GgaINT0124108 @ galGal3
Intron Retention
Gene
ENSGALG00000004965 | SLC27A4
Description
NA
Coordinates
chr17:5606921-5607624:-
Coord C1 exon
chr17:5607515-5607624
Coord A exon
chr17:5607131-5607514
Coord C2 exon
chr17:5606921-5607130
Length
384 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
TTTCTCTTTGCCCCTGCTAGATT
3' ss Score
8.6
Exon sequences
Seq C1 exon
GGAACATCGTGGGGATTGGGCAGTGCTTGCTGCAGGGCATGACAGTCGTCATCCGCAAGAAGTTCTCAGCCTCGCACTTTTGGGAGGACTGCGTGAAGTACAACTGTACG
Seq A exon
GTGAGGCCACGTGCCCAGGGATCTGTGTCGAGTTAGGGTGAGCCCAGCTGTTGCAAGAAGGAAAGGCATGGACTCGTTCTGCCTGTCTGTCCTGAAATATCTTCCAAAGCAATGGAGCTGTATCCTTCCCACCTCCGGCTGTAATTCCACGTTTCCCATGCTCCAGCATTAGCCAGACCTTGGATAGGTGTTATAAATTGGAGGAGTGAGTTTGCCAGAGGTGGGTGGGCGTGAGACAAGCTGGCAGGACCCCTGGATAATACCACATCCTCTTTAGGGAACACTGTGCATGTTGTTCCATTCCTGCCTGCCCCAAAGAACGCCTTAAATATCCCAGGCCGTGGTAGAGGGTCCTAACGTGTCCTTTCTCTTTGCCCCTGCTAG
Seq C2 exon
ATTGTGCAGTACATTGGGGAGATCTGCCGCTACCTGCTGAACCAGCCCTACCAGGAGGTGGAGCGGCAGCACCGGGTGCGCATGGCGCTGGGCAATGGGCTGCGAGCTTCCATCTGGCGAGAGTTCATGGCCCGCTTTGGCATCGCCCAGGTGGCTGAGTTCTACGGGGCCACCGAGTGCAACTGCAGCCTGGGGAACTTCGATAATAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004965:ENSGALT00000007962:6
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=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(8.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(15.9=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:
GGAACATCGTGGGGATTGGG
R:
TATTATCGAAGTTCCCCAGGCTG
Band lengths:
318-702
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]