GgaINT0126356 @ galGal3
Intron Retention
Gene
ENSGALG00000001565 | C5
Description
NA
Coordinates
chr17:9043834-9044676:-
Coord C1 exon
chr17:9044514-9044676
Coord A exon
chr17:9043905-9044513
Coord C2 exon
chr17:9043834-9043904
Length
609 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TGTTGTAATGAATCTTACAGTGA
3' ss Score
4.56
Exon sequences
Seq C1 exon
CTTCAGCCAACAGATTTAGCTGGCCCAGAGGACTCAGTCAAGTATGTGTATTTGGAAGCTGTTTCTCCACATTTTACTGGTTTAAAAAAAGTTCCTGTTTCCTATGAGAATGGATTTCTTTTTGTTCACACAGACAAACCAATTTATACTCCAGATCAATCAG
Seq A exon
GTAAATAATGCTCATTTCTCCTGGCTGTTATTATTATTATTATTATAAGCCAATGACATTATTGTCAAGAAATTCAGACATAAATCTTTAAGCTCTTGGTCATGTTGTTTTGCCATCGGTTACTATTTAATTTTTTAATTAGCAGAATAATACTTTGAAATATTTAATCATATTGTAGAAATTAATAATTTCTCCCAATATCCTCTCCTCTGGGGGAGGATACCTTCTCAATTTTCCTGAGAACATACTAAAAATAATACATGTTTGTGTAGAAATAGTGATGACTGAATCCTTGGTTTTGTGTAGATGGAGGTTTTTTTGCTGCAGAAATGATATGCTGGGATTTTAATGGTACAAATTATTTTGCACTGTGATGATTCAACATGAAAAAGTGTTGGTGCAGAATCTTTCATTGCTAGCATGAATAAATATTGTCTGGGCAGCATAATGACAAAAGATCAAGTGCATTCCATAAGTACTAAAGACAAAACTCTAACAAAGAAATAAGTTAAAAGTTTTAGCTTTGGATGGGCTTGTTTTGTTGGTTTTCTTTTTGTTTTAATATCAACAGTGGTATGACTTTGAGATCTGTTGTAATGAATCTTACAG
Seq C2 exon
TGAAAGTCAGGGTTTACTCTCTGAACGAAGAACTGCAGCCAGCTCGGCGAGAAACTGTCCTAACTGTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001565:ENSGALT00000002379:4
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:
PF0183514=A2M_N=PU(16.8=29.1)
A:
NA
C2:
PF0183514=A2M_N=FE(24.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCCAACAGATTTAGCTGGCC
R:
CACAACAGTTAGGACAGTTTCTCG
Band lengths:
230-839
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]