GgaINT0045186 @ galGal3
Intron Retention
Gene
ENSGALG00000009273 | F1P4U7_CHICK
Description
NA
Coordinates
chr7:17425085-17426017:-
Coord C1 exon
chr7:17425924-17426017
Coord A exon
chr7:17425321-17425923
Coord C2 exon
chr7:17425085-17425320
Length
603 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TTTTCTCTCTTTAATTTCAGCAG
3' ss Score
9.02
Exon sequences
Seq C1 exon
AAGGCACCTTCCGGCCAGGAGAAGAAAGTGACAACGGCGAGCGGCGCCGCTTCCCCTCCCGGTGAGGCTGTTGCAGAGAAGAGCAACAGTTCAG
Seq A exon
GTGGGTATCGGCGGTGACGCGGGGGCAAGAGTACAAGGCCGACACTTTGTCAAGCCGCATTTTATGTGCCATTTTATAAGCATCCAAAGGATTTTATATATCCTATAAGATTTCCTTCGCCGTTGTAAAGCGTGTTTACGATAGGAAACCAATTTAGGTGGGCTTAAGGTATTCTCGGAAGAGGATATTAATTGTTATTAAATTGTTGATTTGGCGGGGGGCGGACGGCGCGATCTCACAGGTAGGGCTCGGAGCTGCCTCCGCGGTGCAGGCTGAGCTCTTCGTCTGCTTGAGGCGGGGGTGGGGGCGAGAGGGCTTGGAGAAACTTGGAATATTTCCAGCCCATTTAAATATGTCCGTGTAGCGCTCGAAGTGCTCTCTTTTACGGAGAAGATGGGAAATATTCTCTCTCTCTCTTTTTTTTTTTTTTAATTATTATTTTGCTTTTCCTGTGTCAACCGGAGAGCAAAAGCCCGGGGAGTATTTTCGGAGCTGTTGGAGGGCTGCTTCCCCGGGCGGGGGGACACGGGCAAAGTCTGAGCTCTTCCCAGCCGAGCGCGGTCGTATTCTGCATAAATCAGCATTTTCTCTCTTTAATTTCAG
Seq C2 exon
CAGTTCCTCAGCGATCGAGGAAAAAGAGGTGTCCCTATACCAAATATCAGATAAGAGAACTGGAACGTGAGTTTTTCTTCAACGTGTACATAAACAAAGAGAAAAGACTGCAGTTGTCCAGAATGCTCAACCTCACTGACCGGCAAGTTAAAATCTGGTTCCAGAATCGAAGGATGAAAGAAAAGAAACTGAACAGAGATCGACTCCAATACTTCACTGGAAATCCCTTGTTTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009273:ENSGALT00000015085:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.167
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=72.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGGCACCTTCCGGCCAG
R:
AACAAGGGATTTCCAGTGAAGT
Band lengths:
326-929
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]