Gene detail

Detailed information of g9642.t1 in Montipora capitata

Genomic Location: Sc0000255:194903...250652
NR annotation: XP_029202772.2, nuclear pore complex protein Nup85-like isoform X1 [Acropora millepora]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g9642.t1

atggcggccacagagagaggacaagttgtgcctggaagacagtcaggaactgtagcaaccacgattattcctggatgtcagaatctcaaaggatactgggctccagggcatggaattatggttcatacatcagatggcaaaccaaaaagtgcacagggttcaactcattatcgatatcctgttcttcatgaagtctgttggggtgctgatttgcagagtacaataactcgcaagctgattaatgaaactcatgctatatttatggatctacaagacctgcccgatgctgttggaatgggacgaaagacaaatctcattaaaattagcagaagatatagaagtgtcattagagcttgtattcttgatcttgaggaaaaagatggtgatgccagacagccctctcctggcagtttacagtcatctgtttcacagaggcatcttttgacattgattgaaactgtttggcacctcagtgagattcttttcatcgagactttgccaggtggagctgttttgcatcatctgttggaatgggtgcaaaatggacatgctgataaatatgtcggtgatatacttcaacattctattcctcacgacagtccttcgtattggcctgcgatttactcattggtccttcaaggtcgcgtgaatcatgtgcgtgaacttcttgctgaccatcctgacaaacagactggagagtatgatgattttgaaagcatggatgaacttcttcgcaaaatgcctatgtaccagttgtacatgggacagaccttgcaagagttcaccatgaagtggaatcattggcaacaggaatgcaagcatcgtctgaagaatgaaacctatgctgggaatcctcacttgaacacattgtgtcagatactttgtggtgaagaagaagtattcgatgaaatgcttgagtattgtaaaacgtggtatcacctacttgtggcaaagctcctgtactgcaatccagcaattaagtcatttgatctgcagtatcacacacagtcctgcattgacaagtttggagggaatgctaatttgcgcaactttgacagaatactgatgtctgcctttgaatttgatgtacatgctgtcatcaaggagagcagtgatgcccttggtaactggtggtttgtagcccatttaactgacttgcttcatcactgcggccaactagatacgcaccatatcagtcatagtattagcttgagagaattccttatactggaatatgctgctagtcttatgtcaaatcacagtctttggcgtgtggctgtggactatcttctacagtgtccggtgaacggaagagcacatcttgtggagtatattgaacaccttccccttgaaactgataaaaaagccatgaaagtgctcaaactttgcgaggatttggacatgttagcacaagctcagtctatttgcaaaactatgagcatgaaggcaatgaagtctgggagattaggagctgccttggcttggtgtctcagatcgaaggattccacttttgctgcttttatttctgaaaggtttttggcagaatactgccagagcggtggattttcaaaccttgatttgattgaccatttaggatccgcaatgctcctcagtgatcgcctgacttttcttgggaaataccgcgagtttcatatgctgtacgaagagggcaaattccatgaagctgcacacctgctgatttcactgctaacatcaaagcttgctccgcaaaggttatggctaacattgttaaccgacagtatcccattattggaacatgaagagataattttctccagctctcagacctatgaactgatgcactgtttagacgaaatcagactctcgttccgaaccaaagagtacttgggacacccaagcgaggagccctcagatgagcgttcagtaaggcctgctgccatgggccctggaatgaagtcacttaaaagcactaaggcacaagaagatgaggagagggacaagattgagcttatccgcttggcccttgctcgtaacctctcgagaacaatcttataa

