPM

16.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	16.26	43.50
whole organisms · low pH treatment	15	15	16.80	36.65
whole organisms · extra low pH treatment pH treatment	12	12	17.37	30.47

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	43.50
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	38.39
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	27.89
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	26.22
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	23.43
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	19.22
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	18.59
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	18.02
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	15.65
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	15.46
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	14.69
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	13.77
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	12.71
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	10.00
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	9.22
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	7.58
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	6.69
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	6.55
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	4.91
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	4.59
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	4.47
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	36.65
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	28.53
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	27.31
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	22.89
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	22.71
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	18.98
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	18.20
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	16.63
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	11.94
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	10.61
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	9.47
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	9.04
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	7.20
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	6.39
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	5.54
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	30.47
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	29.87
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	23.96
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	20.95
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	20.70
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	19.36
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	13.21
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	12.43
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	12.42
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	11.17
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	7.37
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	6.50

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.