GgaINT0055923 @ galGal3
Intron Retention
Gene
ENSGALG00000005318 | F1NZZ9_CHICK
Description
NA
Coordinates
chr5:8366367-8367331:-
Coord C1 exon
chr5:8367227-8367331
Coord A exon
chr5:8366459-8367226
Coord C2 exon
chr5:8366367-8366458
Length
768 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGC
5' ss Score
4.86
3' ss Seq
CATCTTCTTATGTGAAACAGGTT
3' ss Score
6.36
Exon sequences
Seq C1 exon
AAGTGCGGGCAGAAAGTTCATGAGACAAAACCATGGAGTTACTTCAACCTTTTCACTCGGATTGTTGGAGGGAACCAGGTGAAACAAGGCTCACATCCATGGCAG
Seq A exon
GTTTGCACAAGCAAATGTGGTTTTATCTTCAGAACAAAGTCCTTCTTTTTTTTTGTTTTTACAGAAATGAGAAAAGAAGAAAACCGTTATACTTTGTACATATTTCCACTTAGAATGTATCATTGAGCTGCGCTCTGTTTTTATAGAACTTGGGAGCAGACAGAGAGCATATAGATCTGTTATGCTCTATGACAAGCCTTTGCTTATCATTTATTATTTTATCATTAGTTCTGAAAAGAGTGTGTTTAGATTAGTCAGTGTAAAGAGGCATGAGCTGAAGAACGCTGAAGAACACTTCAGCACCCCAACCATTGTCTAGGATCACAGACTTGCAGTTTGGAAGATGAGATACCTCGTGGTGCTTGGTGTTTTAAGCTTAAAAACAAACCGGATAAAGACTGTGGTATAGATGTCAAAGACTCTCTCATGCTCTGTTTTGCCCAGTGACCTACAAAGGAAAAATTCTATACTTACCAGTAACCTTCACACAATCTTGAGTAGTTCAGTGAATTGGTATTTATTATATGTATGTTGCTTTTATCCAGGTATGAAGTCACAACCAAGGGGAACAGCAAGGTTTAGGATCACTTATGCTCAAGGAACATAATGCCATGAAAATCTGTTTGACTGAAGTGCTGCATGAACCTTAGCTATGTGAATCTTTAAAGAATACCTGTGTACATAACTCTGCCCTTTCTTCCTCAAGTACAGTCAGAGCAGATATAAAGATCTTATGCATTTAACATGTCATCTTCTTATGTGAAACAG
Seq C2 exon
GTTTCCTTAAAACGAAGAGAAAAGCATTTCTGTGGAGGCACCATTGTTTCTGCTCAGTGGGTGGTCACGGCAGCTCACTGTGTCTCAGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005318:ENSGALT00000008522:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.086 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(5.7=40.0)
A:
NA
C2:
PF0008921=Trypsin=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GCGGGCAGAAAGTTCATGAGA
R:
GTCTGAGACACAGTGAGCTGC
Band lengths:
191-959
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]