Gene detail

Detailed information of g13338.t1 in Montipora capitata

Genomic Location: Sc0000455:251239...271733
NR annotation: KAJ7393481.1, Hermansky-Pudlak syndrome 3 [Desmophyllum pertusum]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g13338.t1

atggtacgggtactcttattccatcacttcagggctcaaagagtcttttttgacacctttcaacccactgcaatcacttcaacgaaggactatctctttctcgcaacttcagacatgaaagtgttggtttactctctggagttgccaaattttcctcttttgtgccagtttccaactatttcgagaccgatcaagttgatttgcaacgagatggcaaaatgcgtcttaaccattgaaaggaaaacggaccggagaaaatcctcgggcagccgcatcgttcacacgcactctcgcgcctacttcaactggttcaaagcaaatcttgacgaggctgtgcgcacgtttgtggcagggtattctttccgtcaacgccaagaaacagccaaaagcgacaagtcctttcttgttgtagaaattcccacactatccaatgttagtgctgtatgttgttgccccagtagtggaaatattgctgtcgccagcgacaaaaacgtgaggttatttaggtggaataatcagatgtccgcggatggttccaggagtggggatgctctgtgtgacatggaacactttttggacgttgagctttgcatgagtgtcagaggtctggtgatgagtgattcatatctagctgtaagatctaatttagatgtgcaggttctcaaacttgtgtttgtgtcagaacaagagtctgcatcatcaggtgggagtggaaaattcacaattgtacagaacaggacaacaccaagatctgaatggggcatagagaaccttttggggcaggaaggcccttcaacacaggaaactcaccaaccagttaaagatgacaattgtgtgttatggtcgtttgatgaatgctcatccttttccttgcaaccaccagcagtaaaatcaaccagggatgcactgctcccaaccattagacaagagaaagtatttaaagatttcacaccagagccaaaggaaatactagggcctgtgtccgaggtacctgggcatcctgtgactgtcgcatttggagggctatatggtgttggtattcctgtggatggctgcatgtggaaagttaagagtttcacaatgttgtatcgccgatttagggctgagcaactcagcaatgatgggaatgactcagcaacacttcacactttgcagcttctaccaacatacacacaaggaatctatcacatcaaagaactgcaaaaatctccactggttcaaagaagtccttcagagcccactttgtgtgggatgtttttccttgtctcaggtcccaaggagggttttatgtatgatgtcttcaacacctgtaaacttttgtcgtattacaagtacacatgtgatactatcagcgtgtcggcatgcagtagcatgctgcatgctatcaccaaacaggggattgagacttacacggtgcgcatgtatgcagctgcttctgattggatacgaataaatgcagctgttgattggaagactgatcaacaattattgatcgaggaccagaccttgacagaccaggccaaagggctggtgaatgttatgagtcagtctgatcaatgtcctcaaggcatgaagagtaaagctgttatccattttccaaatgattcttgtgatgattctggtgtaagctcagctcttgatgctatttctttaaaaagtggtgatttgggcgatcatgccagcaaaataaatgatgatattcaaagtgatagccctgttagcatcgtggaagatctgccatcaacaagtggttctagtgtttcaaattttgaagtttttacagcagattctgaagccgtgaaggaaaaccctcctgaaaccaaactccttcaggagtctcagtttggaagccagcaaggtgaatcatcaccttcagatgtcacctttgcagttgacaatgcgggaaaaacgtttgtaagattctccactggcagccattcctcttcgccagtcttaccaaggaaaggagatcctatggaagaagacaaggacagttcaagtgcggcatctttgacagcaggtcaaggaacaagattgtttgctgcatcaaattcaatgagacatggcagttctcccaatgttaaactgtctgaggcagcttacttggctgctgttaacaagctttcaagtgaatgtgggtggaatctgcccatttttgatctggaaagattaagacaaacgccccttgcaaatcgttgtcagaagcataatgcacaggtgtaccatcatcttgtgtgtgaacagcacttgttcctgagaacattgtgtttatctgactttatgagtaaagaggacaggaaacaaagaaaagtgaggaaaatgctatgcgagtctgcagcaaatctggctgagttatttgcaagaatcccaagtgtttacaaagagagtgttgattatttcacaatgtctggtgttacattgagggatattgttgatagagcatataagtctggacagcctgttgcagatggtctaattcacttcttggatgagagactgttgggttctgacgaaccagtcactgtgtctgagaatacagccaagaaaatttttaaactatactcgaaaggaaagcccagtcgagtttctgagataattctcatgtcttcacttagtggcttttcttcagacactgccttggctgctttggaagatttgaagaaagttaagacagctgagggtgttaattacagcctgtctccacttgataacctcgtccgagcagtgctatatcttcatcagtgtgatcctgagcatgcccagtctgctctttgcacaattcctaagtgtttaagaaaacatgaacaggcagctttcatggaagtgcttcttcgtctccttgataaatatgtgttgtcgttagaaacacttcttactttgttggggatgtcactttgtggaatctacttgaagagaatggaaagaactcaaaggaaacgcatgccatcctcatctcatcatcacgttccgaaaggcgagggacattttggagtccgtcatttgtggctggataagctacctccgtttcaaggttcagtgagtttgccagtcccaggctgtcccagttccaagccagtctctccccaaggctctcctcagctgtctcgatccttgttgttttccagtccttcgcgccgatccgctagcaaggcttcttattatggtcctcagttgagttctgatacagggagtgctatccaaccacagtgctcctgctgttgttgtaatgaggatctactcaaactccaggcgctgttgtgttctcgttttgtaagcagtgagttgtgtgagttcgttctaagcaaaattgaagctggtcagaagatggacatgacatctgtttcccttctatgtttgcccaacgtcgataggcacaccgaggctgtcgctacgattttagaggaggttcctgaaataatactgccgtatggggaatactactttggtgcagatattgacaagtggtcagttcttttgagaactttgcttaagatgtgtaaagacgaatcattgaatgatgatgcagactcaaggaaagagaagatcatagcggttcttaaaggaactctacatcaactgtcccgaatcgtgactcctagggagtttttagcgctgttgccggatgatggctgtgttggcttcttcctgccgtatctacagcagtgttacagtcgatgcgcatccgattcggtcaacgaaaggctggagatgagagcaaggcaaatggtcgtttaa

