GgaINT0124459 @ galGal4
Intron Retention
Gene
ENSGALG00000002375 | NOTCH1
Description
notch 1 [Source:HGNC Symbol;Acc:HGNC:7881]
Coordinates
chr17:7839626-7840321:+
Coord C1 exon
chr17:7839626-7839921
Coord A exon
chr17:7839922-7840173
Coord C2 exon
chr17:7840174-7840321
Length
252 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
GCTTCCTCTGGCTGGGGCAGATC
3' ss Score
5.95
Exon sequences
Seq C1 exon
ACGGCTTCACGCCCCTCATGATCGCCTCGTGCAGCGGAGGGGGGCTGGAGACTGGCAACAGCGAGGAGGAGGACGATGCCCCTGCAGTCATCTCAGATTTCATCTACCAAGGCGCCAGTTTGCACAACCAGACTGACCGCACCGGCGAGACCGCGCTGCACCTGGCTGCCCGCTACTCGCGCTCCGACGCTGCCAAACGCCTGCTGGAAGCCAGTGCTGATGCGAACATTCAGGATAACATGGGCAGGACCCCTCTGCACGCCGCTGTCTCTGCTGATGCCCAAGGAGTCTTCCAG
Seq A exon
GTAAAAGGGTCCTTTCACCACTGCTTTTCTGCTGAAAGCGTTTGTCAGCGGTGCGGGTCGGTTGGGACCCCGGGCAGCCTCATCCAGTGGGTGGCAACCAGCCTACAGCAGGGCTTGGGGCTGGATGGGCTTTAAGGTCCCTTCCAACCTGCCCGATATGGTTCTGTGACACCCCCCAAGAAGGGCTTGCAAGCTCTGCATGTCTCTGAGGTCTGTCCCACCTAACGTCTATGCTTCCTCTGGCTGGGGCAG
Seq C2 exon
ATCCTGATAAGGAACAGGGCGACTGATCTCGATGCCCGAATGCACGATGGGACGACCCCACTGATCCTGGCTGCTCGCTTGGCTGTGGAGGGGATGCTGGAGGACCTCATCAACTGCCACGCAGACGTCAACGCTGTGGATGATCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002375:ENSGALT00000003754:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.414 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF127962=Ank_2=PU(83.5=76.8)
A:
NA
C2:
PF127962=Ank_2=PD(14.3=26.0),PF127962=Ank_2=PU(31.2=58.0)
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:
ATCTACCAAGGCGCCAGTTTG
R:
TGATGAGGTCCTCCAGCATCC
Band lengths:
307-559
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]