Gene detail

Detailed information of g9919.t2 in Acropora digitifera

Genomic Location: chr4Alt:31012059...31020240
NR annotation: XP_044174845.1, protocadherin Fat 4-like isoform X1 [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

chr4Alt.g9919.t2

TTTACTCGTCAATGGGGAGCCCCTTAGGGTTAATGTTCCAGTTCATTTACCGTAACTCGCATCTGTAATGCTACTTGATCACTATTGTAATTTACAAGAAATTGCTCACACTCATATACTTTAGAAATTGAAATGGTAAGGAACTGTTTTAACCGAACAGAGAAGAAGAGAGTATGCGGCGAGATGACTCGCTTAAAAAACTCGAGAGTATTGTGTTATTCTTTCTCACAAATAAATGTATTATCATGGTTGTGCAAGTTCGAAGTTTGGGAAAAAGTGTCTTTTCCTTGAATAATCAAACTGGAGTATTATCGCCGTCCAGTTCACTCGATTACGAGACCACACCTCAGTACGTGTTGAACATGTCGGCGTCCGACCTTGGTCATCCAACACGCCGAACATTTATTGATGTCACAGTTAACGTGATGGATGTCAACGATAATTCACCTGTGTTTAACCCAAGGACTATCCAAGTCTCGCTTTCCGAGGGAACTGCTCCTGGTACCTTTGTTGCTCAGCTTAAGGCAACAGACGCTGATTCAGACGCGAACGGGAACGTAACGTATCACCTCGTGGAAGGCGGGGTCAACAAGTTCATTATAGACAATGTGACAGGCGTCATCAGCACTACTGCGGTTTTCGATAGGGAATCTGGTACGAATGAGTACACGCTTGTTGTAAAGGTAAAAGACAATGCACCACATCCAAGAGCCGACATTGGAATTGTTACTGTCCGCATCCACAACACGAACGAACATGCGCCTGTCATATTACCCGCATCCTACATAGCAGGTGTCTACAAAGAATCAACTTATTATTCACTTGTGACTACAATAAAGGCATCTGACGAAGACTTTGACCCCAATGCAGTCATATCCCACTTTGTCGTTGGAGGTGATGGTGTTGATATGTTTCACGTGGAGCCAGACTCTGGTCACGTGCGAGTCGCTTGTTCAATGATTGATAAAGAAGGTTCAAAGTTCACATTACAAGTCAGTGCTTCTGATGGCGAGAGAACATCAACTAACCCTGCAACTGTAGACATATTCCTTTTGCGCGATGAAGATGCTGTGATTTTAACGACAGGCATTCAACCAATGGAAATAACGAGAAAAAGACAAGAGTTTATCGGGATGCTCGAGTCAATAACAACAGGAAAGGCTTTTATCAAGCATTTAGTGCCACAAGCCGAAACAAACATGACATCAGTGACTTTTCACGTAGTCAAGAATAAAACGGTGTTAACAGGCTCAGAAATTATACGCTACCTTACAGCGAACAAGGAGATCTTTGTTACAATTTATGACAAGTGGAAAATTCAAACCTACCAGGTCTACCAGAGCCCTGTACGTGTGGTGTCCGAGCCGCAGAAATCAGTGGAAGATGGGGCTTTGTCAGCCGTAGTCGGGGCAATGATTTGCTTAGGAGTGCTGATCGGTATCAGCTCTGTTATTCTGCTATTCACACTCATTCGAAGAAAACAAGCTGGCAAAAGTCCTTTCAAGAAGAAGAAACGAGTTAGGTTTAACGACAACCCGTTATACTTCTTGCCTAATCCAAACGCAATTGTGAGAGACCAAGTTGAAAGTGCGCAGGAAGCACAAGAAGTCATAGTCCACCTTCCAGGTGAGGACAATAGTTCCCTGGAAGGAAGTGAATGTTCTGATGAGGTCATCATGAACTTCGGTGCCGCCGTACGTAGGGCGGCTTGTCGCGAGAAAGACCCTATCGATCTACGAGATGAAAAAGATCAGGAATGGTTTTTCCCTCCACCTCCAATAGGGCCAGCTCCGGCACCACCCGATTCCGATTCGGGTTCTGAGAATGAGTCAATTGCTTCCGAATCCGTATCTCACGAGAACAATGTGATAGCTGACGCTACGGAGGTTTTCAGACAGGACGAATATTTCCCCGAGACTTTTCGATCGGGCGAGGAAGGTTACTTTGATGGTGTCGTACAAAACGGGTCGCCCTCGGGATCAACGATGGCAAGCTTGAACGACTCCTACATCACGGCAGCTCCCAGGATTCCATCAACAGGTGGCTCATTTCTGAGACAATTTCCCTTGAACGAAATCAAAACCGACCTCTAGATATGTAAATTGACTCAAACACGGCTAGAAGCTGAGACTTTTACACAGCTAATGACACACGTTTTTCTGCAGTTTATACAAGAAAAAAAAAAGAAGACA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6V0I7	Protocadherin Fat 4 OS=Homo sapiens OX=9606 GN=FAT4 PE=1 SV=2
G5EDK5	Cadherin EGF LAG seven-pass G-type receptor fmi-1 OS=Caenorhabditis elegans OX=6239 GN=fmi-1 PE=1 SV=1
Q2PZL6	Protocadherin Fat 4 OS=Mus musculus OX=10090 GN=Fat4 PE=1 SV=2

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00028 all species →	Cadherin	Cadherin domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015919 all species →	Homologous_superfamily	Cadherin-like superfamily	Interproscan
IPR002126 all species →	Domain	Cadherin-like	Interproscan
IPR020894 all species →	Conserved_site	Cadherin conserved site	Interproscan
IPR039808 all species →	Family	Cadherin	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24027 all species →	CADHERIN-23	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0007156 all species →	Biological Process	homophilic cell adhesion via plasma membrane adhesion molecules	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0007155 all species →	Biological Process	cell adhesion	Interproscan
GO:0000902 all species →	Biological Process	cell morphogenesis	Interproscan
GO:0005912 all species →	Cellular Component	adherens junction	Interproscan
GO:0007043 all species →	Biological Process	cell-cell junction assembly	Interproscan
GO:0007275 all species →	Biological Process	multicellular organism development	Interproscan
GO:0016339 all species →	Biological Process	calcium-dependent cell-cell adhesion via plasma membrane cell adhesion molecules	Interproscan
GO:0016342 all species →	Cellular Component	catenin complex	Interproscan
GO:0034332 all species →	Biological Process	adherens junction organization	Interproscan
GO:0044331 all species →	Biological Process	cell-cell adhesion mediated by cadherin	Interproscan
GO:0045296 all species →	Molecular Function	cadherin binding	Interproscan
GO:0098609 all species →	Biological Process	cell-cell adhesion	Interproscan
GO:0098742 all species →	Biological Process	cell-cell adhesion via plasma-membrane adhesion molecules	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 g9919.t2.

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

Expression pattern (RNA-seq)

Transcript abundance of g9919.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.