Special

GgaEX0025050 @ galGal3

Exon Skipping

Gene
ENSGALG00000016890 | A3F958_CHICK
Description
NA
Coordinates
chr1:149544911-149566210:-
Coord C1 exon
chr1:149566057-149566210
Coord A exon
chr1:149561428-149561522
Coord C2 exon
chr1:149544911-149548218
Length
95 bp
Sequences
Splice sites
3' ss Seq
CATGGTTCCCCTCCTGAAAGTAC
3' ss Score
3.97
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
Exon sequences
Seq C1 exon
GCCTTTCCTCCCGGTGTTCTTCACCCTTTACCAAAGAGACAAGCACTTGAAAAAAGCAATGGTGCCAGTGCCGTTTTCAATCCCAGTGTCTTGCACTATCAACAGGCTCTTGCCAATGCTCAGTTGCAGCAACATGCAGCGTTCATCCCGACAG
Seq A exon
TACCCATGATGCACAACGCTACGGCCGCCACTGTCTCTGCAGCAACAACTCCTGCAACAAGTGTTCCCTTCGCCGCAACAGCCACAGCAAATCAG
Seq C2 exon
ATAATCCTGAAGTAATCAGCAGGAACGGGACGGAGTGCCACGAAGCCTCCCTGCGGATGGCCAAGCACGGCTACTGTACATACTATCCTGTCTCCTCCTCTCTAGAATTGCCACAAACTGCATGCTAAGTAAAGAATTTGTTCTTACGGACAAATCACAAACTCTAAAAAGCTAGTGCTGCTATGTCATATATGAATATTAAATATGGTATGCTTACTATACTCCGACCTAAAATAGTTAACTACCTGATACCAGCTGTGATGTTTCAAGACATAAAGGGTAACATTTAGTTTCGAAGATTTTCTAAACATAGTTTAATTCTTGCAAACGTTGTCTTTTCTCCATAACTATACCTAATGGAAATGGTCCAATTGAGTTAGCCTTGGGAGATTCGCTGTTCATGAATCTTTCAAGCTCAGCAATAATTAATTTGTATTGGCTAAAAACATATCCCGGTTGCACGTTTAGTTTTAACCCGAACTATAATTGGGGGTTTTCTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016890_MULTIEX1-2/2=C1-C2
Average complexity
C1
Mappability confidence:
NA
Protein Impact

In the CDS, with uncertain impact

No structure available
Features
Disorder rate (disopred):
  C1=0.654 A=1.000 C2=0.595
Domain overlap (PFAM):

C1:
NO
A:
NO
C2:
NO


Main Inclusion Isoform:


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
ALTERNATIVE
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCCAGTGCCGTTTTCAATC
R:
ATGTACAGTAGCCGTGCTTGG
Band lengths:
174-269
Functional annotations
There are 1 annotated functions for this event
PMID: 27733504
The presence of alternative ex.54nt always significantly elevated MBNL1 and MBNL2 protein levels (_2.7 and _4.0-times, respectively). There were marginal changes of the GFP-MBNL level for constructs carrying ex.36nt (_1.3-times) and ex.95nt (_0.8-times). There were no significant differences between the activities of the analyzed proteins for the majority (67%) of AS events. However, these exons might have either a positive or negative effect on some specific AS events (Figure 5A and C). Interestingly, exOFF events predominated in AS events with a negative effect of ex.36nt (95%; P = 0.002) and a positive effect of ex.95nt (90%; P = 0.010). All together, these data indicate that the presence of sequences encoded by these alternative exons can significantly modulate MBNL splicing activity, but this regulation depends strongly on the targeted RNA.


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]