Gene detail

Detailed information of g98.t1 in Acropora digitifera

Genomic Location: chr1Alt:1384722...1429410
NR annotation: XP_015748651.1, PREDICTED: hemicentin-2-like [Acropora digitifera]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g98.t1

ATGAAGCTGCTGTGTGTTTATGAAACCGCAAGCACAGCGTTTATTACTGAACCTTCAAAGCCAACATTTGCAGAAGAAGGGAAGATCTTCACTCTTGAGTGGAACTATACTTTAGATGGTACAGTGTATATTGCACAATTTTTCAATGTTACTGGTGGTGGAATTGTTAGACTTGCCAAGACATCAGAGACTGGTAACATCTTAACTGTTGAGTCAGACTACATAGGACGATTTAGCGGACAAGTAACAAACACAAAAGCAGAGCTGACAGTTCTGGGAATGCAAAGATCAGAGCAATTAAACTGTAGATTCTTACTGAATCCAACTGGCTCTGGTATTCTTAGCAGTGATGTGGACATTATTATACAAGTTCCATCAAGCATTACTAGACTGTCTGGGAAAACTGTAATTGAAGGAGAGAATGTGACACTGGAGTGTTTAGCTGAGGGAAAACCAATCCCAAGCATTGCATGGGCAAGACTCTCAGACAACCGTGATGTAGTCATGCCATTGACAAACATCAGTAGGTGGGATGCAGGAATGTACAGATGCACGGCTTATAATGGTGTTGGAAGCCCTGTTACTGGAGATGTCTTGCTTGCTGTGCAATATAAACCTGATCATGTTTCTCTGAACATTTCAACCACCAAAGTGTGTGCAGGGATGGAAGTGACGTTTACATGTTCAGCTGGTTCTGCCAACCCACCAATACAGAATTATACACTTTATAAATTTGATGCTGGGCTCATAAGCAGTAGTCAAGATGGAGTTTTTAAACAAAGGCTCCACACCAAAGGCCAGCATAATTACCGATGTGAGGCTAGCAATTCACTGGCATCTACGTCAAGTTGTAATAGGATTTTAGAAGTTCATGTCCCTGCCTCAGTGACAATTGAAAAGGACACAATTGTTGTCTTGGAGGGTAGAAATGTCACACTACATTGTTTGCCCTGTGGTTTTCCATCACCAAATGTCTTGTGGACTGACTTTTCAAACTACACTGTAGAGGAAGGAAGTATTTTGAAGTTCCAGAATATCAGCAGACGTAGGCATGGAAGCTACACATGTTCAGCAACCAATGCTTGTGGAAGTGACAGGAAAAAAGTTGACATTGTTGTGGAATATCCTGTGGAAGTTAATGGTAGTGGACAAAATGCAACTGTGGCTAGAGGAGTTAAGCATACGTTTTCCTGTCCAGTTGATGGAAACCCTGAGCCACATATCGAATGGTACAATGAAAAAACAGGAACAAAGATTTCAAGTGAAAAATGGTTAACAACTTGGGAAAGTGGGTGCTACACCTGTGTTGCAAGTAATGATGTTGGACCACCAGTCAGTGTCACACAGTGCTTGACAATTAATGCCTTTCTGACTACAGTACCTATTTCGACAGTGTCACCAGGAGGAGCAGTTTATGGGAGAGTATTAATAGTACGAAATTACTCAGATGACTACCAAAATTTGGATAGAGGCCCTTCAAAGGAATTTGTGGCATGGTTTGTGGGAGAGATGGACAAAATTTACATGAACATGCCAGAGTACCACTGGACTCAAGTCAAAGACCTGAGGCCTGGGAGTGTAATTGTGAACTTCACCCTGCACTTCAAAATTGGTGTGACTCGAGAGAAGGGACTTGAAAACCTGAGGATAGCTATTTCCTCCAATGGCACTTTTGGTGGTATAGAAGCTAAGTATCTGTCTGACGAGAGTACCACATCCACTACACCGGGAAAACCCAAGGCAGCAGTTCCCAACCCTGATCTGGAAAGACCGGACGAGGAAGGGGGATATTCGCTAGTACAAGGGGCTTATGCACAATCAGGACCACCGGCGGCAAGTGGAACTGATGTTGCTGCTGCTGAACAGCAGCTAGAGGGATCCACAGCCATTCCTACTTACGCTGTTGTGGACAAGTCCAAGAAGAAGAAGAAGTTACGGGAAGGGCCACCCGTTTATGCTGAGGTGGATAAATCCAAGAAGAAGAAAAAGAAGATCGATGATAAGAATCTTTATGAAACCCTCGATGAACCAAAGAAGGACCTTATATTAAATTTACCATTGCTCTCACTCTTGGGGAATGATATGACTACTTATCTGAAAATCGTGTGTTATATTTATGAAATTGGAGGAACTGGAGTTCATGAAGTTGTTGAAAACAGAAGCATTAATTATTTTGTTTTGCAGGCAAAGATACCTGGGGAACTCCTTTATGCAGACTTGGGTGATTTTCAGAATCGAGCCATGTCAACAGTGTCCATCTCACCACAGCCTCTGCCAGCGATTAAAAAACCCGAAGCTTACGAAAGGACGGACTATGCTGACATCGCCCAGTTCCTTAAAGGAAATACCACATCACCTCAAAATGATAGTAATGAAGACACGGAATGGAAACCGGAACGTCCAAGCAAAAAGAAGATTCGAGGAAAGGACGATGAAACACAAATTTAG

