| Gene |  |
||
|---|---|---|---|
| Symbol | Sec61g | ||
| Synonyms | ENSMUSG00000078974 | ||
| Description | SEC61, gamma subunit Gene | ||
| EnsEMBL link | ENSMUSG00000078974 | ||
| Chromosome | 11 - reverse strand | ||
| Chromosomal location (UCSC link) |
16401633 - 16408487 (6855bp) | ||
| Sequence | sequence | ||
| Associated transcripts | NM_001109971 NM_011343 NM_001109972 BC019129 BC019158 AK012644 XM_003086748 XM_001478520 AK160390 AK012393 BC081456 U11027 XM_001480161 XM_003086201 XM_001479482 XM_003084515 M88756 |
| Alternative 3' splice site (acceptor) | |
|||
|---|---|---|---|---|
| Identifier | Position | Distance (bp) | Transcript | |
| Alternative 5' splice sites (donor) | |
|||
|---|---|---|---|---|
| Identifier | Position | Distance (bp) | Transcript | |
| ASS1 | 1 | -25 | NM_011343 BC019129 BC019158 AK012644 XM_003086748 XM_001478520 AK160390 |
|
| ASS2 | 1 | -21 | NM_001109972 |
|
| 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 | 16408487 | NM_001109971 NM_011343 NM_001109972 |
| P2 | 1 | 336 | 16408152 | AK012644 |
| P3 | 1 | 360 | 16408128 | AK160390 |
| P4 | 1 | 382 | 16408106 | AK012393 |
| Protein prediction | |
|---|---|
| Transcript name | Sequence |
| NM_001109971 | sequence |
| NM_011343 | sequence |
| NM_001109972 | sequence |
| BC019129 | sequence |
| BC019158 | sequence |
| AK012644 | sequence |
| XM_003086748 | sequence |
| XM_001478520 | sequence |
| AK160390 | sequence |
| AK012393 | sequence |
| BC081456 | sequence |
| U11027 | sequence |
| XM_001480161 | sequence |
| XM_003086201 | sequence |
| XM_001479482 | sequence |
| XM_003084515 | sequence |
| M88756 | sequence |
| Polyadenylation | |
||||||
|---|---|---|---|---|---|---|---|
| Identifier | Position | Gene coordinates of cleavage site | Chromosomal coordinates of cleavage site | Pattern | PolyA tail | Accession number | Type |
| PA1 | 4 | 6855 | 16401633 | no | AK012644 | Full_length | |
| Exon skipping | |
|
|---|---|---|
| Identifier | Position | Transcript |
| No data | ||
| Splice site strength | |
||||
|---|---|---|---|---|---|
| Identifier | Site | Exon | Strength | Alternative | Sequence |
| S1 | 5' (donor) | 1 | 7.23 | no | GTGgtaggt |
| S2 | 5' (donor) | 1 | 9.09 | yes | CCAgtaagt |
| S3 | 5' (donor) | 1 | 5.07 | yes | TAAgtaagg |
| S4 | 5' (donor) | 2 | 8.49 | no | AAGgtaata |
| S5 | 3' (acceptor) | 2 | 7.94 | no | tgcttttattttttaaacagACA |
| S6 | 5' (donor) | 3 | 7.65 | no | TGTgtaagt |
| S7 | 3' (acceptor) | 3 | 7.61 | no | actttgtgttttaaattcagAAT |
| S8 | 3' (acceptor) | 4 | 13.04 | no | tgcttttctttctcttgcagGGG |
| Conserved exons | |
|
|---|---|---|
| Gene identifier human | Position mouse | Position human |
| 13208 | 1 | 1 |
| 13208 | 2 | 2 |
| 13208 | 3 | 3 |
| Report | |
|---|---|
| Exon | Number of supporting transcripts |
| Transcription initiation & first exon(s) | |
| 1 | 4 |
| Transcription termination & last exon(s) | |
| 4 | 1 |
| Alternative 5' splice sites | |
| 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 |
| 2 | Expression | Expression |
| 3 | Expression | Expression |
| 4 | Expression | Expression |
| Exon-Intron | |
|||||
|---|---|---|---|---|---|---|
| Position | Type | Gene coordinates | Chromosomal coordinates | Length | Sequence | Features |
| 1 | Exon | 1 - 406 | 16408082-16408487 | 406 | sequence | download |
| 1 | Intron | 407 - 2012 | 16406476-16408081 | 1606 | sequence | - |
| 2 | Exon | 2013 - 2112 | 16406376-16406475 | 100 | sequence | download |
| 2 | Intron | 2113 - 3646 | 16404842-16406375 | 1534 | sequence | - |
| 3 | Exon | 3647 - 3749 | 16404739-16404841 | 103 | sequence | download |
| 3 | Intron | 3750 - 6677 | 16401811-16404738 | 2928 | sequence | - |
| 4 | Exon | 6678 - 6855 | 16401633-16401810 | 178 | sequence | download |
