GgaINT0108364 @ galGal3
Intron Retention
Gene
ENSGALG00000016823 | F1P3E8_CHICK
Description
NA
Coordinates
chr1:141545786-141546278:-
Coord C1 exon
chr1:141546113-141546278
Coord A exon
chr1:141545930-141546112
Coord C2 exon
chr1:141545786-141545929
Length
183 bp
Sequences
Splice sites
5' ss Seq
TCAGTGAGT
5' ss Score
7.68
3' ss Seq
GTGCACTATGTCTACAGCAGGCT
3' ss Score
2.96
Exon sequences
Seq C1 exon
GAAGCGGAACAGAAAAGGAGAGAAGAGCGGCACGGGTTTACGTCATTTCTCTATGAAGGTTTGTGAGAAGGTACAAAGGAAAGGAACCACCTCATACAATGAGGTGGCAGACGAGTTGGTTGCAGAATTCACTACCCCTGACGATCACATTTCACCAAATGAATCA
Seq A exon
GTGAGTATATGGGAGGGCAGTTACATGTGAACTGAATGGGGACCCTTAGATTTCTTTTCCCATTGCTAAATTGAACAGTTCAGATAATAGCCAAGTTTACTCATTTGCTGTAATGTGTTTATTTTCAAGTGTTTCTGTCATTCGTCAGGTGTGTTTTTGATCAGTGCACTATGTCTACAGCAG
Seq C2 exon
GCTTACGACCAGAAGAATATTAGACGACGTGTCTATGATGCCTTAAATGTCCTCATGGCCATGAACATTATCTCTAAGGAGAAGAAAGAAATCAAATGGATTGGTCTACCTACAAACTCGGCTCAGGAATGTCAGAATTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016823:ENSGALT00000027160:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.571 A=NA C2=0.125
Domain overlap (PFAM):
C1:
PF0231915=E2F_TDP=PU(56.6=83.9)
A:
NA
C2:
PF0231915=E2F_TDP=PD(41.0=70.8),PF087815=DP=PU(4.1=12.5)
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:
AGGTTTGTGAGAAGGTACAAAGGA
R:
TCTGACATTCCTGAGCCGAGT
Band lengths:
246-429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]