GgaINT0126120 @ galGal4
Intron Retention
Gene
ENSGALG00000001910 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr17:7893224-7893628:+
Coord C1 exon
chr17:7893224-7893290
Coord A exon
chr17:7893291-7893469
Coord C2 exon
chr17:7893470-7893628
Length
179 bp
Sequences
Splice sites
5' ss Seq
GAGCTGATG
5' ss Score
-3.84
3' ss Seq
TGTACCCTTAACTCCTAAAGGAA
3' ss Score
4.39
Exon sequences
Seq C1 exon
TTCTGCAGCATCAGAATGGGTTTTACCAGGGCTGGGAGTCAGATGTTATGTCAGACAGTGGGCTGAG
Seq A exon
CTGATGGGAAGGAGGAAAGGGAGCCGGGCAGGGCTGGTAACCGCCTTTGGGAGTGCTCAGAGCAGCTGTCAGGGAGGGAGTTATGTGCTTCCAGGTCTTTGGGAATCAATTTTCAACACAATGCCAGTACTTGCTTTTAAAAGCAACCGTTCCCTCTTCTGTACCCTTAACTCCTAAAG
Seq C2 exon
GAAGTGGAAAGAGAAGAGGACAGCAGTGATGATGATCTTGAAAGCAGTCTGCTGGAAGATCCAGAAACGTGTCTGCAGATGAACTATGTGTATCAGGAAGTTATCCAGGAAAAGATTGAGGAGGTGGAGCTTCTGATTGCACAAAACAAAGAGCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001910:ENSGALT00000002951:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.321
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTGCAGCATCAGAATGGGT
R:
CTGCTGCTCTTTGTTTTGTGCA
Band lengths:
226-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]