GgaINT0143168 @ galGal3
Intron Retention
Gene
ENSGALG00000000252 | Q8AV15_CHICK
Description
NA
Coordinates
chr27:1540021-1541592:-
Coord C1 exon
chr27:1541314-1541592
Coord A exon
chr27:1540075-1541313
Coord C2 exon
chr27:1540021-1540074
Length
1239 bp
Sequences
Splice sites
5' ss Seq
GTGGTACGT
5' ss Score
8.61
3' ss Seq
TTCTCTCCCAATCCCCACAGGCG
3' ss Score
10.82
Exon sequences
Seq C1 exon
GTGGTGGTAAATGCCTTGTTGGGTGCCATCCCCTCCATCATGAACGTCCTGCTGGTCTGCCTCATCTTCTGGCTGATATTCAGCATCATGGGGGTGAACCTCTTCGCAGGGAAGTACTACCGATGCGTCAACACCACCACGGGGGACCTCTTTGACATCAGCGTGGTGAACAATAAGAGCGACTGCATGGCTCTCCTCCACACCAACGAGGTCAGATGGGTCAACGTCAAAGTCAACTTCGACAACGTGGGCTTGGGATACCTGTCCTTGCTGCAGGTG
Seq A exon
GTACGTACCGATCACTGCGCATCGTCATAGCAGAGGGTCATCCATCATCATCGTCATAGCAGAGTCAGCAATTGCCATCGTCATAGCATGGGGTGAACAGCATCAAGGCTAAAGTGAAATGCATGTCTGAAGCCCACGCCAGGGTTCCTGGCTGCTGCTTAGCTCCAAGATTTAATTTAACCCAAAAACTGCAGGCTCGAGGAGGAAACAGGCAGGATAGAAGATGGGAGGGGAAAATTAAGTGTAGCAAGGGAACTGTTGGGGATGAGTACACAAAGCAGCAAGGTTGGAGCTGTGGGAAATCCTCCACAGCACGGCATGCAGGAGCAGGGAGGAGAAAGAGTTTTAAGCACCATTATTTGGAAAAGGAAGATGCTGTGACCCAGGGTCATAGAGCCACTTGAGCCTCTCACTTGCTCGACCTGTCTCTCAGTCTTCCCAAAATCGAGACTCCCATCCCCCCTTCGCAGCCTCCCTGCATGAAGATGTTCTTGCTAGAGTGAGGTCTGCGACAGTCATAGGCTGCAAGAGTTTTGGCTGGGGAAGATGACGACTGGAAAAAAGAGCATGTGAGCATTGGCCATGGGTGAATGCAGCCATGCTTCCATTGAACTCACCACAGCTGAGCAAGGCGAGCAGAAGGGGAACTGCTCACCACGACGTTAATAAAAGTACAGGTGTGGGCTCTGTTATTGGGTCACTCCCACTGGATCCAGGGGAACTAGTGGTTGCAGAACTAAAGCAGAACTCAAACTGATCAACCAGCTATAAACTCAGCTTCCTCTTCAAGGCTTGTTGTTTCCTCAGACTCAGGAAATAAGATGTTCTGGCTTTTTGCTTAACAAATCAACTGCAGAAGCCTATAAAAGATGCAAGACGCCCCCACCTCAGTGGGACAGAATCATAGAACCATAGAATGACTGGGTTGGGAGGGAGAATGGTTGGGCTTGGAAGGACCTCAAAGATCATCCAGTTCCAACCCCCCTGCCTTGAGCCAGGTTGCCAACCACCAGATCAGGTTGCCCAGGGCCGTATCCAACCTGGCCTTGAACACCTCCAGGGACATTCACAGACTCTCTGGGCAGCCTGTGCCAGCACCTCAACACCCTCTCCATGAAAAATTTTCCCCTGCCATCTGAACCCCAACCTAAACCCCAGAAGTGTCCCCATTGCCTTCCACTCCCTTCATAGCCCCATACACCTCCTGTTGAGCTTGCTCTTCTCTCCCAATCCCCACAG
Seq C2 exon
GCGACCTTCAAAGGTTGGATGGACATCATGTACGCTGCTGTGGACTCACGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000252:ENSGALT00000040680:25
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:
PF0052026=Ion_trans=FE(52.9=100)
A:
NA
C2:
PF0052026=Ion_trans=PU(31.5=94.4),PF116463=DUF3258=PU(16.0=72.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTGGTAAATGCCTTGTTGG
R:
GAGTCCACAGCAGCGTACATG
Band lengths:
326-1565
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]