Transcript

chr1Alt.g98.t1

ATAGGCTCCTGACAGGCATCAGCGCTCTGAAATTCGCGGGTGCTTTATAAGCCTAAAAGTTGCGTTTACACGGCATTCTGGTTTCTCTGATTCCCATCTACCACGAGTCTGTTTAGAAAATTTGAGCGAAGCGCCACCATGAGGACAGAAGATATGACAGTTTGATGGAGCACATTGTTTACACAGGTTTATAGCAATGCTGAGCCGAGTTTTAAAAAAAATTGACCACCGGTAGGCCATAGGGTGGGCCATAAGGTAGTTCTCTTCTTTAATTATTTTAAAATTAGGAGCAATTGTAGGGAATTATTATTCCCATATGAAGCTGCTGTGTGTTTATGAAACCGCAAGCACAGCGTTTATTACTGAACCTTCAAAGCCAACATTTGCAGAAGAAGGGAAGATCTTCACTCTTGAGTGGAACTATACTTTAGATGGTACAGTGTATATTGCACAATTTTTCAATGTTACTGGTGGTGGAATTGTTAGACTTGCCAAGACATCAGAGACTGGTAACATCTTAACTGTTGAGTCAGACTACATAGGACGATTTAGCGGACAAGTAACAAACACAAAAGCAGAGCTGACAGTTCTGGGAATGCAAAGATCAGAGCAATTAAACTGTAGATTCTTACTGAATCCAACTGGCTCTGGTATTCTTAGCAGTGATGTGGACATTATTATACAAGTTCCATCAAGCATTACTAGACTGTCTGGGAAAACTGTAATTGAAGGAGAGAATGTGACACTGGAGTGTTTAGCTGAGGGAAAACCAATCCCAAGCATTGCATGGGCAAGACTCTCAGACAACCGTGATGTAGTCATGCCATTGACAAACATCAGTAGGTGGGATGCAGGAATGTACAGATGCACGGCTTATAATGGTGTTGGAAGCCCTGTTACTGGAGATGTCTTGCTTGCTGTGCAATATAAACCTGATCATGTTTCTCTGAACATTTCAACCACCAAAGTGTGTGCAGGGATGGAAGTGACGTTTACATGTTCAGCTGGTTCTGCCAACCCACCAATACAGAATTATACACTTTATAAATTTGATGCTGGGCTCATAAGCAGTAGTCAAGATGGAGTTTTTAAACAAAGGCTCCACACCAAAGGCCAGCATAATTACCGATGTGAGGCTAGCAATTCACTGGCATCTACGTCAAGTTGTAATAGGATTTTAGAAGTTCATGTCCCTGCCTCAGTGACAATTGAAAAGGACACAATTGTTGTCTTGGAGGGTAGAAATGTCACACTACATTGTTTGCCCTGTGGTTTTCCATCACCAAATGTCTTGTGGACTGACTTTTCAAACTACACTGTAGAGGAAGGAAGTATTTTGAAGTTCCAGAATATCAGCAGACGTAGGCATGGAAGCTACACATGTTCAGCAACCAATGCTTGTGGAAGTGACAGGAAAAAAGTTGACATTGTTGTGGAATATCCTGTGGAAGTTAATGGTAGTGGACAAAATGCAACTGTGGCTAGAGGAGTTAAGCATACGTTTTCCTGTCCAGTTGATGGAAACCCTGAGCCACATATCGAATGGTACAATGAAAAAACAGGAACAAAGATTTCAAGTGAAAAATGGTTAACAACTTGGGAAAGTGGGTGCTACACCTGTGTTGCAAGTAATGATGTTGGACCACCAGTCAGTGTCACACAGTGCTTGACAATTAATGCCTTTCTGACTACAGTACCTATTTCGACAGTGTCACCAGGAGGAGCAGTTTATGGGAGAGTATTAATAGTACGAAATTACTCAGATGACTACCAAAATTTGGATAGAGGCCCTTCAAAGGAATTTGTGGCATGGTTTGTGGGAGAGATGGACAAAATTTACATGAACATGCCAGAGTACCACTGGACTCAAGTCAAAGACCTGAGGCCTGGGAGTGTAATTGTGAACTTCACCCTGCACTTCAAAATTGGTGTGACTCGAGAGAAGGGACTTGAAAACCTGAGGATAGCTATTTCCTCCAATGGCACTTTTGGTGGTATAGAAGCTAAGTATCTGTCTGACGAGAGTACCACATCCACTACACCGGGAAAACCCAAGGCAGCAGTTCCCAACCCTGATCTGGAAAGACCGGACGAGGAAGGGGGATATTCGCTAGTACAAGGGGCTTATGCACAATCAGGACCACCGGCGGCAAGTGGAACTGATGTTGCTGCTGCTGAACAGCAGCTAGAGGGATCCACAGCCATTCCTACTTACGCTGTTGTGGACAAGTCCAAGAAGAAGAAGAAGTTACGGGAAGGGCCACCCGTTTATGCTGAGGTGGATAAATCCAAGAAGAAGAAAAAGAAGATCGATGATAAGAATCTTTATGAAACCCTCGATGAACCAAAGAAGGACCTTATATTAAATTTACCATTGCTCTCACTCTTGGGGAATGATATGACTACTTATCTGAAAATCGTGTGTTATATTTATGAAATTGGAGGAACTGGAGTTCATGAAGTTGTTGAAAACAGAAGCATTAATTATTTTGTTTTGCAGGCAAAGATACCTGGGGAACTCCTTTATGCAGACTTGGGTGATTTTCAGAATCGAGCCATGTCAACAGTGTCCATCTCACCACAGCCTCTGCCAGCGATTAAAAAACCCGAAGCTTACGAAAGGACGGACTATGCTGACATCGCCCAGTTCCTTAAAGGAAATACCACATCACCTCAAAATGATAGTAATGAAGACACGGAATGGAAACCGGAACGTCCAAGCAAAAAGAAGATTCGAGGAAAGGACGATGAAACACAAATTTAGGTTGACTCGTTCAATCTGCGAAGCCCGTCAGTGGTGATTCTTTTCGTAGTACTTGGCTTTGATTGAAAATCTGAAGTTGCGATTTTGGTTAAGTGAACGTTCGTCTAAAAATTTTTAT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
D3YXG0	Hemicentin-1 OS=Mus musculus OX=10090 GN=Hmcn1 PE=1 SV=1
A2AJ76	Hemicentin-2 OS=Mus musculus OX=10090 GN=Hmcn2 PE=1 SV=1
Q8NDA2	Hemicentin-2 OS=Homo sapiens OX=9606 GN=HMCN2 PE=1 SV=4

