Gene detail

Detailed information of g29344.t2 in Acropora digitifera

Genomic Location: chr14Alt:3047716...3071315
NR annotation: XP_029203083.2, calpain-9-like isoform X2 [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g29344.t2

ATGCCTCGAAAACAGTGGTACGAAGATCTCAACGAGATCAAACAAAGATGCAGGGGTGGTCAGTTGTTCGAGGATCCCGAATTTCCAACGATTGACAGCAAAGTTTTCAAGAAGCGTGTGCTTCCTGGAGGACAGTCGTTTGAATGGCTTCGTCCGCAAGAACTGCTGGACAGACAAGGGGTTAAAGAAAAGGCGCAACTTTTGGTGGGCGGGGCATCACGTCTAGACATCAACCAGGGTATGTTGGGGGATTGCTGGTTTCTTGCAGCAGTTGCATCCTTAACTCAAGAGGAAAAGTTAATAAGCAGAGTTCTGTGCCTTGATGAGAATGCGGACTTTGGAAGCTCCAATTATTGTGGTGCTCTCAAATTCAATATCTGGCAAGACGGACATTGGACTGAGGTGATTATTGATGACCGTCTACCAACATACCGCAACAAGCTAGTCTTCATGCACTCAAAGGAGAAGAATGAATTTTGGAGTGCCCTTTTGGAAAAGGCCTATGCAAAACTTCAAGGCTCTTATGAGGCTCTCAAAGGGGGTCAAACAATAGAGGCTATGGAGGATTTCACAGGTGGGTTAGGCGAGGACTTTGACATGAAGAAGATGCGAGATGGAATGAGAGATTATCAGAAGAGAGAGGAATATGAAAAACAGAAAAAGGAACTCTTTCCAATAATACAGAAAGGCTTGAGACGTGATGACCTTATGGGTTGCTCAATCACGGCAGCGCCCAATCAGGTAGAAGCTAAAGGTGACCTTGGACTGGTGAAAGGGCATGCTTACTCTGTAACAGGAGCTACCACTGTAAATGTCTATGGAGAAGACGTGCAGTTGGTCCGTGTGAGGAATCCTTGGGGGAATGAAAGAGAATGGGAAGGAGCTTGGGGTGACAAGTCCAGTGAGTGGAGACAGTTGTCTGAGAGTGAGAAGCGAAGACTCAATCTACAGTTTGATGATGATGGAGAGTTTTGGATGTCCTTTGAAGATTTCTTCAAGTACTTTGACAAATTGGAGATTTGTCACTTGGGACCTGATAGTGCCAGAAAAGGAGGTGGTCAAGCCAATAATTGGGAAGGACGCACTGAAAGTGGGGCTTGGATCAGGGGTTCTTCAGCTGGAGGATGCCGTAACTTTTTGAATACCTTTGCCATGAACCCACAGTTTAGAGTTGATTTGCAAGATGCCGATGATGATGCCGATGACAAGTGCTCCTTGACAGTGGCCCTTATGCAGACTAAGCGCCGCAAATTGAAAGCGGAAGAAGGGAAGCCTATGTTGACCATAGGCTTCTCCATTTACAAAGTCACTGATGAGGATTTGAAAACTGGAAGGGCTGAGAGAGACTACTTTGCTTATCATGCTTCCACTGCTCGCTCGCCGGTCTTCATCAACAGTCGTGAGGTGACTGGCCGTTATCTGCTGGACCCTGGCTCATACTTGATTATTCCAACCACATTTGAACCAGGTCACCAGGGTGAATTTATTGTGCGTATCTTCACAGAAAAGCCAGTGACCACAGGCAAAGTTGATGTGAAGACTTCCATCCATTCCAGAGAGGACCGCAAATCTAAGTACGTTTCCAACAGTAAGGAAGAGGATGAAGCCATGGATGCATCATTCAAGCAACTGTTCATGAAACTGGCTGGAGTTGACAGAGAGATTGATGCATTTGAACTTCAACAGATATTGACAACAGCTACCAAGAAGGTATATCAACCAAAAGGGGGACACAGGCACCCAGGACCTTCTTTATATACCCTTGGACAGAGTAACTCCACGGAGACCATGTTTTTGAAGCTCTCCTTCCCCCTGGGAGTGGGGGTGGGAATCACTGGGGTCGAAATGAGAGTGATGGGTGGTAAAGAGTTTAGTTTAGAAGCCTGCAGGAGCATCATAGATCTCAAGGATGATGAAAAGACTGGAAAGCTTGAATATGAAGAATTCAAAGAAGTGTGGGCAATGGTGAAAGAGTTGCTGGCAACTTTCTCGAAGTATGACACGGATAACAGTGGGAACATGGACATGTACGAATTGCGCCGTGTGCTTATGAGCGAAGGCCTGTCGTTGCCCCAGCCGATTTTGGACTCCATTGCTGCTCGCTTCAACAACAAGGCAGGAAAGTTGAACTTCGACGATTTCTTGCAGATTATTTGCCGAATTTATTCGCTGAAAGATACTTTTGATAAACACCAGGAGAGAAGTGCAAAAGCAAGTTTCACCTTGGATGAGTTTCTTCGCGGCTGCCTTACTTTGTAA

