GgaINT0057391 @ galGal3
Intron Retention
Description
NA
Coordinates
chr5:15851874-15852722:-
Coord C1 exon
chr5:15852623-15852722
Coord A exon
chr5:15852043-15852622
Coord C2 exon
chr5:15851874-15852042
Length
580 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTTGCTGGTTTTGCAAACAGGTA
3' ss Score
8.38
Exon sequences
Seq C1 exon
GCAAGAAGCACAACACCTCTACTGTCATCAAATACCAAGGATGTGTTTCTGCACCTGTTGAGATGACATACTGTGAAGGCAGCTGTGATGCTTACTCAAA
Seq A exon
GTAAGTGGTGTAAAAGATAACTGTAGTCTCCTGTCTTCTATTTGTTATGATAGTGGCAGAAAACAAATTGCTAGTGATTTTCTACAATGTCTAACACTCACCAAGCCATCAACTGTTCCCATTACGCTAACCAGAATTTTTAACAGACGTGCTACATTAACTCAAGACTAACCAGGTCTTGATAGGCTGTTAAGTGACTGGTCCTGAGCTTTGATCTTGCCTAGATAGAAGTGAGGTTATCTGTTTCATACCAGTCTCTCATTTTGGACTGGCTTGATACTTTATCTAGATTAGTTTTTTCATTTTTCTCTTGTCTTCATGAATCATAGAATTATAGAATGGTTTGAGCTGAAAGAAACCTTTAAAATAATCTAGTTCCAAACCCCTCCCATGAAAAGGGACACCTTCCACTAGATCAGAATGAAGAGCTAGGTTTACCCATTTTTACAGTGAGTAATATTAAGACATATCCCCACATGCAAACACACAACTTCTAGTTATATTTAGCAATGTGTGAGAGGGGCAGTGGTATTTCTTACATAATTTCTGAATATATCTCTTTTGCTGGTTTTGCAAACAG
Seq C2 exon
GTACTCTCAAGAAGCGAACATGATGGAACATAAATGCTCATGTTGTCAGGAAATCCAGACTAGCATAAGAAAGGTGACTTTGACATGCAGTGATGGAACCTATCTTGATCACTCATACACCTATGTGGACCAATGCAGCTGCGTGGGTGCTGAGTGTGTTCCCCAAGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021817:ENSGALT00000035359:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000717=Cys_knot=PU(16.7=92.3)
A:
NA
C2:
PF0000717=Cys_knot=FE(77.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCACAACACCTCTACTGTCA
R:
GTCTTGGGGAACACACTCAGC
Band lengths:
263-843
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]