Gene detail

Detailed information of g2175.t1 in Acropora digitifera

Genomic Location: chr1Alt:35119066...35132193
NR annotation: XP_029188614.2, SID1 transmembrane family member 1-like [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g2175.t1

ATGATGTTGACGGTTATCTTTTACACTATATCTATTTCCTCGAGTATTTTCTCTGCCTCTGGAACTCTACTTGTCTTCAATACGAGGTCAACAAATGTCCTCGAGTACAAAAATGGCTCCATTGGAACTCAAGTTGAAGGGAATGTCTCCAAGAGCAGAGAGGAGGTCTGGTTATACGAGTACAATTGGAAGGACAAGCCTGATTCTTACGCAGTGAGAGTTCGTGTCCAAAGTGAAACAGCAACTCAAGAGTATCCACTGTTGTTTGTGACACGTCTTCAACGGGGAGTGATGTCTTGGTCAATACCACAGTTTGACTACACCTTTGCAAGTCGCACCCTTTGTTCGTTTCTTCACAACCTTGTCCCAATTAATGGTCCTGGGAAAGAGTCTTTTTCTGTCGATATTTCTACATCATCACCAAACCCCGTCAATTACATTCTGAAAGCAGAGTTTGTTAATCACTTTGAAATCAGTTTGAATGAGCATTTAACTGTAACAGTAGATCCAGCACAACCAGCGTATTACCTGTGGAGATTTCCAGCTGATGAGGGTACTGTTTTGGTCAAGGCATCGTCTTCGGATACTGAGTTGTGTGCTATTCTTTCAATCCAAGGAACTCAGTGCCCTGAGTATTACTTAGCAAGGAACGTAGAATTCACAGGCTCCTTTCAGACTATGACCACCAAGGCAGCCATCACAGTCCAGCACTCCATGTTTAAGAGAAACGAGATCTACATTGTATTGATTGTGAAATCTTCAGATGAAGAATGCAACTCAGGTAGACACTTTGGTGATACCAAAACACGTGAAAGTGCATCCCAATCTCATCGCTCAGCAGGTTCCCTCTTGGAAAGACAAAAGAATGTAACAATAATTGTGGTGCCTACTCTATCTGAAAATAATTATGCAAAGGCCATTGCAGTTCCAGTTATATTCTTTTTATCATTTTACGTTGTTTCATTCATTGTCCTTCTGGTCAGCTGGTACAGACAAAGAGGAGGAAGCAGTGAAAAAAGTTTTCGATCTGTATTGATGCCACAGGAAAAAATTATTAATGAAGATACCCCTGTAAGTGTGCCGTTGCGGACATCTTCCAGAAGATTAAGGGATAATTATGGATCAACTCCAAGAGACAATGAGCCATTGGATGTGCATAAGCTTGACAGTGTGGATAATTTGGATCAGAATCATTCATTGGTCACAGACAATGAGCTGACATCAAGGGAGTTTGAACAGCATTATGACATGTTACATGATATTGATCAGGAAAAAGATATTTATAGATTGAGGACCAGCCTCATGTTAACAGACTTGGCAAAGAAAGAGAACAAGTCCCTATCAAAGAAATACAGACTATATCACTGGAATCTTTTGATGATATCTGTATTCTATGCTCTTCCTGTCGTTCAACTTGTAGTTACCTACCAGAAGGTTTTGAATTCCAGTGGAAATGAGGATATATGCTACTATAACTTTTTGTGTGCACATCCTTTGGGGGTTTTAAGTGCTTTTAACAATGTCTGGAGCAACGTTGGTTACATCCTTCTGGGTTTCCTCTTCTTCTTCCTTGTTTTGCGCCGTGACAGACAATACAAGCACGAAATCGTGGAAAATAAAGCTTTAGAGAAGGACTATGGAATTCCACAACATTATGCTATATTCTATGCTATGGCATTGGCCTTAATCATGGAAGGTGTGTTATCAGGATGTTACCATGTGTGTCCAAACAGTTCAAATTTCCAATTTGACACGTCATTCATGTACATTATCACTTGTCTGGGGATAGTAAAACTCTATCAGAATCGTCATCCTGACATTGCAGCTCATGCTCATACTGTCTACACTGGATTTGCTTTGATAATCCTCATTGCTGTTATGGGAGTGATCTATGAGTCATCTGCTTTCTGGACAACCTTTGCTGTTATTCACATCATTGGGTGCTGGTACCTAAGTTCTCAAATTTACTACATGGGAAGGGTCAAGTTTGAAGCTGGCATGTTTTTAAGAGTCTTCATGTTGTTCAGATATGACTGCTGTTCATGTCCAACATACAAGGATCGCATGTTTCTGTTGGTGATTGCCAATATGGTGAATTGGTTTTTTGCATTATATGGTGCTATAACCACACCTGGTGATTTTGCAACTTATTTGCTGGCAATTTTGATTGTCAATGGGTTACTTTATGTGGCATTTTATATGATAATGAAGCTTAGAAGTGGAGAAAAGATTCTTCCCCTCCCTTTGTTTCTTATTATTTGTTCTCTCTTTTGCTGGATATTTGCCTTGGTTTTTTTCTTTAGCAACCTCACATCATGGCAGAAAAGTCCAGCTCGTTCAAGGCAAGGAAACAAAGACTGCATTTTACTTGGATTTTACGACAACCATGATATTTGGCACTTCCTTTCTGCTTGTGCCTTATTCTTTTCATTCTTGGGTTTGTTGACTCTGGATGATGACCTTCTAAGAACACCAAGACGCAACATTCCTGTATTTTAA

