GgaINT0093873 @ galGal3
Intron Retention
Gene
ENSGALG00000014450 | PABPC1
Description
NA
Coordinates
chr2:133700657-133701051:-
Coord C1 exon
chr2:133700958-133701051
Coord A exon
chr2:133700768-133700957
Coord C2 exon
chr2:133700657-133700767
Length
190 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGT
5' ss Score
10.44
3' ss Seq
GCATCTTTCCTAAAACACAGCAT
3' ss Score
3.18
Exon sequences
Seq C1 exon
ACTCAGAACCGTGCTGCATACTATCCTACTAATCAACTTGCTCAACTTGCTAGACCTAGTCCTCGCTGGACTGCTCAGGGTGCCAGACCTCATC
Seq A exon
GTAAGTCTCTTCTTTGCTTTTCCAGCAATGGCAATCAACTCTCAATAAGCCTTTACCTTTGAAATTTTAGATATGTTTTCATGTAACCACAGTAAGAGTGTTTGCTATATTTCATGGTATTACTTCTGAACTCTTCTCGCCATTCACTGATGCAGTGTGTAACGTGTAACGCATCTTTCCTAAAACACAG
Seq C2 exon
CATTCCAAAACATGCCTGGTGCTATCCGCCCAGCAGCTCCCAGACCACCATTTAGCACCATGAGACCGGCTTCTTCACAAGTACCGCGAGTCATGTCAACACAACGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014450:ENSGALT00000023333:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.719 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCAGAACCGTGCTGCATAC
R:
CACGTTGTGTTGACATGACTCG
Band lengths:
202-392
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]