GgaINT1020576 @ galGal4
Intron Retention
Gene
ENSGALG00000003800 | PABPC4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:HGNC:8557]
Coordinates
chr23:5421296-5422073:-
Coord C1 exon
chr23:5421954-5422073
Coord A exon
chr23:5421424-5421953
Coord C2 exon
chr23:5421296-5421423
Length
530 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGG
5' ss Score
8.92
3' ss Seq
CCTGCTCTCTTCTTCTGCAGGTG
3' ss Score
13.74
Exon sequences
Seq C1 exon
GCTTCCAGGGAATGCCAAATGCCATGCGCCAGTCTGGACCACGGCCAGCGCTGCGCCATCTGGCCCCTGCTGGCACTGCTCCTGCCTCTCGTGGCCTCCCTGTTTCTGCCCAGCGAGTTG
Seq A exon
GTAAGGTGTCTGCCTCCCAGGCTCTTCTCAGCTGTGGGGGATGAGGATGCTATTGAGACTTGACTTTACTTCCAAAGGTGGTTGTCAGAAACAGATAACCAAAGGCCACCTGGAGCGAGGGGCAGAGACAGCACCTGAATCTTTCCTATTCCTTGCTGTGCAGTGCAGGTCTGGGGACAGTTGGTGCTACAGCACAGCAGCAGAAATCCAGATGGGTTACTTTCCACTCGCTTGGAACTCATCTCTACAGCTCTGCAACATTTACTGCTCTAAATAAGACTGTAGGTTATGGATAATGTTCTCGGAGTAGAGCATTCAAATTCTATTTTAGGGAGTAACTGGAAAATACCGTAAATGCAGAATGTAAAATAGCTCTCTTCTGAAATATCCAATTGTAATTTGGAGACTGGTTTCTAAGCCAATATTGGCCTGTGCAGTGCATGGCTTGAATTTAGTGGTCATTAAGATACCTCGGGTTACTTGCTGCACATTCCCATGGGTGGTTTTGATCCTGCTCTCTTCTTCTGCAG
Seq C2 exon
GTGTTACCACTGCAGGACAGAGCTTGGCTCCTCGTCCTCCTGTAGCTGCTCCTGCTCCCAGAGCAGTTCCCCCTTATAAATATGCCTCAAGTGTCCGCAGCCCGCACCCACCTGTACAGCCTTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003800:ENSGALT00000006028:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCAGGGAATGCCAAATGCC
R:
CTGCAAAGGCTGTACAGGTGG
Band lengths:
246-776
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]