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13895 all species →	Ig_2	Immunoglobulin domain	Domain	Interproscan
PF07679 all species →	I-set	Immunoglobulin I-set domain	Domain	Interproscan
PF13927 all species →	Ig_3	Immunoglobulin domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036179 all species →	Homologous_superfamily	Immunoglobulin-like domain superfamily	Interproscan
IPR007110 all species →	Domain	Immunoglobulin-like domain	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR003598 all species →	Domain	Immunoglobulin subtype 2	Interproscan
IPR013098 all species →	Domain	Immunoglobulin I-set	Interproscan
IPR003599 all species →	Domain	Immunoglobulin subtype	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46013 all species →	VASCULAR CELL ADHESION MOLECULE 1	Interproscan

Gene Ontology

No Gene Ontology signature was recorded for g98.t1 in Acropora digitifera.

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 g98.t1.

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

Expression pattern (RNA-seq)

Transcript abundance of g98.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

30TPM > 0

1Conditions

56.3Max TPM

18.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	30	18.01	56.33

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931	56.33
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931	43.90
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931	42.27
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931	37.11
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931	36.84
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931	30.16
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931	26.41
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931	26.14
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931	25.57
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931	25.54
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931	25.13
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931	24.37
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931	23.71
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931	23.32
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931	23.03
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931	22.79
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931	21.86
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931	21.52
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931	21.03
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931	20.13
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931	19.75
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931	16.50
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931	12.68
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931	12.40
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931	12.14
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931	11.47
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931	11.31
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931	10.20
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931	10.09
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931	8.62
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047210	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
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931	0.00
SRR23047235	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.