GgaINT0038693 @ galGal3
Intron Retention
Gene
ENSGALG00000002922 | NOTCH2
Description
NA
Coordinates
chr8:4235592-4237587:+
Coord C1 exon
chr8:4235592-4235784
Coord A exon
chr8:4235785-4237425
Coord C2 exon
chr8:4237426-4237587
Length
1641 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TGTTGCTTTTGCCTTTGAAGGTA
3' ss Score
10.23
Exon sequences
Seq C1 exon
GCCCACGTTGTAATGTGGATATTGATGAATGCGCATCCAGCCCCTGTAATAATGGTGGAACATGTATAAATGAAGTCAATGGCTTTCGCTGTGTATGTCCTGAAGGTTACCATCATCCTCACTGCCAGTCACAGGCAGATGGCTGTCTTAGTAATCCCTGTGTACATGGCAACTGCACGCACATTGTTAGTGG
Seq A exon
GTAAGTCCTTCCTGGAACACCAAATGTATCTACTGCCTTTTATACTTTCTTCCCCACCTCCACCACCCTGAGTTCCACCTTGATTAGAGGTTTCTGAATTTTAATTTCTCAGATTACTTGTTTGCTGGCCATGAAGTAATCACAGTAAGGTGTAGACCTTTATTCTCCAGCTGCCCTTTGTGCTGTTTCAGGGTGAGTTTGTCTGCCCTGCATGGGCACCATCGAAAGGGGAGAGTTCAGTAGTTCAATCTAATAGAGTGAATGCAATTAAAATAAAGAAGTGGTTCCAAGCAAAACTGTTGGAAAACAGCAGATGCTTTATCAAAGTCTAAAGTGTTGAGTGTGGACAGTGTGTTGGTGACTAAAGCCATTATTGCTAACCAAATAGTAACCTTCTGCATGAAGGAACAAGCAGGTAACTCGGAAAACTAGGAGGCAGAGTAGTTTTGGAAGATCAGGTGGGGAAATTTTGGTGTAGCAACCAATCACAGGTGGTACTTCAAGGCTTGGAAAAGGAGCTCGGGATGAAAAGTCAAGGAGAAGGTAAAAATGAGATGTTGATGCCCTCCATCTCAGTCATCTGCTTTTAGGGGAAAAGTTGGTGGTTGGTGTTTTGTTTGTTTGGTCTAAGCAAGGCATCCTGTTTAAGTTGGTACATTGATGGAATGCAGTTGCCTCTGACTGTTTCCTCTAGCAGCTTTCTCAAGATTAGGAGATTTATTGTTGAGCAGTGGTTGTCTTAAGAACAGCATAGCCAAGGCAGATTTAATCGGCTTTAGTCACACTGTTGCATGCCTGTGAGAAGAAAAGAAAGCTTTTTCTGGCCGTTCTGATGGCACCAGTTGTTGCTGAATCATCCCATCCAGGAAGACCAAATGCTGACTTCGTGAGCCTTGAATCAAGACCTCTTTTTGTTAGGGATGAATCCGTGGTGAATGAATTACACGGGCTCTGGGAGCACAGGGGCTGTGGAGCTGACAAGCGGAGGCAGGGACAGGGTCATAGCTGTGAAACTTCCCTTGGTCCAGAGTAGTAGTGGCTTGCATGCATGTTGTGTCCTGGAAAGTGTTGTCAGCACTTGGCAAGGAAGGGTTTTGCCACAGCTGTAGGGCAGGATTCAGCGCTTTTCTGGAGCTGACAGGAAGGCTGCCTTTATGTCAGGTTCAGCCTTCTTGTTTATGCCCATGTGTACCTTATACTTGGTGTGAGATAAAATTAGTGTTGTCTGCATGATGGAGAAGGAGGCCAGCATGCATTTTGTGTGGCTGGAGTCCAGGGTGATTCAGTAAGACTTTGGTTCTATGTCATGTGGGTGGAGAGCTGCTCCACTTCAGATTCTGAAACATGGTAGAGTAAATTGCTGCTGCTCCCAACCACCTGTTTTCACTGGTAACCACTACTTTGTATTAAATTAGTCCACTCATCTTTGGCACCTACTGTTCCTCTCTGCTTTCTGTCATGTTTTCTCCCTGCCTTTATTTAAATGTATTGAGATGGTCTTGTCAAAACAGAAACGTATTGCTGTCTTAGAGCTTCACGGAGGCTGTTAACAGGAGGGAAGTGTGTTTGTAAGGGTGGTTTATTTTCAGTATTCTGTCATTTCAAAATGTTCTCCAATTCCTGTTGCTTTTGCCTTTGAAG
Seq C2 exon
GTACAAATGTGTCTGTGACCCAGGCTGGATAGGAGATTACTGTTCAACAGAAGGGAACGAATGTAAATCAAACCCGTGCCAAAACGGAGGGACTTGTGAGGATCTGCTGAATGGATATAGGTGTACCTGCAGGAAAGGATTCAAAGGTGAAAATTCAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002922:ENSGALT00000039988:13
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=0.012
Domain overlap (PFAM):
C1:
PF0000822=EGF=PD(6.7=3.1),PF0764510=EGF_CA=WD(100=66.2),PF0000822=EGF=PU(53.3=24.6)
A:
NA
C2:
PF0000822=EGF=PD(43.3=23.6),PF0000822=EGF=WD(100=56.4)
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:
TGTGGATATTGATGAATGCGCA
R:
CTCTCTGAATTTTCACCTTTGAATCC
Band lengths:
342-1983
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]