GgaINT0124458 @ galGal4
Intron Retention
Gene
ENSGALG00000002375 | NOTCH1
Description
notch 1 [Source:HGNC Symbol;Acc:HGNC:7881]
Coordinates
chr17:7838714-7839921:+
Coord C1 exon
chr17:7838714-7838879
Coord A exon
chr17:7838880-7839625
Coord C2 exon
chr17:7839626-7839921
Length
746 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ATTTCCCCCATGCTTTTCAGACG
3' ss Score
7.69
Exon sequences
Seq C1 exon
TTCGAGGAGCAGGCGATGCTGCCCGACACGGATGACCAGACGGACCACAGGCAGTGGACTCAGCAGCACCTGGATGCTGCCGACCTCCGCATCTCCTCCATGGCCCCTACCCCACCACAGGGCGAGATCGATGCAGACTGCATGGATGTCAACGTACGAGGTCCAG
Seq A exon
GTAAGGCTCTTTGCCTTCTCTTCTTGGCTCGTCTCAGATCCTCACTGCCTGTGGATGGGCAGTCCCAGAGCTCCCATCTCCATTTTTAATGCGCTGTCCCTGCCCTCTCAGCCACATGTCACAATTAGCGCTCGCCCCTCTGCATGGCACAGTTGCTGTTCTGCGTGAGACACTCTGCCAAATTCTGCTTTCAACAAGATCTCTTCATTTAATCACAGAGAGGGAAATCAGAGGATACAGAAGAGCCATTAAATCATTCCACTTCTCCCCTGCCCTTGGGTTGGAAGGGACCTAAGAGATCATCCACTTCCAAATGCACGATTAACGACCTTCTTTCCAAGCTTTTGGCTATATGAATAGTTAGTAGACATTTAAAGTGTTTCAAACATTTGGTCTTCCCCATCTCTCTGAAACTGTCTGCTGAAATAATGGAAATAGCTAAGGCTGTGCTGTGCCACACTGAAGTCTGTGCTGAGCAACCCTTTGTATTGATCGCACCTGGCGTGTCAGTGTGCCAGCCAGCAGACGAAGCAGGAAAACCAGAGAGTGCTGAGATAGCCACGGAGGAATTTCACATCCATATCAGAGGAAGGATATTCGTGTTTGATGTGCAGAAGCAGTCAGGAACTCAGTCTATATGTACCCACGGGAATAAGCATCTATTGCAGACAGAGCATCTCGCTGAGCCGCCCGCGTTACGGGAAGGCAGCGAGCCTTTTCTCACTGATTTCCCCCATGCTTTTCAG
Seq C2 exon
ACGGCTTCACGCCCCTCATGATCGCCTCGTGCAGCGGAGGGGGGCTGGAGACTGGCAACAGCGAGGAGGAGGACGATGCCCCTGCAGTCATCTCAGATTTCATCTACCAAGGCGCCAGTTTGCACAACCAGACTGACCGCACCGGCGAGACCGCGCTGCACCTGGCTGCCCGCTACTCGCGCTCCGACGCTGCCAAACGCCTGCTGGAAGCCAGTGCTGATGCGAACATTCAGGATAACATGGGCAGGACCCCTCTGCACGCCGCTGTCTCTGCTGATGCCCAAGGAGTCTTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002375:ENSGALT00000003754:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.929 A=NA C2=0.414
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF127962=Ank_2=PU(83.5=76.8)
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:
GGCGAGATCGATGCAGACTG
R:
CTGGAAGACTCCTTGGGCATC
Band lengths:
342-1088
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]