GgaINT0124460 @ galGal4
Intron Retention
Gene
ENSGALG00000002375 | NOTCH1
Description
notch 1 [Source:HGNC Symbol;Acc:HGNC:7881]
Coordinates
chr17:7840174-7840511:+
Coord C1 exon
chr17:7840174-7840321
Coord A exon
chr17:7840322-7840413
Coord C2 exon
chr17:7840414-7840511
Length
92 bp
Sequences
Splice sites
5' ss Seq
TGGGTACAG
5' ss Score
0.89
3' ss Seq
TTCCTGGCCTTCCCCTGTAGGCA
3' ss Score
10.28
Exon sequences
Seq C1 exon
ATCCTGATAAGGAACAGGGCGACTGATCTCGATGCCCGAATGCACGATGGGACGACCCCACTGATCCTGGCTGCTCGCTTGGCTGTGGAGGGGATGCTGGAGGACCTCATCAACTGCCACGCAGACGTCAACGCTGTGGATGATCTGG
Seq A exon
GTACAGTGGGAGGCTAAAGAAGAGGAGGGCTGCTTTACTAGTCCCCTTCCCACTCACTCATTCTTGCTGTGTTTCCTGGCCTTCCCCTGTAG
Seq C2 exon
GCAAGTCAGCACTGCACTGGGCAGCTGCTGTGAACAATGTCGAAGCCGCTGTCGTCCTCCTGAAGAACGGTGCCAATAAGGATATGCAGAACAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002375:ENSGALT00000003754:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.212
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PD(14.3=26.0),PF127962=Ank_2=PU(31.2=58.0)
A:
NA
C2:
PF127962=Ank_2=FE(34.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATGCACGATGGGACGACC
R:
GTTCTTCAGGAGGACGACAGC
Band lengths:
179-271
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]