GgaINT0127836 @ galGal3
Intron Retention
Gene
ENSGALG00000004333 | E1BY40_CHICK
Description
NA
Coordinates
chr18:7984724-7985244:-
Coord C1 exon
chr18:7985103-7985244
Coord A exon
chr18:7984913-7985102
Coord C2 exon
chr18:7984724-7984912
Length
190 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGT
5' ss Score
10.27
3' ss Seq
TGTTTATTATCCATCCTTAGGTA
3' ss Score
9.76
Exon sequences
Seq C1 exon
GCTTTCCTGGGTGCTGCTGTACACCAGCCTGATCTTCGTCATGTCCATCCTGATGGCTGTGATCGCCACGGCCTCCTCTCTCTTTCCCCAGAGCAGTGCCTTCGTGATATTCCTCCTTTTCTTCCTGTATGGCATCTCCTCC
Seq A exon
GTAAGTACTCCGGGTCCTGCTGAGTTTGGCAGCCCTTGGAGGTGTGTTCCTTCCCACCTCATCCCGTTCTCTTTGCTAAAACAGATGCCACATCTTTAGGACAAAGCAGTGTCTTTCCAATTGAAATTTTCTGTACCTGCTATTTCTCTGTTTCTCTCTCTATTTGTGTTTGTTTATTATCCATCCTTAG
Seq C2 exon
GTATTCTTTGCCCTGATGCTGACGCCCCTCTTTAAGAAGTCAAAGCACGTGGGTATCGTTGAGTTCCTGGCCACGCTGGCTTTTGGGTTTGTGGGGCTGAACATCGTCCTGCTGGAAGACTTCCCCAAATCCTTCGTGTGGCTCTTCAGCCCTTTGTGCCAATGCAGTTTCCTGATCGGCATCGCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004333:ENSGALT00000006907:6
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:
PF126982=ABC2_membrane_3=FE(12.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTCCTGGGTGCTGCTGTAC
R:
TTCAGCCCCACAAACCCAAAA
Band lengths:
242-432
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]