GgaINT0138232 @ galGal3
Intron Retention
Gene
ENSGALG00000007406 | F1N9M8_CHICK
Description
NA
Coordinates
chr24:5558033-5558442:+
Coord C1 exon
chr24:5558033-5558199
Coord A exon
chr24:5558200-5558346
Coord C2 exon
chr24:5558347-5558442
Length
147 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CACTGTGCCTCACCCCGCAGACA
3' ss Score
10.94
Exon sequences
Seq C1 exon
GAACAACCCCATCATCCCCAGCTGGCGCGTGAAGGCCGGCTCCGATGTCCTCTCTGGCCCTGCCAACCTTGCCGTGGAGAAGGTCTTCCTGGCCGAGGGGACGCCCACGTCTCCCAACAACAATGACATAGCGCTGGTGAAGCTACAGATCCCTCTGCATATCTCAG
Seq A exon
GTGAGACGTGGTGCACTCAGGATCCCGGGCTCCCGCGCACGGGGCGCAGAGGGATGGAGGCACCGACTGCCCGGGCTGTGCGGGCTGCACGCGGTGCTTGGGGTTCTCAGCAGCACCTCCCGCACCTCACTGTGCCTCACCCCGCAG
Seq C2 exon
ACAGCACCAAGCCCATCTGCCTGCCCTACTTCGACGAGGAGCTGGAGCCGGACACCCCGCTGTGGGTGATAGGTTGGGGCTACACGCAGCAGAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007406:ENSGALT00000011978:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(25.1=100)
A:
NA
C2:
PF0008921=Trypsin=FE(14.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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:
GAACAACCCCATCATCCCCAG
R:
TAGCCCCAACCTATCACCCAC
Band lengths:
249-396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]