Gene detail

Detailed information of g19081.t1 in Acropora digitifera

Genomic Location: chr9Alt:2028606...2041255
NR annotation: XP_029204608.2, MAM and LDL-receptor class A domain-containing protein 1-like [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

chr9Alt.g19081.t1

GCAGAGCTGTGTGGGTGAAAGGGATCTGTCTCATATGGTCTAGGGGCCGACATTTCTTTGCTTCCCTGCCTGCTCGAAGGCCAACATAGGTACCACTCACTGGTTCCTATGCTTTTGTTTTCCGTTTCTCAGACTTCAAATCTTTGAGCTCTCGACGATGTTAGTTCTGTTGGCTATATTCTGGCCGCTCGTTATTTCGGAAACGTACGGGAGTCCTATTTCTGATCCATTTTATGAGAGAGCATGCAAGCTTAGTGGCGATAGCATAAATTCTTTTGAGTATGATTCATGACCCGCAGGCATCAGCAACAGACGTAATCAACAAGATTAATGAAGAGGAAGACATTGACGGGAACTTTTTCGAAGGAGATATACTAGTAGATCCTAATGATCCGATCCATGGCGGTATACTGCGGAAAAAAAGAAATGCAAGGAGATTGAGAAGTTTTGTGTGGCAATCTAAAATCATTCCATATGAAATCTCAACGCAACTTGTTGGAGATGGATATGAAACAACTATCCTTTCAGCAATTGAAGAATTTTCGAAACATACCTGCATCAAATGGAAACCACACGTTAATGAGCCAAGATGGGTCAAGTTTGTAAAGGATCGGGGTTGCTTTTCATCTGTGGGTGTAAATTTTTGGAAGACAGGCTCACAGGTCATTTCATTGGGAAATGGTTGTAACCATAAAGGAGTAACAATGCACGAGATGATGCATGCGGCTGGTTTTTGGCATGAGCAGTCACGCTATGACCGTGACAAATACGTGGAGATCCTCTGGGAAAATATACAAGCGAATAGAGATCACAATTTTAAAAAATATGATCTTCGAGAAATTGATTATTTAAATGAAGTGTATGACACAGACAGCATAATGCATTATGGGAAAACATCCTTCTCAAAAAATGGAAAGCCCACCATCCTAGCTCTCGGCGATCCCAGCAAGCCACTCGGTCAGCGGGATGGCTTCAGTCAAACAGATATTGCTCAGCTCAATGCTTTGTACGATTGCGCAGGTTCCAGCAGTGGTTGGAGTTCATGGACAGCATTTGGGCCTTGTGACGATAGATGCATGCACGTTCGCCAGCGGTTTTGTGCGTCAACTGACCTGGCCAACTGCCCTGGAGCACATCCTTATTATCATACACAAAGGGATGAGCAGAAATGCCCTGATTCTAAATGCTACGCTCCCGTTAATGGGCACTGGGGAAGATGGTCCGCCTGGTCTTCCTGTAGCGTGACATGCAACAAGGGAAAACACAGCAGAACCAGGAAATGCGATGAACCATCTCCCAAGAATGGAGGGAAAGATTGTCCAGGGAATAATTTGGATGTGGGCGATTGTGAGAAAATCCGTTGCGGACTTGGTCCATATGATTGTGAGTTTGAAGCGGGTGGAATGTGTGGCTGGACGGTTTGCAATCAGCCAAACAACGCACCAGCCTGGTTCCGTCATTCAGGAGCAACAACAAGCATTGGTACCGGGCCAAAGGAAGACCATACGTCTGGCTCAGGTAATTATGTATACTTTGAGGCTTCAAGTCCTGCGCAACCAGGACAAACAGCGTGTTTCTCCAGCCCACTCATTACAGCGCGTGCGTGTCGACGTCTTATCTTCTGGTATCATATGCTTGGCAGTGGAATAGGACAACTGAAGGTGCTAGTTGGTGACACTGTTCTTTGGAGTAGGAGTGGTGAACAGGGAGATAAATGGGTCCAAGCTAGTGTGGAAATTCAAATGGACAAGGAAATGCAGATTAAATTTGAGGGAACACGTGGTGTTGATTTTAGAGGCGACATTGCCGTTGACGACATATCATTAAGTGATTGTGAGGCCCCTTCAACAACATTACCTCCGACAACAACTCGGGCGAGTACGACGAAGCAGCCGACAACAACGGAACCGACGACTACCAAGCAGTCGACGACACCAAAAATGACTCAGCCATCCCCCTCGACGCTACCACCAACAACATCATCTTCCGCGATTTTGTAGCGATTTGTTTTTCCGTAGTTCTTATCCTTTGTACCTGAGAGATGTAATAAAATCCCTCAGTTATG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q20191	Zinc metalloproteinase nas-13 OS=Caenorhabditis elegans OX=6239 GN=nas-13 PE=2 SV=5
P55112	Zinc metalloproteinase nas-4 OS=Caenorhabditis elegans OX=6239 GN=nas-4 PE=2 SV=4
P55115	Zinc metalloproteinase nas-15 OS=Caenorhabditis elegans OX=6239 GN=nas-15 PE=2 SV=2

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01400 all species →	Astacin	Astacin (Peptidase family M12A)	Domain	Interproscan
PF00090 all species →	TSP_1	Thrombospondin type 1 domain	Domain	Interproscan
PF00629 all species →	MAM	MAM domain, meprin/A5/mu	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001506 all species →	Domain	Peptidase M12A	Interproscan
IPR000884 all species →	Repeat	Thrombospondin type-1 (TSP1) repeat	Interproscan
IPR006026 all species →	Domain	Peptidase, metallopeptidase	Interproscan
IPR034035 all species →	Domain	Astacin-like metallopeptidase domain	Interproscan
IPR024079 all species →	Homologous_superfamily	Metallopeptidase, catalytic domain superfamily	Interproscan
IPR000998 all species →	Domain	MAM domain	Interproscan
IPR036383 all species →	Homologous_superfamily	Thrombospondin type-1 (TSP1) repeat superfamily	Interproscan
IPR013320 all species →	Homologous_superfamily	Concanavalin A-like lectin/glucanase domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10127 all species →	DISCOIDIN, CUB, EGF, LAMININ , AND ZINC METALLOPROTEASE DOMAIN CONTAINING	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004222 all species →	Molecular Function	metalloendopeptidase activity	Interproscan
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008237 all species →	Molecular Function	metallopeptidase activity	Interproscan
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0016020 all species →	Cellular Component	membrane	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 g19081.t1.

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

Expression pattern (RNA-seq)

Transcript abundance of g19081.t1 across 39 RNA-seq samples of Acropora digitifera. 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

19TPM > 0

1Conditions

8.9Max TPM

1.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	19	1.79	8.89

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931	8.89
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931	8.15
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931	6.51
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931	5.45
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931	4.76
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931	4.68
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931	4.10
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931	3.74
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931	3.60
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931	3.42
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931	3.27
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931	2.44
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931	2.22
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931	2.13
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931	1.89
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931	1.56
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931	1.30
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931	1.14
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931	0.73
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00

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.