GgaINT0124107 @ galGal3
Intron Retention
Gene
ENSGALG00000004965 | SLC27A4
Description
NA
Coordinates
chr17:5607515-5608198:-
Coord C1 exon
chr17:5608107-5608198
Coord A exon
chr17:5607625-5608106
Coord C2 exon
chr17:5607515-5607624
Length
482 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
TCCTGGCTGCCTCTTTGCAGGGA
3' ss Score
9.53
Exon sequences
Seq C1 exon
GTATTTCCGCATGGCCAGCTTGGTTTTTTATGGTTTCCGCATGAGACCCGATGATGTGATGTATGATTGCCTTCCACTTTACCACGCTGCAG
Seq A exon
GTAACGTGTGCCCTTGGGACCTTGCTTGCCTGGACTTTGCTTCCCCTCTGCCATGCCCAGAGCTCAGGCTCGGGGTTGGTGCAGCAGTGATCTCTGTGTCAAAGAGGAGCTGGCCGCTGGTGGCGGCATGTGACCTCTTTATCTGGGAGCCAGGAATTGATCTGGCTGACTTCTGGAGTGGGGACTGTGTGTGGGGAGGACTATCCCAGCCCTTGGCCTAGCTTTGGAATTGCTGCATTGTATTGCTGCCTCATGAGAAAGGGGGTGAGGAAGGGGAAGCAGTGCCCGCCTTGCTGACTGAGGTGTGGTGGGATGTCTAGGTGCAACACGTTGCCCCACATGCCACTGTCACATTGCCCTGGGTCCTGGGGGCTTTGGCCAGATATACACCCACCTGCTGAGAGCCAACACGTGGCCCCCGCCTCACTCTGGCCTGGTGGGAACTCGGGGTACTGAGGGCTTTCCTGGCTGCCTCTTTGCAG
Seq C2 exon
GGAACATCGTGGGGATTGGGCAGTGCTTGCTGCAGGGCATGACAGTCGTCATCCGCAAGAAGTTCTCAGCCTCGCACTTTTGGGAGGACTGCGTGAAGTACAACTGTACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004965:ENSGALT00000007962:5
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(7.2=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(8.3=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:
TATTTCCGCATGGCCAGCTTG
R:
ACAGTTGTACTTCACGCAGTCC
Band lengths:
198-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]