GgaINT0038708 @ galGal3
Intron Retention
Gene
ENSGALG00000002922 | NOTCH2
Description
NA
Coordinates
chr8:4255518-4256694:+
Coord C1 exon
chr8:4255518-4255728
Coord A exon
chr8:4255729-4256597
Coord C2 exon
chr8:4256598-4256694
Length
869 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
GATGTATTCTTGTTTCTTAGAAA
3' ss Score
7.13
Exon sequences
Seq C1 exon
GCGAACCCTTGTTACCACCGAAGACCCAGTTGCTCTACCTACTCGCCGTGGCAGCTCTGATCATCCTCTTGATTCTTCTCTTGGGTGTGATGATGGCAAAGCGTAAGCGCAAGCACGGTTCCCTGTGGCTCCCGGAGGGCTTTATTCTGCGCAGGGATCCCAGTAATCATAAGCGCAGGGAGCCAGTTGGAGAAGATGCAGTTGGACTCAA
Seq A exon
GTAAGTTTGTATTTAGCCTACTGACCATGTGTTGGTCAGTGTGTTAGAAGGTTTTAAGAACGTGGCGTATAGGTCTTTCATTAAAGGCACTTAGCATAGGGAAAACAACCCTTAAGCTAAGGCTTCTTAGGCTCTTTCTCTGAATTGAATGCATCCTTTTTGGACAGAAGAGCTTTGAATAACTGTAATCTAATCTGGTTAAGTTTGGTTTTCTGATGCAGTGTAGTTTAGAAGTTAGGTATGTTAGTTGCATTATTTCCTCCTATATTCGGTGTTAGGTTTTTAAGTTGATAGGTGACAACGAACTTCTAACATATGTAGCTCAATGCATTAAATACACGACTCAGAAATAATGGAAAGCTTCAAAAGAGGAATCACATTTATTAAGTTCTGACTTTCCATTGAGTTAACCAAGCTTACAGTTGTAAATGCATAGCTCGCTGTGTAGCTCACACAGTTCTGGGAGCAAGATGTATAGTCAATCTGATTTATGCTCTCTGTGTGGCCTGGGAAGTCAGCATGTCCAGCCAAGCCTGACTGTGTGATACTTGAGATTGCTTGCTAGTCATGGGAGTGTCAGGGCTCAGTCCTCCAACGTCATGGTTGATAACTTGCAGTTGGAAATTACAGAACCTCAATGCTGGATTTGTTTAGGTGGACACCTCTAATCCATGTGGTGCCTGTTGTCATGCAGCAGCTGGCTGATGCTTGTTTCAACCGAGACTGTAGTTGTTCCATTCTAATTTTTTGGCCCCTCCATTTGCAAGCTACCACATCTGCAACCATCCCGTTTATTGTCTCTCAGTCTAGTATGGGTTGTAGTAGTAAGACCTGGCCAGCCCGCAAAATGATGTATTCTTGTTTCTTAG
Seq C2 exon
AAATCTATCAGTCCAGATACCAGAGGGTAACATGGCAGATTCTGGACCAACTGAACACTGGGCAGGTGATGGTGGACCTCAGCCAAAGAGGGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002922:ENSGALT00000039988:28
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.186 A=NA C2=0.818
Domain overlap (PFAM):
C1:
PF076847=NODP=PD(14.8=17.0),PF039189=CcmH=PD(88.2=84.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGAACCCTTGTTACCACCG
R:
CCTCTTTGGCTGAGGTCCACC
Band lengths:
302-1171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]