GgaINT0038689 @ galGal3
Intron Retention
Gene
ENSGALG00000002922 | NOTCH2
Description
NA
Coordinates
chr8:4228444-4229844:+
Coord C1 exon
chr8:4228444-4228560
Coord A exon
chr8:4228561-4229730
Coord C2 exon
chr8:4229731-4229844
Length
1170 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
GCTGTCGTTCTGCCTTTCAGGAT
3' ss Score
10.95
Exon sequences
Seq C1 exon
TAGGTTTTAAAGGTGTTCACTGTGAAGAAGATATTGATGAGTGTCTAAGTAATCCCTGTGTGAACAACGGAGAGTGTCTTGATAAAGTAAACCGGTTCCTCTGTGTCTGTCCTCCTG
Seq A exon
GTGAGTACTTATTTCTGGAAGCTTTTCTTGCTTCACCTTACCAAGAACTCATTAGATAAGCAGTGAAAGGCTGCAGGCATCGTTTCTTGGGAGTTTCTGTAGTCTTGGTGCAGCACCTGTTTGAGTTAGTTGCAGTCATTGGTAAGTTGGAGTATGGGCATGTATTGTTTGGCAGTGTGATCGTGCCTGTAGCTGGGAAGTGTTGAGGAACAGTTGGGTATCTCACCTTAAAGAGTTGAACGCAGCAAGAGCTTACATCATTGTGAATATCACAGTGAGAGGTAATTACTTCTAAATACATTATAAAATCAGAGTGTCTGCATGCTTTTTTTTAATAGGTTTTTAGGTAGAAGCCATATTTCCGTCAGTAGAGCTTATGTTGCTTGCATGAGGAGGGAGGCAGATTGGGTCTCCACTTCATTAGAGTAGAAAGACAAATGCTGAGCTGAAGGATCAGTGTTAGCTATGAAGCAAACATCCCTTATCTTCCTGGTGGCTCGCGAGAAGTTTTGACATTGGAAGATACCAAAAGCCTGCTTTGCATTCCTTCTCATTGAGTAATGATGTTCCAGCTCATATTCCATTCTTCCTCTGGTTCCTTCCTATAAGAAACATTCCTGGAATTTTGGGTTTTTTGTTTCTTTAAGGGCCTAAGAATCTGCATTGTGTGACGTAACCTGTTGATAGTTTGCCTGTTTCAAGAAGTATGTAGAAGGACACAGGGTTGTATTATACCACATTCCCCGCTGCTGTAGTAATTCCAGTCTGAAGGCTCTAATAAAGTGTGCATAAGTGTTTAATTTTAAGTTAATTGTCTTGATTACTGGAAAGTTTTCATTGGTGGCCTCTCAGTTTTGAAGGCAGGCGTGCTGCTGGTTGGTAGCAGCCACTACTTGTGCTCCATTTCCTTTATTTCTGTTGGACTTGGCTGTCTCTGTTTTCAAGCTGAGGCTTCCCTGACCTGGGGAATAGAAACTGTGTTTTGGTTGGTGGGTTGAATGAAGAAACCAGGGTGTGGTTTGTATGTTTTATGGTGCAATTGAGTTCAGATTGGAGCTTACGTTTTGGTGGTTTTAAGGATTTGCTGCTAAATAATTCCTAATAATACAGCTGTTTAGTTTTAAATGCTTCAAATTGCCTCTGACTTTTCGCTGTCGTTCTGCCTTTCAG
Seq C2 exon
GATTCAGTGGTGCAGTGTGTCAGATTGATATAGATGACTGCTCTAGCACACCGTGTCTCAATGGAGCCAAGTGCATCGACCATCCCAATGGCTATGAGTGCCAGTGTGCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002922:ENSGALT00000039988:9
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=0.000
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(18.8=15.0),PF0000822=EGF=PU(80.6=62.5)
A:
NA
C2:
PF0000822=EGF=PD(16.1=12.8),PF0000822=EGF=PU(83.3=64.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTTTTAAAGGTGTTCACTGTGA
R:
CACACTGGCACTCATAGCCAT
Band lengths:
224-1394
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]