MmuINT0114446 @ mm9
Intron Retention
Gene
ENSMUSG00000022283 | Pabpc1
Description
poly(A) binding protein, cytoplasmic 1 [Source:MGI Symbol;Acc:MGI:1349722]
Coordinates
chr15:36527957-36528797:-
Coord C1 exon
chr15:36528707-36528797
Coord A exon
chr15:36528068-36528706
Coord C2 exon
chr15:36527957-36528067
Length
639 bp
Sequences
Splice sites
5' ss Seq
ATCGTAAGC
5' ss Score
6.08
3' ss Seq
GGTCTTTCTTTTGAATGCAGCAT
3' ss Score
4.54
Exon sequences
Seq C1 exon
ACTCAGAACCGTGCTGCATACTATCCTCCTAGCCAAATTGCTCAACTAAGACCAAGTCCTCGCTGGACTGCTCAGGGTGCCAGACCTCATC
Seq A exon
GTAAGCCTCATTTAGTTGTGTCTGGGAATTGGAGACTTGGGGTGGGAGTGGGGGCATGTGTGTAGCTCAGTGATATAACAATTAACTTCCCATGTGCTAGGCTGTGGGTTCAATTCCCCAGTGCTATCATATGAGGCAAATTTGTCCTATTGTAGTGATTAAATTGCTCCTGATAATTTATAGTTGTTAGATTTGGCTTTTTTTGATTTTTAGATGTGTAGCTTAGGCTGGCCCTGAACTAGCAAGCCTCCTACCTTATCTTTGTGACTGCTAAGATGGGTATTGGACTGATTGTCATACCCAGCTCCAAGTTTAAAAACAAAGGAAAAAAAATGCCATCAGTGGGTATTTGCTTCAATTCTTAATTTGCCTTGGTAGCAATAGCTTTCATTCTACAGGGTAATGTGTGGCATTTTGGTCCTTGGCCATGGTATATAACAAGCTGGGTTTCAGGAGCACTTGGTGTTACTTTTTAATCCTGCTTTTTTTTTTTTAAATTTTAATCTCAGATATTAAATTGAAACTCACTTTCTGTAAGGGTCTTTTGGCTTTTCATAAACCCTTGGCCCTAGGAAAGCTTAGGCTTTGACTCACTTAGTGAAGTTCCTAGTTCATACAGGGTCTTTCTTTTGAATGCAG
Seq C2 exon
CATTCCAGAATATGCCCGGTGCTATCCGCCCAGCTGCTCCTAGACCACCATTTAGTACGATGAGACCAGCTTCCTCACAGGTTCCACGAGTCATGTCAACACAGCGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022283-Pabpc1:NM_008774:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.742 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:
ACGCTGTGTTGACATGACTCG
Band lengths:
198-837
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: