GgaINT0016428 @ galGal3
Intron Retention
Gene
ENSGALG00000001967 | E1BVQ5_CHICK
Description
NA
Coordinates
chr14:14338484-14339011:-
Coord C1 exon
chr14:14338807-14339011
Coord A exon
chr14:14338704-14338806
Coord C2 exon
chr14:14338484-14338703
Length
103 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
CTCACATTGCTGCACCCCAGGTG
3' ss Score
7.21
Exon sequences
Seq C1 exon
AGGCCAGACCGGGTTTGCCATCGCCATCAACTTGCTGTATGGCATGGCCTCGCTCGCCAGCACCTTTGCTCTCCTGCTGGTCAGTGAGCGGGCCATCAAGGCCAAGCACGTCCAGTTCGTCAGCGGTGTCTACGTGGTCAACTTCTGGCTGTCTGCCTTGCTCTGGGACATCATCAATTTCCTCATTCCGTGTGCTCTGATGCTG
Seq A exon
GTAAGTCACCTCTGACAGCCTCATCCCTCCTGTCACAGGAGGTGGGGTGGCATCGCTTGCTCTCGAGACAAATGTGTGCTCTCCTCACATTGCTGCACCCCAG
Seq C2 exon
GTGATATTCCAAGCCTTTGATGTGCAAGCCTTCACCCAAGACAGCCACCTTGTCGATGTGATGTTGATCTTCCTCCTTTATGGCTGGGCCATCATCCCCCTCATGTACCTCCTCAGCTTCTTCTTTTCAGTGGCGGCCACGGCTTACACCCGTCTCACCATCTTCAACATCCTCTCTGGCACAGCCACCTTCCTTGCTGTCACCATCATGAGCATCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001967:ENSGALT00000003054:22
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(17.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(18.2=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:
CTTTGCTCTCCTGCTGGTCAG
R:
CTGAGGAGGTACATGAGGGGG
Band lengths:
258-361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]