GgaINT0014069 @ galGal3
Intron Retention
Gene
ENSGALG00000003917 | F1P2F9_CHICK
Description
NA
Coordinates
chr14:2252572-2253466:+
Coord C1 exon
chr14:2252572-2252713
Coord A exon
chr14:2252714-2253278
Coord C2 exon
chr14:2253279-2253466
Length
565 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGG
5' ss Score
5.42
3' ss Seq
AATCCTTTCCTCCCCACAAGGAA
3' ss Score
6.27
Exon sequences
Seq C1 exon
GAGTCAAAGAAACCCCACAGTATGTTCCACAATGAAAGCCTGCTGTTTTCAACCCTGGATCTCTTTGCTGCTGGGACTGAGACTACTTCCACAACCATGCGCTGGGGTCTCCTTCTGATGATGAAATACCCAGAAATTCAGA
Seq A exon
GTAAGGCTGAGAATTCCTCTCGTACAGTATTCTGTTGCATGCATAAGGCTTGGGTTATGGAAGGGAGTGGAACTCATTCAGCACTGTTTAGAGTAATTATTATGAGTGCTCTGAGGGAGATAACAACCACTGACTTTACAAAGGGGTTTTATTCAGATGGATTGCAATAAAACAGCCCAGCCAGGTGGGAGAGGCTGAGGGCCAGACTGAAGGCACAGGAGGGTTCCCCATTGTTATTATCCTGCAGGCTATCAGCATATGTCCATGAAGGTCTCCCATCTCCCGGGGAGCTGCTCCTGATCTGGTTTCTGCTGAAGGCCATGGGCTAACAAAGGTGTGCAGTCAGAGCCAGGCGTGGGATGTCCTGCAGTGCTCCATTCAAGCTCCCTTGGCTCAAGAGTAAAACTGAAAGAACCACACCATGCCCTGACTTACCCACCCCCCTTCCTGCTCTTCCCAACCACCCTCCAAAGTTTTCCCTTTTCTTCATCATGGCCAAACTGACGGCTATTTCAGTTGTAAGATAAGAGGAGTATCAACTTCTTAATCCTTTCCTCCCCACAAG
Seq C2 exon
GAAAAATTCAGGAAGAAATGAACCAGGTCATCGAGCCAGGGGAGATGCCGAGGCTGGAGGACCGGAAAAAGATGCCTTACACAGATGCAGTGATACACGAAATACAAAGATTTGCCAATATTGTCCCAATGGGTGTGTCACGATCAACACCTACTGATGTGAATTTCCGAGGCTACGTAATTCCTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003917:ENSGALT00000006238:6
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=0.254
Domain overlap (PFAM):
C1:
PF0006717=p450=FE(10.3=100)
A:
NA
C2:
PF0006717=p450=FE(13.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTCAAAGAAACCCCACAGT
R:
AGGAATTACGTAGCCTCGGAA
Band lengths:
327-892
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]