Gene detail

Detailed information of g11768.t1 in Montipora capitata

Genomic Location: Sc0000360:14062...33662
NR annotation: XP_044163101.1, nuclear valosin-containing protein-like [Acropora millepora]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g11768.t1

atggatcgcaagaaacaagagagacgtgttgggagaaaccagcttccaaagggggcttacattttggataaacggcttgctccacgagtggaacagtatttaaaccagtttagaataggtcacaaaccagatgttgaagaaattgttagtcatttgcagacaaggtatagagatttacaggatgcaagtaaaagtgatagtagtgacgaggataaggacagtaatgcaaagagtttgggtacatccagtgactcagaattttccctggaagatgacccattaatggttatacaggaaacaaatctgatgaatcagtccatgcaaactatgtacaaggtgacaggttctaaagatgagagagaagacaataatttggtgaccgttaaatctatacaagatctcaacaaagaagtaggaaggacatttcaaggagaggactttttccacgttgattgcaataaatcaaccccaagtgtggactcatctggtcaaaatcaagagatgctatccagcaagatgagcatgtctgaaaacccttcaccgctaaccacgctaaagcatacaaaatcagcgatcaggaataaaagaaagagggttctaagtgagaaggacaaaaagacagatgtgtctacaccgaagaaaatcaggaaaagtttgagtaagaaggaaaaagagaaaattgatgaagattttgagccacctcaatcttcagccaaattttctgaccttggaggctgtgaagagactgttgaacaagtttgcaaacttttggttcatatgaggcacccagaagtgttccataccattggagtgaccccgcccagagggtttcttctacatggcccacctggctgtggcaagaccctattggctcatgccattgcaggggagttggaaatgccatttatcaaactggcagccacagagatagtttcaggtgtctctggggaatcagaagagaaagtccgagaactcttttcacgagcagtgatgcattcaccctgcgtgttgttccttgacgaaattgatgccatcacacctaagcgagaaactgcctccaaagacatggaacggaggattgtgtcacagctcctaacatctatggatgttacaaatcaaattttgctcttcacagatctcaacaatgatcctgaagctcgtgttcttgtgataggagccaccaaccggccagactcacttgaccctgccctgcgccgtgcaggacgatttgacaaggagatctcaatgggtatccctgatgaaaaggcgagagagaggattctgcaagttcagtgtgaaaagttaaggttggaagacagcttcgattttgcgtcattggctcgtctcactcctgggtttgttggggcagatcttatgtccctgacaagagaagctgctttgattgcagtaaacaggatatttcaagaactacaaagaaatactaaccttggggaaaatactgcacaaactgaggaacaaagtaatccttgtggagacacgaaaggcaccttagagagaacaccgagagcattcagtgcaataaactggctgaaggaacaatcgccactgactccagatgatttgcagacgatgtgtataaacatggacgatttcagagcagcgcttctgacagtccaaccgtccgccaagagggaagggttcgctaccatcccagatgtgacatgggaggacgttggcgcgctcaaggatgttagagaagaacttacaatggcaatactggctcctgtgaagtaccccgaagagtttcaaacgtttggtctcactcatcctccgggtatactattggctggacctcccggatgcggcaaaacgctccttgcgaaggcgatagctaatgaatcgggcataaacttcatctctgtcaagggacctgaattgcttaacatgtatgttggagaaagtgagaaagcagtcaggcaggttttccagagagcgaggaattccgtcccatgcgtgatcttcttcgatgagcttgatgcactctgtccccgaaggtcggacagctctgagtccagcgtgagtgtccgtgttgtgaatcaacttctgactgaaatggatggactggaagcaaggaagcaagttttcatcatggcggctacaaacagaccagatatcattgacccggccgtgctaagacctggccgacttgataaagtgctgtatgttggcttgcccaatgaggaagatagagaagacattttgagaacacttactaagaacggcaagaagcctttgctgttgccagatgtcagtatcaaagagcttgcaaaggaccaaaaatgccaaggactatcgggtgctgatttagcggccttggtgcgagaggccagtatggcggctttacgggaatgcatcaccgctcgatccacaaatcacgagactcttgttaataacccgcccgaggtgcagactcttgtcgggttgggtggacgacattttactgcagcctttcaaaaagtgaatccttcagttagcaagaaggtattgttgatttaa

