GgaINT0068415 @ galGal3
Intron Retention
Gene
ENSGALG00000013571 | F1NUN5_CHICK
Description
NA
Coordinates
chr4:63224163-63224784:+
Coord C1 exon
chr4:63224163-63224278
Coord A exon
chr4:63224279-63224609
Coord C2 exon
chr4:63224610-63224784
Length
331 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAT
5' ss Score
6.06
3' ss Seq
GTTTTCAATTATTTCTGTAGTAT
3' ss Score
5.57
Exon sequences
Seq C1 exon
AAAGTGTGAGTGTCATCTAAGAATGTCCTCAAATGGATCTCCAGTGGAAATACAACACGGTCCAGGAAGGATCTCTGGATACTCACTAAGACTATGTAAAAAAAAGGCCAGTACTG
Seq A exon
GTAAATAAAACTTTCCTTTTAAAGAGATTTTTAAACTGATTTTGGTACAGGAAACCTAAGCCCTCCCATTTTTTTTTTTTCTTTTCTGAATTGAAGATAAAGAGTATACTAAAAAAGTGAAGTCTGTCCAGCCTGCATACTGCAAACACAGACAGTACCCTGTAAACTTCTTTAAATTGGATTTTATGGTTAAAAAAAAAATTGTAAAGGGATTAGAATGTCTAATGTTCTTTGCTTAAGATTGACTCCTATTTGCAGGTTAGCAGTAGTCACATCTTTTTTCTTGGCCAAATAACAATTATCTTTAAGCAGTTTTCAATTATTTCTGTAG
Seq C2 exon
TATGTATGCAGCATTCTTCAAGAAATATTAGGATAATTGGAGGGACGGACTCTTCCCCTGGTGAATGGCCTTGGCAAGTGAGCTTACATGTGAAGCTATCTCGCCAGAGACACCTCTGTGGAGGCTCTATCATCAGTAACCAGTGGATCCTTACAGCTGCCCACTGTTTCATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013571:ENSGALT00000037595:9
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:
PF0002421=PAN_1=PD(37.6=80.0)
A:
NA
C2:
PF0008921=Trypsin=PU(20.3=79.7)
Main Inclusion Isoform:
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:
GTGTGAGTGTCATCTAAGAATGTCCT
R:
CTCATGAAACAGTGGGCAGCT
Band lengths:
288-619
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]