GgaINT0016196 @ galGal3
Intron Retention
Gene
ENSGALG00000004050 | F1NWE0_CHICK
Description
NA
Coordinates
chr14:2269839-2270269:-
Coord C1 exon
chr14:2270099-2270269
Coord A exon
chr14:2269981-2270098
Coord C2 exon
chr14:2269839-2269980
Length
118 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTT
5' ss Score
7.63
3' ss Seq
TTCTGTTTATTTCCCGACAGGAG
3' ss Score
9.58
Exon sequences
Seq C1 exon
CTATTTAATTTCTACCCATTTCTTGGATTTCTTCTTAAACCTCACAAGATGATACTGAAAAAAGTAGAAGAGGTGTGTGTGATCCTAAGGAAACGTATCCAGGAAAGCAAAGCAAATATTAGTGAAAACAACCTGACGAGCTACATTGATGCGCTGGTCTTCAAACAAGAG
Seq A exon
GTATTTCAGCACTACAGTGATCACTGATGTGGCATCTTGTGCAGAGCCGCCCCACATTGCCGTATGTTCTGTCTTCCCATGCTGACAGCACTGCCTTTTTCTGTTTATTTCCCGACAG
Seq C2 exon
GAGGATAATAAAAGCAATACCCTCTTTCATGATGCAAATGTGTTGGCCTCTGCACTTGACTTGCTCATGGCTGGCACTGAAACAACGTCCACCACCCTGCAGTGGGCCGTCCTGCTGATGATGAAGTACCCCGAGATTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004050:ENSGALT00000006446:5
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:
PF0006717=p450=FE(12.3=100)
A:
NA
C2:
PF0006717=p450=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTAGAAGAGGTGTGTGTGATCCT
R:
CGGGGTACTTCATCATCAGCA
Band lengths:
242-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]