|
5' untranslated regions
|
||||||
|---|---|---|---|---|---|---|
| UTR 1 | UTR 2 | UTR 3 | UTR 4 | UTR 5 | UTR 6 | |
| Supporting GenBank accession identifers |
NM_011343 |
NM_001109971 |
NM_001109972 BC019129 BC019158 XM_003086748 XM_001478520 |
AK012644 |
AK012393 |
AK160390 |
| Length | 291 | 412 | 391 | 51 | 30 | 28 |
| Number of ATGs in frame | 0 | 1 | 1 | 0 | 0 | 0 |
| Total number of ATGs | 1 | 3 | 2 | 0 | 1 | 0 |
| Number of GTGs in frame | 7 | 3 | 3 | 0 | 0 | 0 |
| Total number of GTGs | 10 | 12 | 12 | 1 | 0 | 0 |
| Number of CTGs in frame | 1 | 3 | 2 | 0 | 1 | 0 |
| Total number of CTGs | 3 | 6 | 5 | 1 | 1 | 0 |
| Number of micro ORFs in frame | 0 | 1 | 1 | 0 | 0 | 0 |
| Total number of micro ORFs | 1 | 2 | 2 | 0 | 1 | 0 |
| GC percentage | 59 | 58 | 59 | 53 | 37 | 54 |
| Number of pyrimidine tracks | 0 | 0 | 0 | 0 | 0 | 0 |
|
3' untranslated regions
|
|
|---|---|
| UTR 1 | |
| Supporting GenBank accession identifers |
AK012644 NM_001109971 NM_011343 NM_001109972 BC019129 BC019158 XM_003086748 XM_001478520 U11027 AK012393 BC081456 AK160390 XM_001480161 |
| Length | 168 |
| Number of ATGs in frame | 3 |
| Total number of ATGs | 4 |
| Number of GTGs in frame | 1 |
| Total number of GTGs | 2 |
| Number of CTGs in frame | 1 |
| Total number of CTGs | 3 |
| GC percentage | 40 |
| Number of pyrimidine tracks | 4 |
| miRNAs | |
|||
|---|---|---|---|---|
| Identifier | Name | Gene coordinates | Chromosomal coordinates | Prediction algorithm |
| Group 1 | ||||
| M1 | mmu-miR-149 | 6695 - 6718 | 16401770 - 16401793 | miranda |
| M2 | mmu-miR-203 | 6802 - 6823 | 16401665 - 16401686 | miranda |
| Protein features | |
||||
|---|---|---|---|---|---|
| Category | Feature identifier | Feature name | Exons | Start on gene | End on gene |
| Binding | EXONT:003138 | Ankyrin repeat | 2 | 13708 | 13800 |
| Binding | EXONT:003138 | Ankyrin repeat | 3 | 16605 | 16703 |
| Binding | EXONT:003138 | Ankyrin repeat | 4 | 23945 | 24043 |
| Binding | EXONT:003138 | Ankyrin repeat | 5 | 28743 | 28835 |
| Binding | EXONT:003138 | Ankyrin repeat | 6 | 32941 | 33039 |
| Binding | EXONT:003138 | Ankyrin repeat | 7 | 43263 | 43361 |
| Binding | EXONT:003138 | Ankyrin repeat | 8 | 45065 | 45154 |
| Binding | EXONT:003138 | Ankyrin repeat | 9 | 50702 | 50800 |
| Structure | EXONT:000074 | Intrinsically_unstructured_polypeptide_region | 1 | 162 | 182 |
| Structure | EXONT:003138 | Ankyrin repeat | 2 | 13708 | 13800 |
| Structure | EXONT:000027 | Polypeptide_repeat | 2 | 13708 | 13800 |
| Structure | EXONT:000027 | Polypeptide_repeat | 3 | 16605 | 16694 |
| Structure | EXONT:003138 | Ankyrin repeat | 3 | 16605 | 16703 |
| Structure | EXONT:000027 | Polypeptide_repeat | 4 | 23945 | 24034 |
| Structure | EXONT:003138 | Ankyrin repeat | 4 | 23945 | 24043 |
| Structure | EXONT:000027 | Polypeptide_repeat | 5 | 28743 | 28832 |
| Structure | EXONT:003138 | Ankyrin repeat | 5 | 28743 | 28835 |
| Structure | EXONT:000027 | Polypeptide_repeat | 6 | 32941 | 33030 |
| Structure | EXONT:003138 | Ankyrin repeat | 6 | 32941 | 33039 |
| Structure | EXONT:000027 | Polypeptide_repeat | 7 | 43263 | 43352 |
| Structure | EXONT:003138 | Ankyrin repeat | 7 | 43263 | 43361 |
| Structure | EXONT:003138 | Ankyrin repeat | 8 | 45065 | 45154 |
| Structure | EXONT:000027 | Polypeptide_repeat | 8 | 45065 | 45154 |
| Structure | EXONT:000027 | Polypeptide_repeat | 9 | 50702 | 50791 |
| Structure | EXONT:003138 | Ankyrin repeat | 9 | 50702 | 50800 |
| PTM | EXONT:000161 | O-phospho-L-serine | 9 | 50735 | 50737 |
| Unclassified | EXONT:009062 | Ankyrin repeat-containing domain | 2,3,4,5,6,7,8,9,10 | 13726 | 61642 |
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