Transcript

g11768.t1

ATGGATCGCAAGAAACAAGAGAGACGTGTTGGGAGAAACCAGCTTCCAAAGGGGGCTTACATTTTGGATAAACGGCTTGCTCCACGAGTGGAacagTATTTAAACCAGTTTAGAATAGGTCACAAACCAGATGTTGAAGAAATTGTTAGTCATTTGCAGACAAGGTATAGAGATTTACAGGATGCAAGTAAAAGTGATAGTAGTGACGAGGATAAGGACAGTAATGCAAAGAGTTTGGGTACATCCAGTGACTCAGAATTTTCCCTGGAAGATGACCCATTAATGGTTATACAGGAAACAAATCTGATGAATCAGTCCATGCAAACTATGTACAAGGTGACAGGTTCTAAAGATGAGAGAGAAGACAATAATTTGGTGACCGTTAAATCTATACAAGATCTCAACAAAGAAGTAGGAAGGACATTTCAAGGAGAGGACTTTTTCCACGTTGATTGCAATAAATCAACCCCAAGTGTGGACTCATCTGGTCAAAATCAAGAGATGCTATCCAGCAAGATGAGCATGTCTGAAAACCCTTCACCGCTAACCACGCTAAAGCATACAAAATCAGCGATCAGGAATAAAAGAAAGAGGGTTCTAAGTGAGAAGGACAAAAAGACAGATGTGTCTACACCGAAGAAAATCAGGAAAAGTTTGAGTaagaaggaaaaagagaaaattgatgAAGATTTTGAGCCACCTCAATCTTCAGCCAAATTTTCTGACCTTGGAGGCTGTGAAGAGACTGTTGAACAAGTTTGCAAACTTTTGGTTCATATGAGGCACCCAGAAGTGTTCCATACCATTGGAGTGACCCCGCCCAGAGGGTTTCTTCTACATGGCCCACCTGGCTGTGGCAAGACCCTATTGGCTCATGCCATTGCAGGGGAGTTGGAAATGCCATTTATCAAACTGGCAGCCACAGAGATAGTTTCAGGTGTCTCTGGGGAATCAGAAGAGAAAGTCCGAGAACTCTTTTCACGAGCAGTGATGCATTCACCCTGCGTGTTGTTCCTTGACGAAATTGATGCCATCACACCTAAGCGAGAAACTGCCTCCAAAGACATGGAACGGAGGATTGTGTCACAGCTCCTAACATCTATGGATGTTACAAATCAAATTTTGCTCTTCACAGATCTCAACAATGATCCTGAAGCTCGTGTTCTTGTGATAGGAGCCACCAACCGGCCAGACTCACTTGACCCTGCCCTGCGCCGTGCAGGACGATTTGACAAGGAGATCTCAATGGGTATCCCTGATGAAAAGGCGAGAGAGAGGATTCTGCAAGTTCAGTGTGAAAAGTTAAGGTTGGAAGACAGCTTCGATTTTGCGTCATTGGCTCGTCTCACTCCTGGGTTTGTTGGGGCAGATCTTATGTCCCTGACAAGAGAAGCTGCTTTGATTGCAGTAAACAGGATATTTCAAGAACTACAAAGAAATACTAACCTTGGGGAAAATACTGCACAAACTGAGGAACAAAGTAATCCTTGTGGAGACACGAAAGGCACCTTAGAGAGAACACCGAGAGCATTCAGTGCAATAAACTGGCTGAAGGAACAATCGCCACTGACTCCAGATGATTTGCAGACGATGTGTATAAACATGGACGATTTCAGAGCAGCGCTTCTGACAGTCCAACCGTCCGCCAAGAGGGAAGGGTTCGCTACCATCCCAGATGTGACATGGGAGGACGTTGGCGCGCTCAAGGATGTTAGAGAAGAACTTACAATGGCAATACTGGCTCCTGTGAAGTACCCCGAAGAGTTTCAAACGTTTGGTCTCACTCATCCTCCGGGTATACTATTGGCTGGACCTCCCGGATGCGGCAAAACGCTCCTTGCGAAGGCGATAGCTAATGAATCGGGCATAAACTTCATCTCTGTCAAGGGACCTGAATTGCTTAACATGTATGTTGGAGAAAGTGAGAAAGCAGTCAGGCAGGTTTTCCAGAGAGCGAGGAATTCCGTCCCATGCGTGATCTTCTTCGATGAGCTTGATGCACTCTGTCCCCGAAGGTCGGACAGCTCTGAGTCCAGCGTGAGTGTCCGTGTTGTGAATCAACTTCTGACTGAAATGGATGGACTGGAAGCAAGGAAGCAAGTTTTCATCATGGCGGCTACAAACAGACCAGATATCATTGACCCGGCCGTGCTAAGACCTGGCCGACTTGATAAAGTGCTGTATGTTGGCTTGCCCAATGAGGAAGATAGAGAAGACATTTTGAGAACACTTACTAAGAACGGCAAGAAGCCTTTGCTGTTGCCAGATGTCAGTATCAAAGAGCTTGCAAAGGACCAAAAATGCCAAGGACTATCGGGTGCTGATTTAGCGGCCTTGGTGCGAGAGGCCAGTATGGCGGCTTTACGGGAATGCATCACCGCTCGATCCACAAATCACGAGACTCTTGTTAATAACCCGCCCGAGGTGCAGACTCTTGTCGGGTTGGGTGGACGACATTTTACTGCAGCCTTTCAAAAAGTGAATCCTTCAGTTAGCAAGAAGGTATTGTTGATTTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O15381	Nuclear valosin-containing protein-like OS=Homo sapiens OX=9606 GN=NVL PE=1 SV=1
Q9DBY8	Nuclear valosin-containing protein-like OS=Mus musculus OX=10090 GN=Nvl PE=1 SV=1
Q9NAG4	Protein mac-1 OS=Caenorhabditis elegans OX=6239 GN=mac-1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000716 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF17862 all species →	AAA_lid_3	AAA+ lid domain	Domain	Interproscan
PF00004 all species →	AAA	ATPase family associated with various cellular activities (AAA)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR003593 all species →	Domain	AAA+ ATPase domain	Interproscan
IPR041569 all species →	Domain	AAA ATPase, AAA+ lid domain	Interproscan
IPR050168 all species →	Family	AAA ATPase domain-containing protein	Interproscan
IPR003959 all species →	Domain	ATPase, AAA-type, core	Interproscan
IPR038100 all species →	Homologous_superfamily	NVL2, N-terminal domain superfamily	Interproscan
IPR003960 all species →	Conserved_site	ATPase, AAA-type, conserved site	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23077 all species →	AAA-FAMILY ATPASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016887 all species →	Molecular Function	ATP hydrolysis activity	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0042254 all species →	Biological Process	ribosome biogenesis	Interproscan
GO:0051973 all species →	Biological Process	obsolete positive regulation of telomerase activity	Interproscan
GO:1990275 all species →	Molecular Function	preribosome binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	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
K14571	RIX7, NVL; ribosome biogenesis ATPase	-	Ribosome biogenesis	ko03009	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g11768.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

42TPM > 0

3Conditions

33.9Max TPM

9.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	18	10.37	33.92
whole organisms · low pH treatment	15	12	7.46	25.40
whole organisms · extra low pH treatment pH treatment	12	12	9.98	31.86

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	33.92
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	30.13
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	27.26
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	21.58
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	20.18
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	19.16
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	17.69
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	9.50
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	8.10
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	7.04
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	5.71
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	5.39
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	5.24
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	1.97
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	1.87
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	1.49
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	1.13
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	0.52
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	0.00
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	0.00
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	0.00
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	25.40
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	23.91
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	23.71
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	7.01
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	6.41
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	6.27
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	6.00
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	5.04
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	4.84
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	1.57
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	0.85
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	0.83
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	0.00
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	0.00
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	31.86
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	30.83
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	27.66
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	6.73
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	6.23
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	5.99
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	3.66
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	2.40
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	2.08
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	1.15
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	0.79
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	0.34

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.