Transcript

chr1Alt.g2175.t1

AGCTTCAGTCGAGGACCTGTCGCTATTGAGTGCTATCAGTGCAATCGGGTTTAAGGAGGTTGTAAACTCACTTTTGCTCACCATTTCTGTCCATAACACTAATATGATGTTGACGGTTATCTTTTACACTATATCTATTTCCTCGAGTATTTTCTCTGCCTCTGGAACTCTACTTGTCTTCAATACGAGGTCAACAAATGTCCTCGAGTACAAAAATGGCTCCATTGGAACTCAAGTTGAAGGGAATGTCTCCAAGAGCAGAGAGGAGGTCTGGTTATACGAGTACAATTGGAAGGACAAGCCTGATTCTTACGCAGTGAGAGTTCGTGTCCAAAGTGAAACAGCAACTCAAGAGTATCCACTGTTGTTTGTGACACGTCTTCAACGGGGAGTGATGTCTTGGTCAATACCACAGTTTGACTACACCTTTGCAAGTCGCACCCTTTGTTCGTTTCTTCACAACCTTGTCCCAATTAATGGTCCTGGGAAAGAGTCTTTTTCTGTCGATATTTCTACATCATCACCAAACCCCGTCAATTACATTCTGAAAGCAGAGTTTGTTAATCACTTTGAAATCAGTTTGAATGAGCATTTAACTGTAACAGTAGATCCAGCACAACCAGCGTATTACCTGTGGAGATTTCCAGCTGATGAGGGTACTGTTTTGGTCAAGGCATCGTCTTCGGATACTGAGTTGTGTGCTATTCTTTCAATCCAAGGAACTCAGTGCCCTGAGTATTACTTAGCAAGGAACGTAGAATTCACAGGCTCCTTTCAGACTATGACCACCAAGGCAGCCATCACAGTCCAGCACTCCATGTTTAAGAGAAACGAGATCTACATTGTATTGATTGTGAAATCTTCAGATGAAGAATGCAACTCAGGTAGACACTTTGGTGATACCAAAACACGTGAAAGTGCATCCCAATCTCATCGCTCAGCAGGTTCCCTCTTGGAAAGACAAAAGAATGTAACAATAATTGTGGTGCCTACTCTATCTGAAAATAATTATGCAAAGGCCATTGCAGTTCCAGTTATATTCTTTTTATCATTTTACGTTGTTTCATTCATTGTCCTTCTGGTCAGCTGGTACAGACAAAGAGGAGGAAGCAGTGAAAAAAGTTTTCGATCTGTATTGATGCCACAGGAAAAAATTATTAATGAAGATACCCCTGTAAGTGTGCCGTTGCGGACATCTTCCAGAAGATTAAGGGATAATTATGGATCAACTCCAAGAGACAATGAGCCATTGGATGTGCATAAGCTTGACAGTGTGGATAATTTGGATCAGAATCATTCATTGGTCACAGACAATGAGCTGACATCAAGGGAGTTTGAACAGCATTATGACATGTTACATGATATTGATCAGGAAAAAGATATTTATAGATTGAGGACCAGCCTCATGTTAACAGACTTGGCAAAGAAAGAGAACAAGTCCCTATCAAAGAAATACAGACTATATCACTGGAATCTTTTGATGATATCTGTATTCTATGCTCTTCCTGTCGTTCAACTTGTAGTTACCTACCAGAAGGTTTTGAATTCCAGTGGAAATGAGGATATATGCTACTATAACTTTTTGTGTGCACATCCTTTGGGGGTTTTAAGTGCTTTTAACAATGTCTGGAGCAACGTTGGTTACATCCTTCTGGGTTTCCTCTTCTTCTTCCTTGTTTTGCGCCGTGACAGACAATACAAGCACGAAATCGTGGAAAATAAAGCTTTAGAGAAGGACTATGGAATTCCACAACATTATGCTATATTCTATGCTATGGCATTGGCCTTAATCATGGAAGGTGTGTTATCAGGATGTTACCATGTGTGTCCAAACAGTTCAAATTTCCAATTTGACACGTCATTCATGTACATTATCACTTGTCTGGGGATAGTAAAACTCTATCAGAATCGTCATCCTGACATTGCAGCTCATGCTCATACTGTCTACACTGGATTTGCTTTGATAATCCTCATTGCTGTTATGGGAGTGATCTATGAGTCATCTGCTTTCTGGACAACCTTTGCTGTTATTCACATCATTGGGTGCTGGTACCTAAGTTCTCAAATTTACTACATGGGAAGGGTCAAGTTTGAAGCTGGCATGTTTTTAAGAGTCTTCATGTTGTTCAGATATGACTGCTGTTCATGTCCAACATACAAGGATCGCATGTTTCTGTTGGTGATTGCCAATATGGTGAATTGGTTTTTTGCATTATATGGTGCTATAACCACACCTGGTGATTTTGCAACTTATTTGCTGGCAATTTTGATTGTCAATGGGTTACTTTATGTGGCATTTTATATGATAATGAAGCTTAGAAGTGGAGAAAAGATTCTTCCCCTCCCTTTGTTTCTTATTATTTGTTCTCTCTTTTGCTGGATATTTGCCTTGGTTTTTTTCTTTAGCAACCTCACATCATGGCAGAAAAGTCCAGCTCGTTCAAGGCAAGGAAACAAAGACTGCATTTTACTTGGATTTTACGACAACCATGATATTTGGCACTTCCTTTCTGCTTGTGCCTTATTCTTTTCATTCTTGGGTTTGTTGACTCTGGATGATGACCTTCTAAGAACACCAAGACGCAACATTCCTGTATTTTAATTAATTGTTGAATACAAGAAAAAATAGTGTTGCTCCCCTTTAGTAATTGACAGCAATAAATGGCTGTGTAAACAAGTTACCAGTAGTGAGAAGAACTTTATCTTCATAGGTTGAATGTTGATTAAAAGTCAAAGTAAGTC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9NXL6	SID1 transmembrane family member 1 OS=Homo sapiens OX=9606 GN=SIDT1 PE=1 SV=2
Q6AXF6	SID1 transmembrane family member 1 OS=Mus musculus OX=10090 GN=Sidt1 PE=1 SV=1
Q6Q3F5	SID1 transmembrane family member 1 OS=Rattus norvegicus OX=10116 GN=Sidt1 PE=1 SV=2