Transcript

g13338.t1

ATGGTACGGGTACTCTTATTCCATCACTTCAGGGCTCAAAGAGTCTTTTTTGACACCTTTCAACCCACTGCAATCACTTCAACGAAGGACTATCTCTTTCTCGCAACTTCAGACATGAAAGTGTTGGTTTACTCTCTGGAGTTGCcaaattttcctcttttgtgCCAGTTTCCAACTATTTCGAGACCGATCAAGTTGATTTGCAACGAGATGGCAAAATGCGTCTTAACCATTGAAAGGAAAACGGACCGGAGAAAATCCTCGGGCAGCCGCATCGTTCACACGCACTCTCGCGCCTACTTCAACTGGTTCAAAGCAAATCTTGACGAGGCTGTGCGCACGTTTGTGGCAGGGTATTCTTTCCGTCAACGCCAAGAAACAGCCAAAAGCGACAAGTCCTTTCTTGTTGTAGAAATTCCCACACTATCCAATGTTAGTGCTGTATGTTGTTGCCCCAGTAGTGGAAATATTGCTGTCGCCAGCGACAAAAACGTGAGGTTATTTAGGTGGAATAATCAGATGTCCGCGGATGGTTCCAGGAGTGGGGATGCTCTGTGTGACATGGAACACTTTTTGGACGTTGAGCTTTGCATGAGTGTCAGAGGTCTGGTGATGAGTGATTCATATCTAGCTGTAAGATCTAATTTAGATGTGCAGGTTCTCAAACTTGTGTTTGTGTCAGAACAAGAGTCTGCATCATCAGGTGGGAGTGGAAAATTCACAATTGTACAGAACAGGACAACACCAAGATCTGAATGGGGCATAGAGAACCTTTTGGGGCAGGAAGGCCCTTCAACACAGGAAACTCACCAACCAGTTAAAGATGACAATTGTGTGTTATGGTCGTTTGATGAATGCTCATCCTTTTCCTTGCAACCACCAGCAGTAAAATCAACCAGGGATGCACTGCTCCCAACCATTAGACAAGAGAAAGTATTTAAAGATTTCACACCAGAGCCAAAGGAAATACTAGGGCCTGTGTCCGAGGTACCTGGGCATCCTGTGACTGTCGCATTTGGAGGGCTATATGGTGTTGGTATTCCTGTGGATGGCTGCATGTGGAAAGTTAAGAGTTTCACAATGTTGTATCGCCGATTTAGGGCTGAGCAACTCAGCAATGATGGGAATGACTCAGCAACACTTCACACTTTGCAGCTTCTACCAACATACACACAAGGAATCTATCACATCAAAGAACTGCAAAAATCTCCACTGGTTCAAAGAAGTCCTTCAGAGCCCACTTTGTGTGGGATGTTTTTCCTTGTCTCAGGTCCCAAGGAGGGTTTTATGTATGATGTCTTCAACACCTGTAAACTTTTGTCGTATTACAAGTACACATGTGATACTATCAGCGTGTCGGCATGCAGTAGCATGCTGCATGCTATCACCAAACAGGGGATTGAGACTTACACGGTGCGCATGTATGCAGCTGCTTCTGATTGGATACGAATAAATGCAGCTGTTGATTGGAAGACTGATCAACAATTATTGATCGAGGACCAGACCTTGACAGACCAGGCCAAAGGGCTGGTGAATGTTATGAGTCAGTCTGATCAATGTCCTCAAGGCATGAAGAGTAAAGCTGTTATCCATTTTCCAAATGATTCTTGTGATGATTCTGGTGTAAGCTCAGCTCTTGATGCTATTTCTTTAAAAAGTGGTGATTTGGGCGATCATGCCAGCAAAATAAATGATGATATTCAAAGTGATAGCCCTGTTAGCATCGTGGAAGATCTGCCATCAACAAGTGGTTCTAGTGTTtcaaattttgaagtttttacAGCAGATTCTGAAGCCGTGAAGGAAAACCCTCCTGAAACCAAACTCCTTCAGGAGTCTCAGTTTGGAAGCCAGCAAGGTGAATCATCACCTTCAGATGTCACCTTTGCAGTTGACAATGCGGGAAAAACGTTTGTAAGATTCTCCACTGGCAGCCATTCCTCTTCGCCAGTCTTACCAAGGAAAGGAGATCCTATGGAAGAAGACAAGGACAGTTCAAGTGCGGCATCTTTGACAGCAGGTCAAGGAACAAGATTGTTTGCTGCATCAAATTCAATGAGACATGGCAGTTCTCCCAATGTTAAACTGTCTGAGGCAGCTTACTTGGCTGCTGTTAACAAGCTTTCAAGTGAATGTGGGTGGAATCTGCCCATTTTTGATCTGGAAAGATTAAGACAAACGCCCCTTGCAAATCGTTGTCAGAAGCATAATGCACAGGTGTACCATCATCTTGTGTGTGAACAGCACTTGTTCCTGAGAACATTGTGTTTATCTGACTTTATGAGTAAAGAGgacaggaaacaaagaaaagtgagGAAAATGCTATGCGAGTCTGCAGCAAATCTGGCTGAGTTATTTGCAAGAATCCCAAGTGTTTACAAAGAGAGTGTTGATTATTTCACAATGTCTGGTGTTACATTGAGGGATATTGTTGATAGAGCATATAAGTCTGGACAGCCTGTTGCAGATGGTCTAATTCACTTCTTGGATGAGAGACTGTTGGGTTCTGACGAACCAGTCACTGTGTCTGAGaaTACAGCcaagaaaatttttaaactatACTCGAAAGGAAAGCCCAGTCGAGTTTCTGAGATAATTCTCATGTCTTCACTTAGTGGCTTTTCTTCAGACACTGCCTTGGCTGCTTTGGAAGATTTGAAGAAAGTTAAGACAGCTGAGGGTGTTAATTACAGCCTGTCTCCACTTGATAACCTCGTCCGAGCAGTGCTATATCTTCATCAGTGTGATCCTGAGCATGCCCAGTCTGCTCTTTGCACAATTCCTAAGtgtttaagaaaacatgaacaGGCAGCTTTCATGGAAGTGCTTCTTCGTCTCCTTGATAAATATGTGTTGTCGTTAGAAACACTTCTTACTTTGTTGGGGATGTCACTTTGTGGAATCTACTTGAAGAGAATGGAAAGAACTCAAAGGAAACGCATGCCATCCTCATCTCATCATCACGTTCCGAAAGGCGAGGGACATTTTGGAGTCCGTCATTTGTGGCTGGATAAGCTACCTCCGTTTCAAGGTTCAGTGAGTTTGCCAGTCCCAGGCTGTCCCAGTTCCAAGCCAGTCTCTCCCCAAGGCTCTCCTCAGCTGTCTCGATCCTTGTTGTTTTCCAGTCCTTCGCGCCGATCCGCTAGCAAGGCTTCTTATTATGGTCCTCAGTTGAGTTCTGATACAGGGAGTGCTATCCAACCACAGTGCTCCTGCTGTTGTTGTAATGAGGATCTACTCAAACTCCAGGCGCTGTTGTGTTCTCGTTTTGTAAGCAGTGAGTTGTGTGAGTTCGTTCTAAGCAAAATTGAAGCTGGTCAGAAGATGGACATGACATCTGTTTCCCTTCTATGTTTGCCCAACGTCGATAGGCACACCGAGGCTGTCGCTACGATTTTAGAGGAGGTTCCTGAAATAATACTGCCGTATGGGGAATACTACTTTGGTGCAGATATTGACAAGTGGTCAGTTCTTTTGAGAACTTTGCTTAAGATGTGTAAAGACGAATCATTGAATGATGATGCAGACTCAAGGAAAGAGAAGATCATAGCGGTTCTTAAAGGAACTCTACATCAACTGTCCCGAATCGTGACTCCTAGGGAGTTTTTAGCGCTGTTGCCGGATGATGGCTGTGTTGGCTTCTTCCTGCCGTATCTACAGCAGTGTTACAGTCGATGCGCATCCGATTCGGTCAACGAAAGGCTGGAGATGAGAGCAAGGCAAATGGTCGTTTAA

