Gene detail

Detailed information of g4882.t2 in Acropora digitifera

Genomic Location: chr2Alt:34294467...34314002
NR annotation: XP_015767231.1, PREDICTED: cartilage oligomeric matrix protein-like isoform X4 [Acropora digitifera]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g4882.t2

ATGGGAATAAAGGCGTCGTTTTCTTTGTGGCTTTCCTGTCTTCTCGTGGTTGCTGTATCTTCAAAGGACACAGAAACAAGCGAGATTGATGTCTTGAAAACTTTAAACATAAATTCAAAAATGGAAGGAGTTAAAAGTGTTGAAGGTTTTGCAAAAGAAACAGGGGAAGCTTATAATTTTTACGGAGATATTCCAAGGTTGGAAATACCGCATAAATTACTGGACCGGATCAGGTCTCTTCTCCTATTAACGTGGCGAGTAGTTCTCATTGCTAATGTGAAGTTAAGCAATGTTACAGTTGGAACATTGTTCTCTGTGAATTCCGTCAGCGGAGGTCATGCACTATTCTCAGTATGGATAAGATGTAATCAAACCTGCCGCGTTGCAATCACTTACCAAACATCTGATCGGAAATCGATGGTTGTGTCCTTTCATCGGATAAAAAATCTATCTGACGGCAGATGGCACAAGATCGCTCTGAGCATCTTACCGCACAAGCACCTACATAAAACAACAGTGGAGCTGTTTGTTGATTGCGAAATGCAAGGTAGAAGGAAACTTCTGAAGTCATTTTATAGGCTCATACCACCCTCGGCAGATGCGTTGTTCGAGTTTGCGCGCAAAAGAGGCGACACAGATGGTGATGCTTTGATGTGGAAGGGAAGCCTTCAGAACTTTAAATTTGTGTTCGACAAAAATATTACGGAGTTAATGAAGAGCACAGGCTGCCCAAATGGACGTTTACCTGTTTTGCAGAGCAATGTAGGACAACAGCGGTTTACAACTGGCAATATGCACGCGAACCAACCACTGGTCACGAGGAAAACCGCTCTTGATATGCCTGTGTACGATGATATACCAGCTCTGCAATATAACATTCATGACGTCATGTTGGTATTGGTTAACATGCAAAAGGAAGCTCAACGACGTGAAGAAAGCTTCCAAAGATCACTGATGCTGTTGGAGAAGAGATTGAAATCTCAGTCCGCAGATTTGGTGTCCATCAAGGAGACGCTGGAGAATGGAGTGTGCTCAAACCGTGCCTACTCCCCTCAGGCAGTTTATGTGAACAAGTGCTCGCTAAAGCCGTGTTTCCCTTTTGTGAAATGCGAGGAGACACCCGGAGTGGGGCTTGGATTCAGGTGTGGAGATTGTCCGCCTGGTTACTCAGGAGACGGTCTAAGATGCGATGACGTCGATGAGTGTTCGTACCAGCCCTGCACAGCGCACACCACTTGTATCAACCTGCAACCTGGATATCGATGCACTGCTTGTCCGAAAGGATTTATCGGTAATTCAACTATGGGCATTGGAAGAGGCTTTGCAGAAAACATCAAGCAGATATGCATCGACATTGATGAATGCAGCGATGGCAAAAATGGTGGCTGTTCTGTCCATTCGACTTGCATAAATACTGAGGGAAGTTATTCTTGCAGTGGATGCCGAGATGGATACGTGGGTGATCCTTACAAAGAGTGCGTTCCCATTAAGTATTGCTCCGAAGATCGCAATTCAAATCCTTGCGGCGAGGGAGCAGAGTGCATACCGAAAAAAGGCGGAGTTCATTACGAGTGTAGGTGCAAGCCCGGCCTGGCTGGAAACGGCTTCGTATGTGACAGTGACCTTGACATGGATGGATTTCCGGATGTACAGCTCAACTGCAGCGATCCAAATTGTGCTAAGGATAACTGCAAAGATCTCCCGAACACCGACCAGGCGGATGTAAACAAGAATGGAATTGGCGATGCGTGTGAAGTTGACCTCGATGGGGATAGATATACAAATGATCAGGATAATTGCCCGACTGTTTCCAATAGACACCAAGCCGATAAAGACAAGGATCTCGTAGGAGACGCTTGCGACAACTGCCCGCGGGTTGCGAACCGCGATCAGAGAGACCTCGATGGGGACGGAATTGGTGACGTATGCGATGACGATGCTGATGGAGACGATGATGATGACGACGACAATGATGATGACGACGACGACGACGATGATGATGACGACAAAGATGATGACGACGACGACGACGATGATGATGACGACGAAGATGATGATGACGACGACGACGATGATGACGACGAAGATTGTCATGATCACCCCAATGACGTCGAAGATTTTGTTGATGATGACGACAACGACGATAATGGTGATGATAATTGCCGCAGATCAATTTTCGACAACTGCCCGCTTGTTCCAAATCGAAACCAAAAGGACGGTGATGGAGATAATGTTGGTGACCTGTGCGACAACTGCCCAGCCACATCCAACGCTGATCAGAGCGACAAGGATGGTGATGGCCATGGAGATGCGTGCGACCTGGATCGAGATTACGACAACGATGGAATAGAGAACAAATTTGACAACTGTATGAGCCATCCAAATCCCGATCAGCTTGACACGGATGAAGATGGGAGAGGTGACCTGTGTGATAGTGATGATGATGACGATGGGAGAGCTGATTTCATAGACAACTGTAGGCTGGTGTTCAACTTTGATCAAAAACAGACCATGAGCGATACATTCGGTGACGCATGCGTCGATGACTTCGACGGAGATGGGGTCCCGGATGAGGAAGACGTGTGTCCGATAAACCCGCAAATAACACGGAGCGACTTCTTAGCTTTCACGACGATGATTATTGACACGGACACAGGGCACGGACGAAACAAGCCATTTTGGAAAGTAAACAAAAAGGGAGATGAAATCCAACAGGTTGAAAACAGTGCCGCTTCAATCTTAACTGGAATTCAAGTATTTAACGATGTGGAATACAGTGGAACACTTTTCATCAACACAGTTTCAGACAACGATATCGTTGGCATCGTGTTTGGTTATCTGAACCGTAAAAAATTCTTCGTTGCCTCTTGGAAGCAAGAGGACCAGGTCTACTGGGGTAGCAGGCCTTTCAGAGCCCAAGCATTGGCCACTTTTAACATCAAGATCCAGTCCAGCCTTGAGAATTCGAAAGTGGTCTATTGCTTCGGTCAAGGCCGGGAGGAATGGGACCAAGATCTGTGGACGTTTCTGCTGGGGTCATCGTTTACTTTTTACGTTTGCTTATATAAAGAACCTTACTAG

