GgaINT0124447 @ galGal4
Intron Retention
Gene
ENSGALG00000002375 | NOTCH1
Description
notch 1 [Source:HGNC Symbol;Acc:HGNC:7881]
Coordinates
chr17:7832292-7832746:+
Coord C1 exon
chr17:7832292-7832493
Coord A exon
chr17:7832494-7832592
Coord C2 exon
chr17:7832593-7832746
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGTG
5' ss Score
6.13
3' ss Seq
CCCTTGCTTTCCCTGCACAGAAC
3' ss Score
10.17
Exon sequences
Seq C1 exon
CTCCTGCTTCAATGGGGGGACCTGCGTGGATGGCATCAACACCTTCACCTGCCTCTGTCCATCCGGCTTCACGGGCAGCTACTGTGAGCACAACATCAACGAGTGTGACTCCAAGCCCTGCCTGAACGGGGGCACGTGTCAGGACAGCTATGGGACGTACAAGTGCACCTGTCCCCAGGGATACACTGGGCTCAACTGCCAG
Seq A exon
GTAGTGAGAAGATTCCAGGGGTCCCTGTGTGCAGGGATGGGGCTTCATCCTACAGAAGCTTCTCTGGGCCTGACCTCCTCCCTTGCTTTCCCTGCACAG
Seq C2 exon
AACTTGGTGCGCTGGTGTGACTCCTCACCCTGCAAAAACGGGGGCAAGTGCTGGCAGACCAACAACCTGTACCGCTGCGAGTGCAACAGCGGCTGGACGGGGCTCTACTGTGATGTCCCCAGCGTCTCCTGCGAGGTGGCTGCAAAGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002375:ENSGALT00000003754:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(87.1=39.7),PF0000822=EGF=WD(100=45.6)
A:
NA
C2:
PF0000822=EGF=WD(100=59.6)
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:
GCAGCTACTGTGAGCACAACA
R:
CGTTTTTGCAGGGTGAGGAGT
Band lengths:
168-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]