FasterDB identifier: 8826 - AC134539.2 (ENSMUSG00000078109)
Protein transport protein Sec61 subunit gamma
| Gene |  |
||
|---|---|---|---|
| Symbol | AC134539.2 | ||
| Synonyms | ENSMUSG00000078109 | ||
| Description | Protein transport protein Sec61 subunit gamma | ||
| EnsEMBL link | ENSMUSG00000078109 | ||
| Chromosome | 10 - forward strand | ||
| Chromosomal location (UCSC link) |
89341017 - 89341315 (299bp) | ||
| Sequence | sequence | ||
| Associated transcripts | AK160390 XM_001480161 XM_003086201 XM_001479482 XM_003084515 |
| Alternative 3' splice site (acceptor) | |
|||
|---|---|---|---|---|
| Identifier | Position | Distance (bp) | Transcript | |
| Alternative 5' splice sites (donor) | |
|||
|---|---|---|---|---|
| Identifier | Position | Distance (bp) | Transcript | |
| Intron retentions | |
|
|---|---|---|
| Identifier | Position | Transcript |
| Exon deletions |  |
|||
|---|---|---|---|---|
| Identifier | Position | Transcript | ||
| No data | ||||
| Transcription start sites | |
|||
|---|---|---|---|---|
| Identifier | Position | Gene coordinates | Chromosomal coordinates | Transcript |
| P1 | 1 | 1 | 89341017 | AK160390 |
| Protein prediction | |
|---|---|
| Transcript name | Sequence |
| AK160390 | sequence |
| XM_001480161 | sequence |
| XM_003086201 | sequence |
| XM_001479482 | sequence |
| XM_003084515 | sequence |
| Polyadenylation | |
||||||
|---|---|---|---|---|---|---|---|
| Identifier | Position | Gene coordinates of cleavage site | Chromosomal coordinates of cleavage site | Pattern | PolyA tail | Accession number | Type |
| PA1 | 1 | 299 | 89341315 | no | XM_001480161 | Cdna | |
| PA2 | 1 | 299 | 89341315 | no | AK160390 | Full_length | |
| Exon skipping | |
|
|---|---|---|
| Identifier | Position | Transcript |
| No data | ||
| Splice site strength | |
||||
|---|---|---|---|---|---|
| Identifier | Site | Exon | Strength | Alternative | Sequence |
| No data | |||||
| Conserved exons | |
|
|---|---|---|
| Gene identifier human | Position mouse | Position human |
| 13208 | 1 | 2 |
| 13208 | 1 | 3 |
| Report | |
|---|---|
| Exon | Number of supporting transcripts |
| Transcription initiation & first exon(s) | |
| 1 | 1 |
| Transcription termination & last exon(s) | |
| 1 | 2 |
| Splicing factors | |
|||
|---|---|---|---|---|
| Splicing factor | Exon array | CLIP data | Exon position | |
| CELF1 (CUG-BP) | ||||
| DAZAP1 | ||||
| ELAVL1 (HuR) | ||||
| ESRP1/2 | Yes | |||
| FUS | Yes | |||
| HNRNPA1 | ||||
| HNRNPA2B1 | ||||
| HNRNPAB | ||||
| HNRNPC | ||||
| HNRNPF-H | ||||
| HNRNPL | Yes | |||
| HNRNPL_2 | ||||
| HNRNPM | ||||
| HNRNPU | ||||
| MBNL3KO/MBNL3WT/MBNL3C2C12 | Yes | |||
| Nova/Nova1 | Yes | |||
| PTBP1/2 | Yes | |||
| QKI | ||||
| RBFOX2 | ||||
| RBM4 | Yes | |||
| SFRS3 (SRP20) | ||||
| SFRS6 (SRP55) | ||||
| SFRS7 (9G8) | ||||
| SRSF1 | Yes | |||
| SRSF2 | Yes | |||
| SRSF5 (SRP40) | ||||
| TIA1/TIAL1 | ||||
| TRA2A | ||||
| TRA2B | ||||
| YBX1 | ||||
| Expression | |
|
|---|---|---|
| Exon position | Tissues | Cell lines |
| 1 | Expression | Expression |
| Exon-Intron | |
|||||
|---|---|---|---|---|---|---|
| Position | Type | Gene coordinates | Chromosomal coordinates | Length | Sequence | Features |
| 1 | Exon | 1 - 299 | 89341017 - 89341315 | 299 | sequence | download |
|
5' untranslated regions
|
|
|---|---|
| UTR 1 | |
| Supporting GenBank accession identifers |
AK160390 |
| Length | 28 |
| Number of ATGs in frame | 0 |
| Total number of ATGs | 0 |
| Number of GTGs in frame | 0 |
| Total number of GTGs | 0 |
| Number of CTGs in frame | 0 |
| Total number of CTGs | 0 |
| Number of micro ORFs in frame | 0 |
| Total number of micro ORFs | 0 |
| GC percentage | 54 |
| Number of pyrimidine tracks | 0 |
|
3' untranslated regions
|
|
|---|---|
| UTR 1 | |
| Supporting GenBank accession identifers |
AK160390 XM_001480161 |
| Length | 64 |
| Number of ATGs in frame | 2 |
| Total number of ATGs | 2 |
| Number of GTGs in frame | 0 |
| Total number of GTGs | 0 |
| Number of CTGs in frame | 1 |
| Total number of CTGs | 1 |
| GC percentage | 56 |
| Number of pyrimidine tracks | 1 |
| miRNAs | |
|||
|---|---|---|---|---|
| Identifier | Name | Gene coordinates | Chromosomal coordinates | Prediction algorithm |
| No data | ||||
| Protein features | |
||||
|---|---|---|---|---|---|
| Category | Feature identifier | Feature name | Exons | Start on gene | End on gene |
| Binding | EXONT:004441 | Tumour necrosis factor-like domain | 1,2,3,4,5,6,6 | 1004 | 2711 |
| Binding | EXONT:004442 | Tumour necrosis factor domain | 2,3,4,5,6,6 | 1378 | 2711 |
| Localization | EXONT:000071 | Transmembrane_helix | 1 | 830 | 898 |
| Localization | EXONT:000064 | Nuclear_localization_signal | 2 | 1369 | 1389 |
| Structure | EXONT:000074 | Intrinsically_unstructured_polypeptide_region | 1 | 749 | 817 |
| Structure | EXONT:000071 | Transmembrane_helix | 1 | 830 | 898 |
| Structure | EXONT:000074 | Intrinsically_unstructured_polypeptide_region | 1,2,4 | 923 | 1762 |
| PTM | EXONT:000162 | O-phospho-L-threonine | 2 | 1396 | 1398 |
| PTM | EXONT:000992 | N4-(N-acetylamino)glucosyl-L-asparagine | 3 | 1587 | 1589 |
| PTM | EXONT:000164 | O4'-phospho-L-tyrosine | 4 | 1829 | 1831 |
| PTM | EXONT:000121 | L-cystine (cross-link) | 5 | 2140 | 2187 |
| PTM | EXONT:000935 | Cysteinylation (disulfide with free L-cysteine) | 5 | 2140 | 2187 |
| PTM | EXONT:000164 | O4'-phospho-L-tyrosine | 5 | 2188 | 2190 |
| PTM | EXONT:000161 | O-phospho-L-serine | 5 | 2191 | 2193 |
| PTM | EXONT:000161 | O-phospho-L-serine | 6 | 2465 | 2467 |
| Unclassified | EXONT:009249 | Tumour necrosis factor, conserved site | 4,5 | 1835 | 2067 |
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