Protein

UniProt (Swiss-Prot top hit)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003955 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14761 all species →	HPS3_N	Hermansky-Pudlak syndrome 3 protein, N-terminal	Repeat	Interproscan
PF14763 all species →	HPS3_C	Hermansky-Pudlak syndrome 3 protein, C-terminal region	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR029437 all species →	Domain	BLOC-2 complex member HPS3, N-terminal domain	Interproscan
IPR017216 all species →	Family	Hermansky-Pudlak syndrome 3 protein	Interproscan
IPR029438 all species →	Domain	BLOC-2 complex member HPS3, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR28633 all species →	HERMANSKY-PUDLAK SYNDROME 3 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006996 all species →	Biological Process	organelle organization	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
K20190	HPS3; Hermansky-Pudlak syndrome 3 protein	-	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 g13338.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

45TPM > 0

3Conditions

10.2Max TPM

4.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	20	4.36	10.24
whole organisms · low pH treatment	15	14	3.44	6.89
whole organisms · extra low pH treatment pH treatment	12	11	4.13	9.95

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	10.24
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	10.06
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	10.04
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	8.04
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	7.62
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	6.04
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	5.17
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	4.79
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	4.56
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	4.48
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	4.40
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	3.35
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	2.83
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	2.27
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	2.14
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	1.75
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	1.48
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	1.40
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	0.66
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	0.24
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	0.00
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	6.89
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	6.46
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	6.23
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	5.00
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	4.70
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	4.61
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	4.33
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	3.11
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	2.46
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	2.37
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	2.10
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	1.74
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	0.98
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	0.59
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	0.00
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	9.95
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	9.52
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	6.20
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	5.58
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	4.60
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	3.55
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	3.46
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	2.45
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	1.62
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	1.33
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	1.25
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	0.00

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.