GgaINT0039720 @ galGal3
Intron Retention
Gene
ENSGALG00000004538 | TNN
Description
NA
Coordinates
chr8:7395917-7397961:-
Coord C1 exon
chr8:7397698-7397961
Coord A exon
chr8:7396181-7397697
Coord C2 exon
chr8:7395917-7396180
Length
1517 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TGACTTTTTCCTCTCTGCAGAAA
3' ss Score
11.9
Exon sequences
Seq C1 exon
GAATTGATAGCCCAACCAATGTGGTGACAGGTCGAGTGACAGAGGACACAGCCACTGTCTCATGGAATAAAGTTCAGGCTCCCATAGACAGGTACATGGTGAGATACACCTCAGCTGATGGAGACACCAAGGAAACAGAGGTAGGCAGTGAAAACAGCATCATCACCTTATTGAATCTGAAGCCAGGCATGGAATACACCATCCACATCTGGGCAGAGAAGGGACCCCATAGGAGCAAGAAAGCCAGCACCAGAGCTCTGACAG
Seq A exon
GTAAGTTGCAGCGGCACCAGGAGTAAACTGGCTCTGAATTTCAAACACCTTTATTAATTTGACTTGTTTCAGTACAGCTTCTGTATTGCACAAGTTTTAGTGAGGCAATAAAATCATTTCATTCTTATCAGTGTGACTGACAGGTCTTCAGCTTAGCAGAAGGTTCTTTGTTTTGAATCCTGTTATGTGCAGACACTATGGCTTGGCTCCAGTTTTTGTCAGTACAGAGAATGGTGAAACACAATGAAAACTAAAGCCTTAGAACAATGATACATTAAAAATGTCTTAAAAATACCATCAACCACCTCCAAGCTGTTCTTGTGACTCTTGTGACCTTGCCCAGTAGTAAAGTGAGTTCATGCAAGTGTTGCACAGTCAGTCGTGACAGTGTTTGTGAAAAGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTGTGGTGGAATTCAGTACCTGGGTCTCTTAACAATAGGGAGAAACCAGCCCCAGGGGGGAAGGAGTCTTGTGTTGTCACAGCACAGCCTGTCTATGACAACTTGCATTCTTGACTTTTTCCTCTCTGCAG
Seq C2 exon
AAATTGACAGCCCCACTCACCTGGTGACTGATCAAGTGACAGAGGACACAGTCACCATCTCCTGGGACAGGGTTCTGGCTCTCATAGATAGGTACATGGTGAATTACACCTCTGCCAATGGTGATACTGAGGAGATAGAAGTGGCGAAGAACAAGACTGCCACAACTCTGGTAGGACTGAAACCTGGCACTGAATATGTCATCTACCTCTGGGCAGAGAAAGGAGTGCGGCAGAGCAAGAGGACCAGCACTGAAGCAGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004538:ENSGALT00000007224:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.416 A=NA C2=0.281
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=88.8)
A:
NA
C2:
PF0004116=fn3=WD(100=89.9)
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:
TTCAGGCTCCCATAGACAGGT
R:
GCAGTCTTGTTCTTCGCCACT
Band lengths:
352-1869
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]