Gene detail

Detailed information of g778.t2 in Acropora digitifera

Genomic Location: chr1Alt:11647980...11678612
NR annotation: XP_015780263.1, PREDICTED: low-density lipoprotein receptor-related protein 4-like isoform X1 [Acropora digitifera]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g778.t2

ATGGAAGACTTAAGAAAACTGATAAGATGGATTTTTGCGTTGGTTGTGGTGGCGTTCATTCCACAAAAATCTGCAAATATATTTGGAGGAACCACAAACTGTTCGCATTTGAATGGAGGATGCAGCCACATTTGCCTTCCAAATCCAACTGGCCATCGGTGCTTCTGCCCAGAGGGAGTGCGACTTAAGCCTGGTGACCAATTTACATGCCAAGTGGCAATTAGATGTGCCGCTTTTCCAACTCCACCTAATGGCCTGAAAGCTGGGTGCTCTGATCCATCATTCGAACAATATGGTACTGTTTGCAGTTTGTCCTGTAGAGTTGGCTACAACCTGACTGGTTCGTCAAAACGGCAGTGCCTGCAAAACGAGACTTGGAGTGGAATAGATTCGATCTGTCGAGTCATCAATTGTGCAGCTCTCGTTCCTCCCCCCAATGGTGTGATATCTCCTTCTCAATGTCTGTCAAGAAGTACGTATGGTCAGTCCTGCAGGTTTAGTTGCCAAAGACAAGGTTATTCTCTGGAGGGTAGTTCCGTTAGGGTGTGCGGCAGTGACGGAGAGTGGACTGGCACTAATGACACGATATGCAGAGATATTGCACCTCCCAATATTCAATGCCCGCCTAGCATTTTGGTTGGTACAGATCCTGATCAATCCTATGCAACGACCTCTTGGAAAGTCCCTGTCCCCACCGACAACTCCAATGAGCCCTTGAACGTGCGCGGTAAACGACCACCGCAGCCTTTGAATGTTGGAAAAAATTACATCAGATATGACGTAACAGACTCTGCAGGACTCAGTAGCAGCTGTGTTTTCTCCATTGAAGTCAGAGAATTTCAAATCAAATCTAAACGAAAATATGAGCTGAATAAACATTATTATTATCATTATTATTATTATTACTGGTACGTGATGCTTTCACGCAGCATATTAATATTACTAGACGTTTCGGAACTGTGCCCTTCGTCATCCGGCACAACGACCAAGGATCGAACTGAGGCGTCGCAATTTCTATACTTGACACCGAGCAGGGCTGGATGGAGAGCATTTCCGCTGCCACCGTTCAGTTCACAGGATGAGATCTTTTCGAAAGGAAAGAATGTGGAGGCACCAGTTATTGATCCTTGTCCACGTGATATAAAAGTTATATCCAAAGAGAAAGTTCCAAAGCTGATATTGCCTGGAGTGAAAGTCACAGACAATGTTGGTGTCGTTGATTTTGCAACAAGCATTCGGAATGGAAGTAAAGTCAAGTTTGGTCAACACCACATCACTTACAATGCGTCAGATAAGGCTGGTAACGTGGCGTACTGCAGGTTTCGCGTAACAATAACCGCTTCACAATGTAAGGATTTGCCAACACCAAGGAATGGAGGCAAGGCTTGTGGGATGGTGCAGAAAGAAATGATCTGCACCGTACACTGTAACCCGGGATATGGCTTTGCAAACTTTCCAGCGCCCATCTATCGCTGTGATAATAGCGGGCAATGGTTTATTGTTCATGGTAGCACTAGCCTGCCAATCATGCCTACACTTCCTGATTGCTCAAAAAAACATATACCGAAAAAGGCTTGGTTTCGTGGACAGTATCATTATCTAACGAACAACTGCAACGAAAGCCTCACCGATAAGATCGTCGATAACTTCAAGGACTTGCTTCTTCAACCTGTTTGGGGGCTGCACAGATGTCATAGTACTCCAGACTGTGAAAACGTCGCAGTCGATGTAGACTGTGGAGAACAGACTCGGCGAAAAAGAGATACAGCCGCATTACTTCCTCTTAGTGTTAACTTCGCCTTAAAAGTTCGACTTTCCAATTACAACAGCAACACTTCACTCGATCTCAACGAGACTTCCTTGCAAATATCAAATGATATTCTAGCAGCCTTGGAACCGGCGGCGAGTCTGAATATCACCGGCGTTGTCATAGTAGTGGACACGACACGACCTCCTGTAATTCAGCTCACTAGCTTTATTTGTGAAGATGGGCAAGTGCTAATTGGGACCAAGTGTGTGAACTGTCCTGTTGGCTACTTCTTCAATGGCTCTAGCTGTCAGGCATGCGCAGTAGACGAATACCAAGATCAAGAAGCCCAGACCTTCTGCATCTCATGCCCATCAAGGACTTCAACTTTTGGTCAACAAGGATCAAAAGAACGACATAATTGTCAAGATTTTGTCGCCGATCACACTAATTGGAACTCCATGTCTGGAAGGATTTCAATTTATGAAATCAGGGACAAAACTCGTTTTCAGACTATGCGTTTGACTGGAAATCCGAAGATCCAAATTTGGAAATCCATGTCAGGAAGAAGAGGCCCTACGATGGATCGTGCTGTAGTTGGTTTTTCCAATAACGCATACGATAACACCCACACCCCGGGATATATGGGTCAAGGGCAAGCCAGGAATGACAGCTACAGTATATATTCTATCACATACTCTTTGCTATGTCCCCTGATGACGGTCTTTTTGTATCACGTGATCACTTTTATTCTATTGGAGCCCAAAAAAAAGCAACTAATGGGTCGGGGAACCGACAAGCTCGATACCAAAGCTAACATGGCTATCAACATGGCTTTCAGTTGGAAGACTGTGGCAAAATTACTCGCTCAAGACTGGCCCTCAGGCTGCCTAGCAACAGCTTATCCCTTCCACTGCCAAGGGGGACACAAAGTGGTACGAAATCACAAAAAATTGAATATCTGTGCAATTACTAAGTCTACAGGATTGAAATTTTGCAGGGTTGATGTATTTAAATCCTTTATTCTTTATATTTACTTCAACAGCGCCTCTACCAATACATTTCCAGCTTATATTGGTAATTTCGAGTTGCGTTAA