Transcript

chr2Alt.g4882.t2

CACTTGACTGAAATCTCTGTCGTAAACCTAATTTAAGTTTTTGAAAGTCGTGATGTTGTCCTCTTTGAGCTGTGTGTTTGCTTCGAAGTTTTGGAAGTTTTAGTTTTCTGTATTGGAAATTTACAACGGTTTGAAGCTTCGAGGCGTTGTGAACGATGGGAATAAAGGCGTCGTTTTCTTTGTGGCTTTCCTGTCTTCTCGTGGTTGCTGTATCTTCAAAGGACACAGAAACAAGCGAGATTGATGTCTTGAAAACTTTAAACATAAATTCAAAAATGGAAGGAGTTAAAAGTGTTGAAGGTTTTGCAAAAGAAACAGGGGAAGCTTATAATTTTTACGGAGATATTCCAAGGTTGGAAATACCGCATAAATTACTGGACCGGATCAGGTCTCTTCTCCTATTAACGTGGCGAGTAGTTCTCATTGCTAATGTGAAGTTAAGCAATGTTACAGTTGGAACATTGTTCTCTGTGAATTCCGTCAGCGGAGGTCATGCACTATTCTCAGTATGGATAAGATGTAATCAAACCTGCCGCGTTGCAATCACTTACCAAACATCTGATCGGAAATCGATGGTTGTGTCCTTTCATCGGATAAAAAATCTATCTGACGGCAGATGGCACAAGATCGCTCTGAGCATCTTACCGCACAAGCACCTACATAAAACAACAGTGGAGCTGTTTGTTGATTGCGAAATGCAAGGTAGAAGGAAACTTCTGAAGTCATTTTATAGGCTCATACCACCCTCGGCAGATGCGTTGTTCGAGTTTGCGCGCAAAAGAGGCGACACAGATGGTGATGCTTTGATGTGGAAGGGAAGCCTTCAGAACTTTAAATTTGTGTTCGACAAAAATATTACGGAGTTAATGAAGAGCACAGGCTGCCCAAATGGACGTTTACCTGTTTTGCAGAGCAATGTAGGACAACAGCGGTTTACAACTGGCAATATGCACGCGAACCAACCACTGGTCACGAGGAAAACCGCTCTTGATATGCCTGTGTACGATGATATACCAGCTCTGCAATATAACATTCATGACGTCATGTTGGTATTGGTTAACATGCAAAAGGAAGCTCAACGACGTGAAGAAAGCTTCCAAAGATCACTGATGCTGTTGGAGAAGAGATTGAAATCTCAGTCCGCAGATTTGGTGTCCATCAAGGAGACGCTGGAGAATGGAGTGTGCTCAAACCGTGCCTACTCCCCTCAGGCAGTTTATGTGAACAAGTGCTCGCTAAAGCCGTGTTTCCCTTTTGTGAAATGCGAGGAGACACCCGGAGTGGGGCTTGGATTCAGGTGTGGAGATTGTCCGCCTGGTTACTCAGGAGACGGTCTAAGATGCGATGACGTCGATGAGTGTTCGTACCAGCCCTGCACAGCGCACACCACTTGTATCAACCTGCAACCTGGATATCGATGCACTGCTTGTCCGAAAGGATTTATCGGTAATTCAACTATGGGCATTGGAAGAGGCTTTGCAGAAAACATCAAGCAGATATGCATCGACATTGATGAATGCAGCGATGGCAAAAATGGTGGCTGTTCTGTCCATTCGACTTGCATAAATACTGAGGGAAGTTATTCTTGCAGTGGATGCCGAGATGGATACGTGGGTGATCCTTACAAAGAGTGCGTTCCCATTAAGTATTGCTCCGAAGATCGCAATTCAAATCCTTGCGGCGAGGGAGCAGAGTGCATACCGAAAAAAGGCGGAGTTCATTACGAGTGTAGGTGCAAGCCCGGCCTGGCTGGAAACGGCTTCGTATGTGACAGTGACCTTGACATGGATGGATTTCCGGATGTACAGCTCAACTGCAGCGATCCAAATTGTGCTAAGGATAACTGCAAAGATCTCCCGAACACCGACCAGGCGGATGTAAACAAGAATGGAATTGGCGATGCGTGTGAAGTTGACCTCGATGGGGATAGATATACAAATGATCAGGATAATTGCCCGACTGTTTCCAATAGACACCAAGCCGATAAAGACAAGGATCTCGTAGGAGACGCTTGCGACAACTGCCCGCGGGTTGCGAACCGCGATCAGAGAGACCTCGATGGGGACGGAATTGGTGACGTATGCGATGACGATGCTGATGGAGACGATGATGATGACGACGACAATGATGATGACGACGACGACGACGATGATGATGACGACAAAGATGATGACGACGACGACGACGATGATGATGACGACGAAGATGATGATGACGACGACGACGATGATGACGACGAAGATTGTCATGATCACCCCAATGACGTCGAAGATTTTGTTGATGATGACGACAACGACGATAATGGTGATGATAATTGCCGCAGATCAATTTTCGACAACTGCCCGCTTGTTCCAAATCGAAACCAAAAGGACGGTGATGGAGATAATGTTGGTGACCTGTGCGACAACTGCCCAGCCACATCCAACGCTGATCAGAGCGACAAGGATGGTGATGGCCATGGAGATGCGTGCGACCTGGATCGAGATTACGACAACGATGGAATAGAGAACAAATTTGACAACTGTATGAGCCATCCAAATCCCGATCAGCTTGACACGGATGAAGATGGGAGAGGTGACCTGTGTGATAGTGATGATGATGACGATGGGAGAGCTGATTTCATAGACAACTGTAGGCTGGTGTTCAACTTTGATCAAAAACAGACCATGAGCGATACATTCGGTGACGCATGCGTCGATGACTTCGACGGAGATGGGGTCCCGGATGAGGAAGACGTGTGTCCGATAAACCCGCAAATAACACGGAGCGACTTCTTAGCTTTCACGACGATGATTATTGACACGGACACAGGGCACGGACGAAACAAGCCATTTTGGAAAGTAAACAAAAAGGGAGATGAAATCCAACAGGTTGAAAACAGTGCCGCTTCAATCTTAACTGGAATTCAAGTATTTAACGATGTGGAATACAGTGGAACACTTTTCATCAACACAGTTTCAGACAACGATATCGTTGGCATCGTGTTTGGTTATCTGAACCGTAAAAAATTCTTCGTTGCCTCTTGGAAGCAAGAGGACCAGGTCTACTGGGGTAGCAGGCCTTTCAGAGCCCAAGCATTGGCCACTTTTAACATCAAGATCCAGTCCAGCCTTGAGAATTCGAAAGTGGTCTATTGCTTCGGTCAAGGCCGGGAGGAATGGGACCAAGATCTGTGGACGTTTCTGCTGGGGTCATCGTTTACTTTTTACGTTTGCTTATATAAAGAACCTTACTAGCCACCTTGAAAGTTAAGAGAACGTGTTAAACTAAGTAATCTCCCTTATTGCGTTCAAATTTTCTGAGACAGCTAATTTTGCTTTTTGCACTTTTTTTTAAATCAATATGTAATAATACAGTCGTTCATGTAAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q06441	Thrombospondin-4 OS=Xenopus laevis OX=8355 GN=thbs4 PE=2 SV=1
Q9Z1T2	Thrombospondin-4 OS=Mus musculus OX=10090 GN=Thbs4 PE=1 SV=1
Q9R0G6	Cartilage oligomeric matrix protein OS=Mus musculus OX=10090 GN=Comp PE=1 SV=2