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13965 all species →	SID-1_RNA_chan	dsRNA-gated channel SID-1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025958 all species →	Family	SID1 transmembrane family	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12185 all species →	SID1 TRANSMEMBRANE FAMILY MEMEBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003725 all species →	Molecular Function	double-stranded RNA binding	Interproscan
GO:0005764 all species →	Cellular Component	lysosome	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0050658 all species →	Biological Process	RNA transport	Interproscan
GO:0051033 all species →	Molecular Function	RNA transmembrane transporter activity	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
K26111	SIDT1; SID1 transmembrane family member 1	-	Membrane trafficking	ko04131	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g2175.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

39TPM > 0

1Conditions

105.7Max TPM

75.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	39	75.74	105.72

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931	105.72
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931	102.21
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931	97.82
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931	97.57
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931	92.02
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931	89.75
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931	88.44
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931	87.23
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931	83.41
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931	82.67
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931	82.05
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931	81.67
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931	80.22
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931	80.16
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931	77.41
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931	77.01
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931	76.52
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931	76.09
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931	75.68
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931	74.52
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931	73.99
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931	73.34
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931	72.89
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931	72.18
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931	71.97
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931	70.45
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931	70.32
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931	69.49
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931	68.16
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931	64.41
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931	64.33
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931	64.23
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931	62.99
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931	61.35
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931	60.73
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931	59.32
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931	58.69
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931	54.43
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931	52.40

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.