GgaINT0124254 @ galGal3
Intron Retention
Gene
ENSGALG00000004142 | F1P4F0_CHICK
Description
NA
Coordinates
chr17:6278785-6279249:+
Coord C1 exon
chr17:6278785-6278965
Coord A exon
chr17:6278966-6279122
Coord C2 exon
chr17:6279123-6279249
Length
157 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TGCTGTGTTTCCTGTTACAGGTG
3' ss Score
12.52
Exon sequences
Seq C1 exon
ATTCTCTGCATCCACTTGAAACGGTTCCGGCATGAGGTGATGTATTCCTTCAAGATCAACAGTCACGTCTCCTTCCCCTTGGAAGGGCTGGATCTGCGGCCTTTCCTGGCCAAGGAGTGTGTCTCCCAGATCACCACCTATGATCTACTGTCAGTCATCTGCCATCATGGCACAGCAGGCA
Seq A exon
GTAAGTCCTTCTTGTGACTGTGTGGCAGAAGGGAGCGAGAACAAGAGGAGTATGAGCAAAGCAGAAGCACGTTCCAGGGCTGGGCAGCAGCTCTTCTGGGAGAGCCTGAGTTTCATCTGCACTCTGAATTTCAGCTGTGCTGTGTTTCCTGTTACAG
Seq C2 exon
GTGGGCATTACATAGCCTACTGTCAGAACGTGATCAATGGGCAGTGGTACGAGTTTGATGACCAGTATGTCACTGAGGTCCATGAGACTGTGGTACAGAATGCAGAAGCCTATGTCCTGTTCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:16
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:
PF0044324=UCH=FE(11.3=100)
A:
NA
C2:
PF0044324=UCH=PD(7.7=95.3),PF063377=DUSP=PU(25.8=79.1)
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:
GTTCCGGCATGAGGTGATGTA
R:
ACCACAGTCTCATGGACCTCA
Band lengths:
252-409
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]