GgaINT0124104 @ galGal3
Intron Retention
Gene
ENSGALG00000004965 | SLC27A4
Description
NA
Coordinates
chr17:5608742-5609916:-
Coord C1 exon
chr17:5609522-5609916
Coord A exon
chr17:5608901-5609521
Coord C2 exon
chr17:5608742-5608900
Length
621 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCTGCTCTTTACTTTCTCAGCTA
3' ss Score
7.79
Exon sequences
Seq C1 exon
CACGGGGCTGGTCCTGCTGCGGGTGAAGTGGCAGGTGTGGAGGCACGTGAGGGAGAAGAACACGATCGCCAAGATCTTCCAGAGGACTGCGAGCAAGTGTCCAGAGAAAACAGCACTGATCTTCCAAGGCACGGGCGAGAGCTGGACCTTCCGGCAGCTGGATGAGTACTCCAACCAAGTGGCCAATTTCTTCCACGGCCAAGGCTTCCGCTCCGGTGACGTGGTGGCTCTGTTCATGGAGTCCCGCAATCAGTACGTGGGGCTGTGGCTCGGCTTGGCCAAGATCGGGGTGGAGACGGCCCTGGTGAATTCCAACCTACGCATGGAGGCCTTGCTGCACTGCATCACCATCTCCAACTCCAAGGCTGTGGTTTTTGGAGTGGAAATGATGGAAG
Seq A exon
GTGAGGGGCAGGCAGGTGCTTCAGGGGGCTTTCAGGCTCTGAGCGGAGGGGGTCTGTGGATTCAGTGCTCCTTTCCTGCAGGGAATAGAGCAGGGTCTCAAAGAGTGTGCATAGCTGAATTACTCAGGAATTGGATCTGGTTTTCTTTCTGTTAGTAGGCAGAGGTGGGTGGGTTCAATCCTCACGCCCACGTGGGTGTGAGGATTCTTGTGCTAGAGGTTCCTCTCATGTCCACGCACTGCATGGAGCCCTGTGCTGTGCCAGACCTGCCCTGATGGAAGGGACGAGTCTCTCTTGCTTCCTACACTGTTTGCAGCAATCTTGCAGTGTGTTTCAGCCTACGCCCCTGCGGCTGATGGTGTTGAAAGACCTCTCAGCACCGCAAGGTTTTGGCTGGGAAGAAGTGGAGAACAGGATCTTCAGGTCTCTGAAGAGGCCTGGGCTGTGGTCCCAGCTGTTTGACATAGGAGCAACATCTGCCTGGGAGAGCTGTCAGGCCTTTTGGCATTGCTGAGCGCAGTGAGGGTGCAGCTACCTGGGGCACCTGCCTGCAAGGATAGGGAATCGCTGTGCTATACTCACCCGGTGCTCTTTCTCCATCTCTGCTCTTTACTTTCTCAG
Seq C2 exon
CTATGAAGGAGGTGCAGTCCTCCATGGAGAAGTCTGTCCATCTCTTCTGGTCAGGAGAAGGAAGCCCTGAGTCCGCACTTTCTGGTGCAAAGCACCTGGATCCCCTCCTGCAGACAGCTCTTCGACAGCAGCCAGATCCCCCTGAGAAGGGCTTTCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004965:ENSGALT00000007962:2
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=0.019
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PU(24.5=79.7)
A:
NA
C2:
PF0050123=AMP-binding=FE(12.2=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:
AGTGGCCAATTTCTTCCACGG
R:
CTGTCGAAGAGCTGTCTGCAG
Band lengths:
346-967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]