Transcript

chr1Alt.g778.t2

TAGTGGATGTGAACCCATACCAAACTTAACTGGGTTATACTTCAGCCATAATCAAGGTCTAATAATCGAGGCCTAATGTGAACACCGCTTTACTATTTCAGCTCGGGCTGAACTTTCAGTCGTTGAACAGGATCCGAAGTTTTTTTCCAGCAATCATGGAAGACTTAAGAAAACTGATAAGATGGATTTTTGCGTTGGTTGTGGTGGCGTTCATTCCACAAAAATCTGCAAATATATTTGGAGGAACCACAAACTGTTCGCATTTGAATGGAGGATGCAGCCACATTTGCCTTCCAAATCCAACTGGCCATCGGTGCTTCTGCCCAGAGGGAGTGCGACTTAAGCCTGGTGACCAATTTACATGCCAAGTGGCAATTAGATGTGCCGCTTTTCCAACTCCACCTAATGGCCTGAAAGCTGGGTGCTCTGATCCATCATTCGAACAATATGGTACTGTTTGCAGTTTGTCCTGTAGAGTTGGCTACAACCTGACTGGTTCGTCAAAACGGCAGTGCCTGCAAAACGAGACTTGGAGTGGAATAGATTCGATCTGTCGAGTCATCAATTGTGCAGCTCTCGTTCCTCCCCCCAATGGTGTGATATCTCCTTCTCAATGTCTGTCAAGAAGTACGTATGGTCAGTCCTGCAGGTTTAGTTGCCAAAGACAAGGTTATTCTCTGGAGGGTAGTTCCGTTAGGGTGTGCGGCAGTGACGGAGAGTGGACTGGCACTAATGACACGATATGCAGAGATATTGCACCTCCCAATATTCAATGCCCGCCTAGCATTTTGGTTGGTACAGATCCTGATCAATCCTATGCAACGACCTCTTGGAAAGTCCCTGTCCCCACCGACAACTCCAATGAGCCCTTGAACGTGCGCGGTAAACGACCACCGCAGCCTTTGAATGTTGGAAAAAATTACATCAGATATGACGTAACAGACTCTGCAGGACTCAGTAGCAGCTGTGTTTTCTCCATTGAAGTCAGAGAATTTCAAATCAAATCTAAACGAAAATATGAGCTGAATAAACATTATTATTATCATTATTATTATTATTACTGGTACGTGATGCTTTCACGCAGCATATTAATATTACTAGACGTTTCGGAACTGTGCCCTTCGTCATCCGGCACAACGACCAAGGATCGAACTGAGGCGTCGCAATTTCTATACTTGACACCGAGCAGGGCTGGATGGAGAGCATTTCCGCTGCCACCGTTCAGTTCACAGGATGAGATCTTTTCGAAAGGAAAGAATGTGGAGGCACCAGTTATTGATCCTTGTCCACGTGATATAAAAGTTATATCCAAAGAGAAAGTTCCAAAGCTGATATTGCCTGGAGTGAAAGTCACAGACAATGTTGGTGTCGTTGATTTTGCAACAAGCATTCGGAATGGAAGTAAAGTCAAGTTTGGTCAACACCACATCACTTACAATGCGTCAGATAAGGCTGGTAACGTGGCGTACTGCAGGTTTCGCGTAACAATAACCGCTTCACAATGTAAGGATTTGCCAACACCAAGGAATGGAGGCAAGGCTTGTGGGATGGTGCAGAAAGAAATGATCTGCACCGTACACTGTAACCCGGGATATGGCTTTGCAAACTTTCCAGCGCCCATCTATCGCTGTGATAATAGCGGGCAATGGTTTATTGTTCATGGTAGCACTAGCCTGCCAATCATGCCTACACTTCCTGATTGCTCAAAAAAACATATACCGAAAAAGGCTTGGTTTCGTGGACAGTATCATTATCTAACGAACAACTGCAACGAAAGCCTCACCGATAAGATCGTCGATAACTTCAAGGACTTGCTTCTTCAACCTGTTTGGGGGCTGCACAGATGTCATAGTACTCCAGACTGTGAAAACGTCGCAGTCGATGTAGACTGTGGAGAACAGACTCGGCGAAAAAGAGATACAGCCGCATTACTTCCTCTTAGTGTTAACTTCGCCTTAAAAGTTCGACTTTCCAATTACAACAGCAACACTTCACTCGATCTCAACGAGACTTCCTTGCAAATATCAAATGATATTCTAGCAGCCTTGGAACCGGCGGCGAGTCTGAATATCACCGGCGTTGTCATAGTAGTGGACACGACACGACCTCCTGTAATTCAGCTCACTAGCTTTATTTGTGAAGATGGGCAAGTGCTAATTGGGACCAAGTGTGTGAACTGTCCTGTTGGCTACTTCTTCAATGGCTCTAGCTGTCAGGCATGCGCAGTAGACGAATACCAAGATCAAGAAGCCCAGACCTTCTGCATCTCATGCCCATCAAGGACTTCAACTTTTGGTCAACAAGGATCAAAAGAACGACATAATTGTCAAGATTTTGTCGCCGATCACACTAATTGGAACTCCATGTCTGGAAGGATTTCAATTTATGAAATCAGGGACAAAACTCGTTTTCAGACTATGCGTTTGACTGGAAATCCGAAGATCCAAATTTGGAAATCCATGTCAGGAAGAAGAGGCCCTACGATGGATCGTGCTGTAGTTGGTTTTTCCAATAACGCATACGATAACACCCACACCCCGGGATATATGGGTCAAGGGCAAGCCAGGAATGACAGCTACAGTATATATTCTATCACATACTCTTTGCTATGTCCCCTGATGACGGTCTTTTTGTATCACGTGATCACTTTTATTCTATTGGAGCCCAAAAAAAAGCAACTAATGGGTCGGGGAACCGACAAGCTCGATACCAAAGCTAACATGGCTATCAACATGGCTTTCAGTTGGAAGACTGTGGCAAAATTACTCGCTCAAGACTGGCCCTCAGGCTGCCTAGCAACAGCTTATCCCTTCCACTGCCAAGGGGGACACAAAGTGGTACGAAATCACAAAAAATTGAATATCTGTGCAATTACTAAGTCTACAGGATTGAAATTTTGCAGGGTTGATGTATTTAAATCCTTTATTCTTTATATTTACTTCAACAGCGCCTCTACCAATACATTTCCAGCTTATATTGGTAATTTCGAGTTGCGTTAAGTCATAACTAAAAAAAAGAAAACAATTAAACAGTGTGCGTGTAC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A2AVA0	Sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 1 OS=Mus musculus OX=10090 GN=Svep1 PE=1 SV=1
P0C6B8	Sushi, von Willebrand factor type A, EGF and pentraxin domain-containing protein 1 OS=Rattus norvegicus OX=10116 GN=Svep1 PE=1 SV=1
Q8VI56	Low-density lipoprotein receptor-related protein 4 OS=Mus musculus OX=10090 GN=Lrp4 PE=1 SV=3

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00084 all species →	Sushi	Sushi repeat (SCR repeat)	Domain	Interproscan
PF02494 all species →	HYR	HYR domain	Domain	Interproscan
PF07699 all species →	Ephrin_rec_like	Tyrosine-protein kinase ephrin type A/B receptor-like	Domain	Interproscan
PF14670 all species →	FXa_inhibition	Coagulation Factor Xa inhibitory site	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035976 all species →	Homologous_superfamily	Sushi/SCR/CCP superfamily	Interproscan
IPR000436 all species →	Domain	Sushi/SCR/CCP domain	Interproscan
IPR009030 all species →	Homologous_superfamily	Growth factor receptor cysteine-rich domain superfamily	Interproscan
IPR003410 all species →	Domain	HYR domain	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR043555 all species →	Family	Sushi repeat-containing protein SRPX-like	Interproscan
IPR011641 all species →	Domain	Tyrosine-protein kinase ephrin type A/B receptor-like	Interproscan
IPR011042 all species →	Homologous_superfamily	Six-bladed beta-propeller, TolB-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46343 all species →	HYR DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
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

No KEGG orthology assignment for g778.t2.

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

Expression pattern (RNA-seq)

Transcript abundance of g778.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.