Transcript

chr14Alt.g29344.t2

ATCCTTCGTCTTTGGCTAGACATGTCATTTCGGTTCTCCAACCAAATCGCCGCCGGTCCTTCTATATTTTCTTATATTAGGGGGATGCCTCGAAAACAGTGGTACGAAGATCTCAACGAGATCAAACAAAGATGCAGGGGTGGTCAGTTGTTCGAGGATCCCGAATTTCCAACGATTGACAGCAAAGTTTTCAAGAAGCGTGTGCTTCCTGGAGGACAGTCGTTTGAATGGCTTCGTCCGCAAGAACTGCTGGACAGACAAGGGGTTAAAGAAAAGGCGCAACTTTTGGTGGGCGGGGCATCACGTCTAGACATCAACCAGGGTATGTTGGGGGATTGCTGGTTTCTTGCAGCAGTTGCATCCTTAACTCAAGAGGAAAAGTTAATAAGCAGAGTTCTGTGCCTTGATGAGAATGCGGACTTTGGAAGCTCCAATTATTGTGGTGCTCTCAAATTCAATATCTGGCAAGACGGACATTGGACTGAGGTGATTATTGATGACCGTCTACCAACATACCGCAACAAGCTAGTCTTCATGCACTCAAAGGAGAAGAATGAATTTTGGAGTGCCCTTTTGGAAAAGGCCTATGCAAAACTTCAAGGCTCTTATGAGGCTCTCAAAGGGGGTCAAACAATAGAGGCTATGGAGGATTTCACAGGTGGGTTAGGCGAGGACTTTGACATGAAGAAGATGCGAGATGGAATGAGAGATTATCAGAAGAGAGAGGAATATGAAAAACAGAAAAAGGAACTCTTTCCAATAATACAGAAAGGCTTGAGACGTGATGACCTTATGGGTTGCTCAATCACGGCAGCGCCCAATCAGGTAGAAGCTAAAGGTGACCTTGGACTGGTGAAAGGGCATGCTTACTCTGTAACAGGAGCTACCACTGTAAATGTCTATGGAGAAGACGTGCAGTTGGTCCGTGTGAGGAATCCTTGGGGGAATGAAAGAGAATGGGAAGGAGCTTGGGGTGACAAGTCCAGTGAGTGGAGACAGTTGTCTGAGAGTGAGAAGCGAAGACTCAATCTACAGTTTGATGATGATGGAGAGTTTTGGATGTCCTTTGAAGATTTCTTCAAGTACTTTGACAAATTGGAGATTTGTCACTTGGGACCTGATAGTGCCAGAAAAGGAGGTGGTCAAGCCAATAATTGGGAAGGACGCACTGAAAGTGGGGCTTGGATCAGGGGTTCTTCAGCTGGAGGATGCCGTAACTTTTTGAATACCTTTGCCATGAACCCACAGTTTAGAGTTGATTTGCAAGATGCCGATGATGATGCCGATGACAAGTGCTCCTTGACAGTGGCCCTTATGCAGACTAAGCGCCGCAAATTGAAAGCGGAAGAAGGGAAGCCTATGTTGACCATAGGCTTCTCCATTTACAAAGTCACTGATGAGGATTTGAAAACTGGAAGGGCTGAGAGAGACTACTTTGCTTATCATGCTTCCACTGCTCGCTCGCCGGTCTTCATCAACAGTCGTGAGGTGACTGGCCGTTATCTGCTGGACCCTGGCTCATACTTGATTATTCCAACCACATTTGAACCAGGTCACCAGGGTGAATTTATTGTGCGTATCTTCACAGAAAAGCCAGTGACCACAGGCAAAGTTGATGTGAAGACTTCCATCCATTCCAGAGAGGACCGCAAATCTAAGTACGTTTCCAACAGTAAGGAAGAGGATGAAGCCATGGATGCATCATTCAAGCAACTGTTCATGAAACTGGCTGGAGTTGACAGAGAGATTGATGCATTTGAACTTCAACAGATATTGACAACAGCTACCAAGAAGGTATATCAACCAAAAGGGGGACACAGGCACCCAGGACCTTCTTTATATACCCTTGGACAGAGTAACTCCACGGAGACCATGTTTTTGAAGCTCTCCTTCCCCCTGGGAGTGGGGGTGGGAATCACTGGGGTCGAAATGAGAGTGATGGGTGGTAAAGAGTTTAGTTTAGAAGCCTGCAGGAGCATCATAGATCTCAAGGATGATGAAAAGACTGGAAAGCTTGAATATGAAGAATTCAAAGAAGTGTGGGCAATGGTGAAAGAGTTGCTGGCAACTTTCTCGAAGTATGACACGGATAACAGTGGGAACATGGACATGTACGAATTGCGCCGTGTGCTTATGAGCGAAGGCCTGTCGTTGCCCCAGCCGATTTTGGACTCCATTGCTGCTCGCTTCAACAACAAGGCAGGAAAGTTGAACTTCGACGATTTCTTGCAGATTATTTGCCGAATTTATTCGCTGAAAGATACTTTTGATAAACACCAGGAGAGAAGTGCAAAAGCAAGTTTCACCTTGGATGAGTTTCTTCGCGGCTGCCTTACTTTGTAAAGGACGAAACTCTTTTTACCTTTTCCTGGTATCTCAGAGGAGCTTTAACTTTATAGTTAAGCAGTCAACAAAGAAACATAACGGAAATCATGCAAGTTACATTTTCAACTGAAGAGGCTGCAATCAGTTTAGTAAGCATGTCGCCTTCAGATATTGTATGTGCTAAAAGCTAGGTAGTACTGAATTTTTATTATTACAATTTTGATAATATTGGGCCGCTTAAATACGCCCAACGCGGTTAATTGTCTCGAAGTGGTGACGGAGCTAGCTGTCAATTTGATGGCTTTTTTGGGATTGTTTCTTAGTTTGTACACGAAGGTTTCTATTACAAGTAGACTTCCTTTTTTCATATTAAGGGTAATAAAGGTTCATCAAACTT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O35920	Calpain-9 OS=Rattus norvegicus OX=10116 GN=Capn9 PE=2 SV=2
Q9D805	Calpain-9 OS=Mus musculus OX=10090 GN=Capn9 PE=2 SV=2
Q9VT65	Calpain-B OS=Drosophila melanogaster OX=7227 GN=CalpB PE=1 SV=2

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01067 all species →	Calpain_III	Calpain large subunit, domain III	Domain	Interproscan
PF00648 all species →	Peptidase_C2	Calpain family cysteine protease	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036213 all species →	Homologous_superfamily	Calpain large subunit, domain III superfamily	Interproscan
IPR001300 all species →	Domain	Peptidase C2, calpain, catalytic domain	Interproscan
IPR022682 all species →	Domain	Peptidase C2, calpain, large subunit, domain III	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR050420 all species →	Family	Calpain	Interproscan
IPR022683 all species →	Domain	Peptidase C2, calpain, domain III	Interproscan
IPR022684 all species →	Family	Peptidase C2, calpain family	Interproscan
IPR000169 all species →	Active_site	Cysteine peptidase, cysteine active site	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR033883 all species →	Domain	Calpain subdomain III	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10183 all species →	CALPAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004198 all species →	Molecular Function	calcium-dependent cysteine-type endopeptidase activity	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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

No KEGG orthology assignment for g29344.t2.

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

Expression pattern (RNA-seq)

Transcript abundance of g29344.t2 across 39 RNA-seq samples of Acropora digitifera. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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.

39Samples

0TPM > 0

1Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931

Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM, StringTie quantification over 39 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.