GgaINT1020577 @ galGal4
Intron Retention
Gene
ENSGALG00000003800 | PABPC4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:HGNC:8557]
Coordinates
chr23:5420069-5420746:-
Coord C1 exon
chr23:5420687-5420746
Coord A exon
chr23:5420102-5420686
Coord C2 exon
chr23:5420069-5420101
Length
585 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
TCAGCTCGAGATGTTTGCAGATT
3' ss Score
-0.54
Exon sequences
Seq C1 exon
GTGGAGGAGGCTGTTGCAGTGTTGCAGGCTCACCAAGCCAAGAAAGAAGCTGCCCAGAAG
Seq A exon
GTGGGTGTGGTTGCTGCTACCTCTTAAGCCAGGAAGACTGGTGAGTGTCTCAGTCCTCAGCTTCAATTGAAAGCTCCCAGGGCTGGTAAATAAAGCAAGACAGTTACTGAGTGTTCTTGGTCTGGGAGGCCTGTGTAGGTCTGGGAGCAGTGCTTGTCTAATTGTAGCCAATTCTTCAAAAATCTTTTAATTAAGCGTCGGAAAGATGATGCATAAATTGCCAAAGTGTTCCTGTGAGCTGGCATGTCATGGAAGTACAGCAGAGTGAGATGAGTCTTGTGACAGTGCTGATCTAGGAGATAATGTTCTGTGGCTTCGAGGTGAAGTACTGTGCTGATGCCCATTCCTTGTCCTGGCAGTTGTCTGCCTATAGCATGCATTAAAGGGCTGCTGTCAGCAGGGCCGTTTCCTGGTACAGGTCTGTCCAACGAGTGCTCTCTCTGGTGTTGAAAAGGAGCCAGCTCTGAACTCCTAAAAAAGGGCTTTATTTCCCAGTGCCTGGCAGGTAATCTCTGACTCCTTTTCCTGTAGGATGCAAAGAAGCCAAATAGCCCCTCCCCAGACATCAGCTCGAGATGTTTGCAG
Seq C2 exon
ATTCTGCGCCGTCCTGCAGGACTCGATGCCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003800:ENSGALT00000006028:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.273
Domain overlap (PFAM):
C1:
PF0065813=PABP=PD(9.7=35.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]