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02412 all species →	TSP_3	Thrombospondin type 3 repeat	Domain	Interproscan
PF07645 all species →	EGF_CA	Calcium-binding EGF domain	Domain	Interproscan
PF05735 all species →	TSP_C	Thrombospondin C-terminal region	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR001881 all species →	Domain	EGF-like calcium-binding domain	Interproscan
IPR048287 all species →	Domain	Thrombospondin-like, N-terminal domain	Interproscan
IPR003367 all species →	Repeat	Thrombospondin, type 3-like repeat	Interproscan
IPR018097 all species →	Conserved_site	EGF-like calcium-binding, conserved site	Interproscan
IPR049883 all species →	Domain	NOTCH1 EGF-like calcium-binding domain	Interproscan
IPR008859 all species →	Domain	Thrombospondin, C-terminal	Interproscan
IPR017897 all species →	Repeat	Thrombospondin, type 3 repeat	Interproscan
IPR028974 all species →	Homologous_superfamily	TSP type-3 repeat	Interproscan
IPR013320 all species →	Homologous_superfamily	Concanavalin A-like lectin/glucanase domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10199 all species →	THROMBOSPONDIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0007155 all species →	Biological Process	cell adhesion	Interproscan
GO:0005576 all species →	Cellular Component	extracellular region	Interproscan
GO:0062023 all species →	Cellular Component	collagen-containing extracellular matrix	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
K04659	THBS2S; thrombospondin 2/3/4/5	-	Glycosaminoglycan binding proteins	ko00536	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g4882.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.