GgaINT0097527 @ galGal3
Intron Retention
Gene
ENSGALG00000009700 | PDK4
Description
NA
Coordinates
chr2:23867912-23868879:-
Coord C1 exon
chr2:23868766-23868879
Coord A exon
chr2:23868025-23868765
Coord C2 exon
chr2:23867912-23868024
Length
741 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
TGTAATTTCTTTCTTTTTAGGCC
3' ss Score
11.01
Exon sequences
Seq C1 exon
GCTGGCTTTGGATATGGCTTGCCAATTTCACGTCTATATGCCAAATACTTCCAAGGAGACTTAAATCTTTACTCCATATGTGGCTATGGAACAGATGCTATTATCTACTTGAAG
Seq A exon
GTACGTGTTTTGATTGTGTAAAGCTAAATAAACATTGATAACCACCATTAATGCAGTGAAGTGACCACTTCAGTATCATATTAAAGGTAAATGAATTCTCTGACGAATAGGAAAGCTCTTTTTTTTTTTTTCCAAAGAAATGCCAGTATGTTTAAACAAGCTGTTGCTTTTTTGTTGTTGTTCAAGATACTTAGCTGTATCTTGAATAACTACTGATGAGAGCTTGAAATCAAATTCAGAGATTATTCTGTTAGGTAGATTTGGTGTCTCCTGAGTTGTAGAATAGAGAGTACAAGGGTAAAGTGAAGTAACAGAATTAAGAAGATGGGAGTAGCGGATCTTTTGTTCCCCTTTTACTGTTCCTTCTTTCTTCTGACAAGAAAGTCTATGTAAACTAGTCGTGAAAGAGACTGAGTAAGCCCTTAGCTGCAGAATATGTAGGTATGAAAAGATCACATTCTGAAGCTTCTCTGTAATTCTGTGTATTTCTTTTCCAGTGCTTTAAGGGTTATTTTGAAAACAGGTTACGGAATACCTCTTAAGGCCTATAAAAATGCATCAACATGATCTGATGTTACTACATTTGTCCTGCAAAACTTAGATTGTGAACATAGATATTAGAGCAAGTTAACTGTTGCAACTATTATAGAAATGTTTGTATAAATTTATTTTGTGGTGTCATTTTATTAATACTTGATGTGTACTGCATGAATTTTCTCAGTGTAATTTCTTTCTTTTTAG
Seq C2 exon
GCCTTATCAACAGAATCAGTAGAAAAACTTCCAGTTTTTAACAAGTCTGCTTCCAAACATTACCAAACAACTTCAGAGGCAGATGACTGGTGCATCCCAAGTAAAGGTCCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009700:ENSGALT00000015790:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0251821=HATPase_c=FE(29.8=100)
A:
NA
C2:
PF0251821=HATPase_c=FE(0.1=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:
TGGCTTTGGATATGGCTTGCC
R:
GGACCTTTACTTGGGATGCACC
Band lengths:
222-963
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]