Genomic Location: not available for this species
NR annotation: CAB4022206.1, tRNA-splicing ligase homolog, partial [Paramuricea clavata]
Species Paramuricea clavata · all data for this species · gene families
CAB4022206.1 in PCLAV (the gene ID may belong to a different isoform naming scheme). Try the gene search.| UniProt accession | Description |
|---|---|
| Q99LF4 | RNA-splicing ligase RtcB homolog OS=Mus musculus OX=10090 GN=Rtcb PE=1 SV=1 |
| Q6AYT3 | RNA-splicing ligase RtcB homolog OS=Rattus norvegicus OX=10116 GN=Rtcb PE=2 SV=1 |
| Q5E9T9 | RNA-splicing ligase RtcB homolog OS=Bos taurus OX=9913 GN=RTCB PE=2 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0003319 (this species only) |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF01139 all species → | RtcB | tRNA-splicing ligase RtcB | Family | Interproscan |
| PF13419 all species → | HAD_2 | Haloacid dehalogenase-like hydrolase | Family | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR006439 all species → | Family | HAD hydrolase, subfamily IA | Interproscan |
| IPR036025 all species → | Homologous_superfamily | tRNA-splicing ligase RtcB-like superfamily | Interproscan |
| IPR001233 all species → | Family | RNA-splicing ligase, RtcB | Interproscan |
| IPR011945 all species → | Domain | Predicted HAD-superfamily phosphatase, subfamily IA/Epoxide hydrolase, N-terminal | Interproscan |
| IPR041492 all species → | Family | Haloacid dehalogenase-like hydrolase | Interproscan |
| IPR036412 all species → | Homologous_superfamily | HAD-like superfamily | Interproscan |
| IPR023214 all species → | Homologous_superfamily | HAD superfamily | Interproscan |
| IPR023198 all species → | Homologous_superfamily | Phosphoglycolate phosphatase-like, domain 2 | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR11118 all species → | UNCHARACTERIZED | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0006396 all species → | Biological Process | RNA processing | Interproscan |
| GO:0008452 all species → | Molecular Function | RNA ligase activity | Interproscan |
| GO:0000971 all species → | Biological Process | obsolete tRNA exon ligation utilizing 2',3' cyclic phosphate of 5'-exon as source of linkage phosphate | Interproscan |
| GO:0003972 all species → | Molecular Function | RNA ligase (ATP) activity | Interproscan |
| GO:0005634 all species → | Cellular Component | nucleus | Interproscan |
| GO:0072669 all species → | Cellular Component | tRNA-splicing ligase complex | Interproscan |
CAB4022206.1.Transcript abundance of CAB4022206.1 across 21 RNA-seq samples of Paramuricea clavata. 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.
| Condition | Samples | TPM > 0 | Mean TPM | Max TPM | Mean, relative to max |
|---|---|---|---|---|---|
| apical branchlet · Control at T25 | 6 | 4 | 9.28 | 27.10 | |
| apical branchlet · Temperature treatment at T0 | 6 | 4 | 8.29 | 20.65 | |
| apical branchlet · Temperature treatment at T25 | 5 | 3 | 2.44 | 6.24 | |
| apical branchlet · Control at T0 | 4 | 1 | 2.26 | 9.04 |
Source: CnidoSite RNA-seq expression matrices (PCLAV_TPM,
StringTie quantification over 21 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.
