GgaINT0097521 @ galGal3
Intron Retention
Gene
ENSGALG00000009700 | PDK4
Description
NA
Coordinates
chr2:23871742-23872443:-
Coord C1 exon
chr2:23872259-23872443
Coord A exon
chr2:23871841-23872258
Coord C2 exon
chr2:23871742-23871840
Length
418 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
AATACAGTATTTGTTTTCATCCA
3' ss Score
-5
Exon sequences
Seq C1 exon
ATTTATAGATACATTAATCAGAGTTCGAAACAGACATCACGATGTAGTCCCTACAATGGCACAAGGAGTAATTGAATACAAAGATATGTTTAAAGTAGATCCTGTCACCAATCAAAACATTCAATACTTCTTGGATCGCTTTTACATGAGCCGCATTTCCACCCGGATGCTGATGAACCAACACA
Seq A exon
GTAAGTAGGAATTCTTATCTGTGGAAAGACTATAGAATCATGGGGCAGTTTGGGTTGGGAGGGACCTTAAAGATCTTCTAGTTCCAACTTCTGTCTTCAACCAATGTAAAACAACTGAATGTAAGCACAGCTCAGAACTGCCAGAGAGAAATCTGTTTCAGATGACTTTGTGAGACACTGAAAAGTTAAACTAGTCCGTAGTCTAGAAAGTAACGTCTTATGTGGAAGATGAGGAACTTCTTTTGCATTTGAAAAGCCTTTACACCTTGAACTGCACATAAGTCTGCTGCCAGTAGATTGCCTTTTTAAATCTAAAAAGGCATAAACAGTACTCATATGATTGTCTGCTATGATTATACTCAATATAAACTTGTTTTGTAGTATAGCAAGTGTGACTAAATACAGTATTTGTTTTCAT
Seq C2 exon
CCAAAACAGCCCTTCTTTTTGATGATAAATCCAGATCAGGTCACCCGAGGCACATTGGAAGTATTGATCCTTGCTGTGATGTTGTTGAGGTAGTGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009700:ENSGALT00000015790:4
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=0.029
Domain overlap (PFAM):
C1:
PF104364=BCDHK_Adom3=FE(36.9=100)
A:
NA
C2:
PF104364=BCDHK_Adom3=PD(13.7=67.6)
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:
ACATTAATCAGAGTTCGAAACAGACA
R:
TCACTACCTCAACAACATCACAGC
Band lengths:
271-689
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]