Gene detail

Detailed information of g16748.t1 in Acropora digitifera

Genomic Location: chr8Alt:638821...647104
NR annotation: XP_029196032.1, cytoplasmic dynein 1 intermediate chain 2-like [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

chr8Alt.g16748.t1

ATAGTCTTGATGTTCTGTTATCGTCGGCCATATTGGATGGGAAAGAAGAGATCGTAGCCATGTCTGATAGAAAAGCAGAGTTAGCGAAAAAGCGGAAACGTTTAGAAGAGATTAAACAGGCTCGAAAGGATAAGCAAGATCAGGAGAAAGTCAAAACACCTACTGTGCAGAAGTCTCCTGCAGCAGGACCAGGGAGCAAGGAATCTGAAATTGATGAGCTGCTCAAGGGGATTATACCTGATGATGTGATTGATGGCAGGGCAGGAACATTATGGTCACATGAGCTTGAAAGGTGTCATAAACAAGGTGGAGCATCCCTCTTGCAAAAGCAACCTGAGTCAGCCAGTCCAGGAAAAGATATAACACTGAAATCTCCTGCACAAATAGAAAAGAAAAAATCACTTAAGTTGGGCATTTCTCAGCTTACACAGACAAATATTCCACCAAAGGAACCTGTTTTATACAACAAAGAAACACAAACAAAAAATTTGGAACCAGAAGAGCCTCCAGACGAATTTGAGGCCATTGTTCCTCAAAAACCAAAGGAGGCAGAACCACAAGCTGAGACTGAAGCTACTGGAGAAGAGAGCAGAGAGGAAGTTCCTGTCATTGAGCTCAGTGAAGAACAGAAAGCACACATTTTAAATTCTGGAGAATTTAGCAAGTTCTTTGATAAAGCTGCAAGATTGATGGAAAGAGCTTTATGTGAAACAGTGGACATCACATTTGATTACTCTGGTGCAGAGGCTGAAGACACAGAGGGGGATACCCTAGCATCTGGCAAACTGGCATTTAATCGGGAGTTCTTTGATGAAAGGTGGTCGAGGCATAGAACAGTAACATGCTTGGACTGGTCAACACAGTACCCAGAGCTGCTTGTAGCTGCATATAACAATAATGAAGATGCCCCACATGAACCAGATGGTGTGGCTCTGATATGGAACATGAAATACAAGAAAGAATCACCAGAATATATATTCCACTGTCAGTCAGGTGTGATGTCAGTGACTTTTGCTAAGTTTCATCCCAATTTAATCATTGGAGGAACTTACTCTGGTCAAATAGTATTATGGGATAACAGAAGCAGTAAGAAGACGCCTGTTCAGAGAACTCCCCTCTCTGCTACTGCACACACGCATCCAGTGTACTGTGTCAATGTTGTGGGAACACAGAACGCTCATAACCTGATCAGTGTCTCCACTGATGGTAAAATGTGTTCATGGAGTCTTGACATGCTCTCTCAACCCCAGGACAGTATGGAGCTGCAGTATAAACAATCCAAAGCAGTAGCAGTCACTTGTCTTTCCTTTCTAGCTGGTGATGTTAATAACTTCGTGGTTGGCAGCGAGGAAGGCTCTGTGTACACCGCCTGCCGACACGGAAGCAAAGCTGGTATCAGTGACATATTTGAGGGTCATTATGGTCCAGCCACAGGTATTGACACCCACTCAGCTGCCGGACCCATTGACTTCTCATATCTGTTTTTAACCTCGTCGTTTGATTGGACGATCAAACTCTGGAGTCACAAGAACCCGCGGCCTCTGTATTCATTTGAAGACAACGGTGATTACGTCTATGATGTGCAGTGGTCACCAATCCACCCTGCTTTATTCGCGGCGGTCGACGGCACAGGAAGGCTGGACTTGTGGAACCTTAATCATGACACTGAGGTTCCAACTGCCAGCACAAATTCTGAATCGATGACCTCACTGAACCGATTGCGGTGGACACATTCCGGTCACCAGATCTCTGTGGGTGATGATGATGGTCACGTGTTTATTTATGATGTCGGCGAGCAATTGGCGGTACCAAGACCCGATGAGTGGTCCAGATTCCAGAATACTGTTCATGAAATCCAGGCCAATGCTTCGTCTGTTGGTGAAATCGGTTCTCCAAAGATGCCGTCTCCTTCCAAGATCCCATTTAGTTAAGTAAGAGGTTTCCCTTTCAATTAGAGACAACCTGGCGTCTGATAGGTGTGAACCGCTCTATTTGAAAGATTTGAACTTCCGAATTCATAAAAACTGTAAAATGCCTCTAAAGTCTATGATTACAGAGAGTGGTGCTAGAACTTTCAGTTTCTTTTGGGAAGGGATTTACTAGTTGAAAGTAAGAAATTTTAAGAATGCTT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
E7F6H7	Dynein, cytoplasmic 1, intermediate chain 2a OS=Danio rerio OX=7955 GN=dync1i2a PE=3 SV=2
Q0III3	Cytoplasmic dynein 1 intermediate chain 2 OS=Bos taurus OX=9913 GN=DYNC1I2 PE=1 SV=1
Q13409	Cytoplasmic dynein 1 intermediate chain 2 OS=Homo sapiens OX=9606 GN=DYNC1I2 PE=1 SV=3

Gene family

Family type	Membership / link
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan
PF11540 all species →	Dynein_IC2	Cytoplasmic dynein 1 intermediate chain 2	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR050687 all species →	Family	Dynein Intermediate Chain	Interproscan
IPR025956 all species →	Family	Cytoplasmic dynein 1 intermediate chain 1/2	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12442 all species →	DYNEIN INTERMEDIATE CHAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005868 all species →	Cellular Component	cytoplasmic dynein complex	Interproscan
GO:0007018 all species →	Biological Process	microtubule-based movement	Interproscan
GO:0010970 all species →	Biological Process	transport along microtubule	Interproscan
GO:0045503 all species →	Molecular Function	dynein light chain binding	Interproscan
GO:0045504 all species →	Molecular Function	dynein heavy chain binding	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
K10415	DYNC1I, DNCI; dynein cytoplasmic 1 intermediate chain	-	Cytoskeleton proteins	ko04812	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g16748.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

138.2Max TPM

117.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	39	117.12	138.25

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931	138.25
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931	137.31
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931	134.08
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931	133.31
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931	132.56
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931	130.19
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931	129.25
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931	128.70
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931	126.32
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931	126.13
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931	125.91
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931	125.51
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931	124.12
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931	122.37
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931	120.80
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931	120.67
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931	120.21
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931	117.84
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931	117.77
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931	117.40
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931	115.63
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931	114.78
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931	113.79
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931	111.96
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931	110.52
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931	109.65
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931	109.18
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931	108.21
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931	108.18
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931	107.23
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931	106.52
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931	106.47
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931	106.30
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931	105.17
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931	104.52
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931	102.47
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931	101.38
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931	99.14
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931	97.85

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.