GgaINT0101242 @ galGal3
Intron Retention
Gene
ENSGALG00000007215 | E1C3A1_CHICK
Description
NA
Coordinates
chr2:14142295-14142856:+
Coord C1 exon
chr2:14142295-14142404
Coord A exon
chr2:14142405-14142754
Coord C2 exon
chr2:14142755-14142856
Length
350 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGC
5' ss Score
6.31
3' ss Seq
ATTATGAACTTTGTCTTTAGCCA
3' ss Score
4.74
Exon sequences
Seq C1 exon
CAAGCTGTGGAACAGCAGATTCAAAGCCATCGTGAGACGCATCAGAAACAAATCAGTAGCCTACGAGATGAAGTTGATGCAAAGGAGAAGCTGATCACTGAACTCCAAGA
Seq A exon
GTAAGCAATTATCATTTGATAATGGCAGATGTTGCTAGATTGTGCATGTACAGAAGGACAGTAGGATGGGAGGGAAGCGACAGAGGTTCTTATTCAGCAGTACCTTATTTCTGTCACTTTACTGGATGTCATTTATGATAGATTCACTTGACTGTGACAACATATCAGAAGCTTTAGTTTCTAATTATTGATAACATAACTTGGATTGCAGTTTAATGGCTTTCTGGGTGCTTGTCATGACAGTGATACAACAAAGGTCTTTTCTTCTTTAACTTAATTAAATAGATATCAAAGATGTATTCCTTTCCCATCCTTTTAAAAATACATCTGATTATGAACTTTGTCTTTAG
Seq C2 exon
CCAAAATCAGAAGATGATGCTTGAACAGGAACGTCTTAGAGTTGAGCATGAGAAGTTGAAAGCAACCGATCAGGAGAAAAGTAGAAAACTACATGAGCTTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007215:ENSGALT00000011680:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.892 A=NA C2=0.971
Domain overlap (PFAM):
C1:
PF045827=Reo_sigmaC=FE(23.1=100)
A:
NA
C2:
PF045827=Reo_sigmaC=PD(9.0=40.0)
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:
CTGTGGAACAGCAGATTCAAAGC
R:
GTAGTTTTCTACTTTTCTCCTGATCG
Band lengths:
198-548
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]