GgaINT0037491 @ galGal3
Intron Retention
Gene
ENSGALG00000008945 | NEXN
Description
NA
Coordinates
chr8:19617928-19618966:-
Coord C1 exon
chr8:19618781-19618966
Coord A exon
chr8:19618297-19618780
Coord C2 exon
chr8:19617928-19618296
Length
484 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAG
5' ss Score
6.38
3' ss Seq
ACTGGATTATTTTAAAACAGAAA
3' ss Score
3.27
Exon sequences
Seq C1 exon
GATGATGAGGTAGATGTGAGACCAGCCAAGAAATCTGAGGCTCCATTTACTCATAAAGTAAATATGAAGGCACGTTTTGAGCAAATGGCAAGGGCTAGGGAAGAAGAAGAACAGAGGAGAATTGAAGAACAAAAATTACTACGCATGCAGTTCGAACAAAAAGAAATTGATGCTGCATTACAGAAG
Seq A exon
GTAGAGATTACAAAGTACCTTTTCTTCAGTCCTCAGTGTCATTTAACTTGGCTTCCGATTACCACTGATGGCAACAATGCCAGGAGTATAAAAGGAGTATAAATAATTTGTATTTATATAAATTATTGCATTCGTGTAACTAATTGCTTTTGAGTTTTTAATATTTTGAAGAGCGTGAGAAATGTACTGCAATGAAAGCACAGTTTCCTTTGAATATTCTGAAAATGGAATCACTATTCACTATTCACGGAATCACTAATCACTATTCATATACTTTCCCCTAAGACACCAGCCATACCAGCTTCATGAGAACAAATTTTAGACAGCATTTATTGCTTGTTCCATATTCAGAACATTGTTTTTTTTAGCATAGACAGGCATCTCCCCTTCTTAAAAACAGCTTTTCTGTAATCAAGTATGTGTTACTAGCAGTCATGCTGCTATTGCTACTCTGAAAATTCTAAACTGGATTATTTTAAAACAG
Seq C2 exon
AAAAGGGAAGAGGAAGAAGATGATGAGGGAAGTGTTATTAATGGTTCTACTTGTGAAGATGAGGAAGATCAAGCTCGATCTGGAGCTCCCTGGTTCAAGAAGTCACTGAAAAACACATCAGTTGTTGATGGTGAGCCAGTGAGATTTACAGTTAAAATTACTGGAGAACCAAAACCTCAAGTCACATGGTGGTTCGAGGGGGAAATGTTGCAGGACTCTGAGGACTATCAATATATTGAAAGAGGAGAAACCTATTGCCTTTATCTGCCCGAAACCTTCCCAGAAGATGAAGGTGAATATATGTGTAAAGCAGTCAACAACAGAGGCACATCTGCTAGCACCTGTATTCTCACCATTGAAAGTAAGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008945:ENSGALT00000014545:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.806 A=NA C2=0.358
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0767911=I-set=WD(100=73.2)
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:
AGGCACGTTTTGAGCAAATGG
R:
AGTCCTCAGAGTCCTGCAACA
Band lengths:
345-829
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]