GgaINT0124248 @ galGal3
Intron Retention
Gene
ENSGALG00000004142 | F1P4F0_CHICK
Description
NA
Coordinates
chr17:6274962-6276238:+
Coord C1 exon
chr17:6274962-6275099
Coord A exon
chr17:6275100-6276125
Coord C2 exon
chr17:6276126-6276238
Length
1026 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGTG
5' ss Score
5.56
3' ss Seq
TGTCTCTGTGTCTCTTTCAGCCC
3' ss Score
12.18
Exon sequences
Seq C1 exon
AACCTGACAATGACGCCTACGTGCGCTGCTCCTCACGCCCCTGCAGTCCGGTCCATCACGAAATGCACTCCAAGCTCTCCAGCAGTCCTCCTCGCTCCAGTCCTGCCAGGCTTGGGCCTTCCTATGTACTCAAGAAAG
Seq A exon
GTAGTGCAGGGCGGTCAGGTGCATGCTGGGAGGCAGAGGGGAGCATGTGGAGTGCAGGAGGAGGGGGTCATTTGCAGAAGAGAGAAGGAATGCTTGATGATCCTTGATTAGCAGTTCTGAGCAGTGCTGATTCCCCTGGAACATCAGTGCTTTTTAAAGTCCTACCAGGCAGACTACATCAGGGTTTGGATGCTACAGCTGTTCTAGTATGCTCTTCCATTGGAGCATGAAATGATTTCCAAGTGTAAGCACGCTGTGTTACTGATGAAAGAGCTATGAAGTCCCAAACACAGCTCTGTCTCTTCAGGGGAGCGTGGAGATGTGTGAACATTCGTCTGCCAGACTTGTACTTAATGCGTGTGAGTCAAAGAACCATAAGATGATGTTACTGAGGGAGAGCTTCTGGGCTCTTTGACATCATGAGCTCACAGTAATAGAATTAAGCTGCAAATATCAGCCTGGTGCTGGAAGCATTGTTAGGCTTCAGGGAGGAGCCTGGCTTCTGTTCTTGTCAAACTGGCCTCTTCATTTCAAGCAAATTGCAGAACAAAATCTCTCAGCGTTGCAGAGCCACCAAACACAATGGCATGTACTTACACCATTGTCTCTACAGCTGTTCAGTAATAACATTCTTTCCAGAACTGTGCCCCGGCCTCTTGGCTGAGGTCAACACAGCCACAGATGTTCTGGCCTGATGAAAAGCACTCTGTCTCCCTGCACGTGTGCATAGGGAATGGGGTTTGTTGTTAAGCAAGACTGTGTGCTTGGCCACTCACTGCCGTGGATAGTCTTTTCCAGCACAAGACACCTGACAAACATGGTAAATGCTAGAGGGGAGGAAAAAAAAGACAAAGTACACAGACAGGCTAAGGAGAAAGGAAGTAAAGTGTAAAGCTTAGAGCAAAACATGGTCCTCAACATGCAGGATCAGTGCTTGTCTTGTGGTTTTTATTGTGTGTCTGTGTGACTGCTTTAGACAGGAGACTGAGAAGGTGTTGCTATGTGATGTCTCTGTGTCTCTTTCAG
Seq C2 exon
CCCAGATGCAGGCTTCTGGGAAAAAGAAGAAAGAACTTCGTTATCGCAGTGTGATCTCTGATATCTTTGATGGCTCCATCCTCAGCCTGGTGCAGTGCCTCACCTGTGACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004142:ENSGALT00000006585:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.915 A=NA C2=0.026
Domain overlap (PFAM):
C1:
PF0044324=UCH=FE(8.6=100)
A:
NA
C2:
PF0044324=UCH=FE(6.9=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:
AACCTGACAATGACGCCTAC
R:
TCTGTCACAGGTGAGGCACTG
Band lengths:
251-1277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]