GgaINT0139180 @ galGal3
Intron Retention
Gene
ENSGALG00000001331 | F1NLW7_CHICK
Description
NA
Coordinates
chr24:1602744-1603508:+
Coord C1 exon
chr24:1602744-1602841
Coord A exon
chr24:1602842-1603398
Coord C2 exon
chr24:1603399-1603508
Length
557 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CTGACTCTTTCCTTTTGCAGGTT
3' ss Score
12.91
Exon sequences
Seq C1 exon
CGTGCGGCGGGACTCTGAGAGGAGAGAGTGGCACTTTCACCACCCCCTATTACCCAGCACACTACCCACCAGCCACAGACTGTGTCTGGAACATAGAG
Seq A exon
GTGAGACACATTCATCTCTTAGCCTTAAATATTCTGTCAAATAAACCTGCCCATGTGGGACAGACTGCAAATGAGCTTACAGCAGGCACTGCCTAGAGGCTTAGAGTCTGAGGTGGCTAGAAGAGGTTTTAGGACTAATGTCAAAGGCAGAAGAGGCTGAGGGAGGCCTGGACCTTGTGTGACTCTTACTGTAGCCCCCAGTAGCTGTAGCTTTGCACTCTGCACTTGATTTGGACTTTGGGACAGAGCTGTCACTTGCTGGTAGAACTGCTGGCAAGGTCGATCTTTTGCCCTGGGGGAGTGGACACAGCTGACAAAGGTCTGGCCTCAGCCTTCTTCAGTGCTGCTTTAATGTGAGCTCCCAGGGTCAGCCAAGTGGCTGTCTATATGACAGGTTGAGTAGTAGTGGCTTTTTCGGAAGGTATTTCCTCTTCTGCTTGACTTCTTCCCTTTTTCAGTTATCTTCTATCCTTACCCCAAACGTTTTTCCCATGTAACTTATTCCCATATTTAGTGCTTCAGAAAAGAAGTGTGCCTCTGACTCTTTCCTTTTGCAG
Seq C2 exon
GTTCCCTCTACAAAGAATGTGAAGGTGCGTTTCAATATGTTCTTTGTGCTGGAGCCCGGGGTCCCAGTCAGCTCCTGCACCAAGGACTATGTGCAGATCAACAGCACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001331:ENSGALT00000002027:8
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:
PF0043115=CUB=PU(29.5=93.9)
A:
NA
C2:
PF0043115=CUB=FE(34.3=100)
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:
GCGGGACTCTGAGAGGAGAG
R:
TGCTGTTGATCTGCACATAGTCC
Band lengths:
198-755
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]