Transcript

g9642.t1

ATGGCGGCCACAGAGAGAGGACAAGTTGTGCCTGGAAGACAGTCAGGAACTGTAGCAACCACGATTATTCCTGGATGTCAGAATCTCAAAGGATACTGGGCTCCAGGGCATGGAATTATGGTTCATACATCAGATGGCAAACCAAAAAGTGCACAGGGTTCAACTCATTATCGATATCCTGTTCTTCATGAAGTCTGTTGGGGTGCTGATTTGCAGAGTACAATAACTCGCAAGCTGATTAATGAAACTCATGctATATTTATGGATCTACAAGACCTGCCCGATGCTGTTGGAATGGGACGAAAGACAAATCTCATTAAAATTAGCAGAAGATATAGAAGTGTCATTAGAGCTTGTATTCTTGATCTTGAGGAAAAAGATGGTGATGCCAGACAGCCCTCTCCTGGCAGTTTACAGTCATCTGTTTCACAGAGGCATCTTTTGACATTGATTGAAACTGTTTGGCACCTCAGTGAGATTCTTTTCATCGAGACTTTGCCAGGTGGAGCTGTTTTGCATCATCTGTTGGAATGGGTGCAAAATGGACATGCTGATAAATATGTCGGTGATATACTTCAACATTCTATTCCTCACGACAGTCCTTCGTATTGGCCTGCGATTTACTCATTGGTCCTTCAAGGTCGCGTGAATCATGTGCGTGAACTTCTTGCTGACCATCCTGACAAACAGACTGGAGAGTATGATGATTTTGAAAGCATGGATGAACTTCTTCGCAAAATGCCTATGTACCAGTTGTACATGGGACAGACCTTGCAAGAGTTCACCATGAAGTGGAATCATTGGCAACAGGAATGCAAGCATCGTCTGAAGAATGAAACCTATGCTGGGAATCCTCACTTGAACACATTGTGTCAGATACTTTGTGGTGAAGAAGAAGTATTCGATGAAATGCTTGAGTATTGTAAAACGTGGTATCACCTACTTGTGGCAAAGCTCCTGTACTGCAATCCAGCAATTAAGTCATTTGATCTGCAGTATCACACACAGTCCTGCATTGACAAGTTTGGAGGGAATGCTAATTTGCGCAACTTTGACAGAATACTGATGTCTGCCTTTGAATTTGATGTACATGCTGTCATCAAGGAGAGCAGtgATGCCCTTGGTAACTGGTGGTTTGTAGCCCATTTAACTGACTTGCTTCATCACTGCGGCCAACTAGATACGCACCATATCAGTCATAGTATTAGCTTGAGAGAATTCCTTATACTGGAATATGCTGCTAGTCTTATGTCAAATCACAGTCTTTGGCGTGTGGCTGTGGACTATCTTCTACAGTGTCCGGTGAACGGAAGAGCACATCTTGTGGAGTATATTGAACACCTTCCCCTTGAAACTGATAAAAAAGCCATGAAAGTGCTCAAACTTTGCGAGGATTTGGACATGTTAGCACAAGCTCAGTCTATTTGCAAAACTATGAGCATGAAGGCAATGAAGTCTGGGAGATTAGGAGCTGCCTTGGCTTGGTGTCTCAGATCGAAGGATTCCACTTTTGCTGCTTTTATTTCTGAAAGGTTTTTGGCAGAATACTGCCAGAGCGGTGGATTTTCAAACCTTGATTTGATTGACCATTTAGGATCCGCAATGCTCCTCAGTGATCGCCTGACTTTTCTTGGGAAATACCGCGAGTTTCATATGCTGTACGAAGAGGGCAAATTCCATGAAGCTGCACACCTGCTGATTTCACTGCTAACATCAAAGCTTGCTCCGCAAAGGTTATGGCTAACATTGTTAACCGACAGTATCCCATTATTGGAACATGAAGAGATAATTTTCTCCAGCTCTCAGACCTATGAACTGATGCACTGTTTAGACGAAATCAGACTCTCGTTCCGAACCAAAGAGTACTTGGGACACCCAAGCGAGGAGCCCTCAGATGAGCGTTCAGTAAGGCCTGCTGCCATGGGCCCTGGAATGAAGTCACTTAAAAGCACTAAGGCACAAGAAGATGAGGAGAGGGACAAGATTGAGCTTATCCGCTTGGCCCTTGCTCGTAACCTCTCGAGAACAATCTTATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6DBY0	Nuclear pore complex protein Nup85 OS=Danio rerio OX=7955 GN=nup85 PE=2 SV=1
Q4QQS8	Nuclear pore complex protein Nup85 OS=Rattus norvegicus OX=10116 GN=Nup85 PE=2 SV=1
Q8R480	Nuclear pore complex protein Nup85 OS=Mus musculus OX=10090 GN=Nup85 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003356 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07575 all species →	Nucleopor_Nup85	Nup85 Nucleoporin	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011502 all species →	Family	Nucleoporin Nup85-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13373 all species →	FROUNT PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006406 all species →	Biological Process	mRNA export from nucleus	Interproscan
GO:0006606 all species →	Biological Process	protein import into nucleus	Interproscan
GO:0017056 all species →	Molecular Function	structural constituent of nuclear pore	Interproscan
GO:0031080 all species →	Cellular Component	nuclear pore outer ring	Interproscan
GO:0045893 all species →	Biological Process	positive regulation of DNA-templated transcription	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
K14304	NUP85; nuclear pore complex protein Nup85	-	Chromosome and associated proteins	ko03036	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g9642.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

194.5Max TPM

105.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	104.59	191.05
whole organisms · low pH treatment	15	15	102.86	194.52
whole organisms · extra low pH treatment pH treatment	12	12	109.37	184.64

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	191.05
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	181.06
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	158.99
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	155.45
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	143.56
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	121.16
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	120.65
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	116.92
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	113.03
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	105.99
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	98.48
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	97.27
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	96.38
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	93.07
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	72.69
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	70.90
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	68.44
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	60.22
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	46.68
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	44.68
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	39.72
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	194.52
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	185.65
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	141.68
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	109.68
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	109.27
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	107.98
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	106.12
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	97.79
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	95.74
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	92.97
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	87.38
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	86.14
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	43.46
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	42.70
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	41.77
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	184.64
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	170.23
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	155.51
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	142.82
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	118.84
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	112.29
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	107.19
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	102.62
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	95.58
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	45.01
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	40.33
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	37.44

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.