GgaINT0123664 @ galGal3
Intron Retention
Gene
ENSGALG00000010153 | F1NAT0_CHICK
Description
NA
Coordinates
chr16:28596-29194:-
Coord C1 exon
chr16:29022-29194
Coord A exon
chr16:28700-29021
Coord C2 exon
chr16:28596-28699
Length
322 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
AGCATTCTGTCCCTTCCCAGCAT
3' ss Score
6.93
Exon sequences
Seq C1 exon
CAGGTGCAGGACCAGGTACGTGCACATTTGCGCCAGGTGCTGGGCCCCAGGGGGACCCCAAAGCCATTGGATATGGGGCGACTGCCACTGCTCCGTGCCACTGTCACCGAGACCCTCCGCCTGCGACCCCCTGCGCCCCTCGCGCTGCCCCACTGTGCCCGGCGCCACTCCAG
Seq A exon
GTACAGCCAGTAACACCAGTACGGACCGGTATGGGGCCAAACAGACCAGTGGGGATCAGTACCAACCAGTGCGGGCCACATGTCTGCGAGCAGAACCGTGCACCACTGCGTGTCAGTATTTTGCACTAGAATGAATCATTGTAGACCAGTCTGTAATAGTGTGGACCACTACAGACCAGCATGGACCTAGCAGTAGGTCGGTCCCAGTAGAACTCATCAAGCACCCAGTAAGCTCTAGGATAGCTCAGCAGGTCCCACTATGTCCCACTTGGCCTCTGTAGGCTCTCCCAGTCCATCCTATCAGCATTCTGTCCCTTCCCAG
Seq C2 exon
CATTGCGGGAATCCCAGTGCCTGCGGGATCCATCGTTATCCCAAACCTCTTTGCTGCGCACCACGACCCCAAGATTTGGGACCGTCCTGATGAGTTCCTGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000010153:ENSGALT00000016503:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.224 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(34.5=98.3)
A:
NA
C2:
PF0006717=p450=FE(21.2=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
AGGACCAGGTACGTGCACATT
R:
CGGGCAGGAACTCATCAGGA
Band lengths:
270-592
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]