HsaINT0119442 @ hg19
Intron Retention
Gene
ENSG00000090621 | PABPC4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:8557]
Coordinates
chr1:40029286-40030214:-
Coord C1 exon
chr1:40030095-40030214
Coord A exon
chr1:40029414-40030094
Coord C2 exon
chr1:40029286-40029413
Length
681 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
GTATTTGTTCTTTCCCTAAGGCG
3' ss Score
7.22
Exon sequences
Seq C1 exon
GCTTCCAAGGAATGCCAAGTGCTATACGCCAGTCTGGGCCTCGTCCAACTCTTCGCCATCTGGCTCCAACTGGTAATGCTCCGGCCTCTCGTGGCCTCCCTACTACCACTCAGAGAGTCG
Seq A exon
GTGAGCAAACTGGCCTTTAGAAGTGTGGCCTGGGGAGGAGGGAGTCAGGATGACTAGGCTCTGTCCTGGGTTGGTCAGTTTGTTGGGCTCGAATTTATCGAGTCCTGGTTCTGTAATCTTAGCTGTGTGCTTAGGTGGCCACTTCAGGAGCAGAGAAACAGTATGAGTTCTAGGTGTGTCAGTTGCTTTTAACATTCTTTGCTCATCGGTGACCTATGTGAAAAAGGTTAGTTGTAGAAGTTTGCTAGCTGGATGACCACAGAGGCAGCTTGTTCTTTTGGGTGGGGTGAGGAATACAAGGAAACAGTGTATACAGAATATGTCTTGTATTCCAAGATGTGGAAAGAGTTGTATGTTATCCTTTGGCTCATCCTCGAAAGTAGTAGTGGCCCCCTGTGCAATGTGTTGCGTAAACGTGCTTTGAAATTTCTCCTTCCGTGGGACGTGGCCAGTTGGACATCTGCCGCCAACACTGATGTGCATTTGCTGGTCTGTTGTAGGGTCTGAGTGCCCGGACCGCTTGGCTATGGACTTTGGTGGGGCTGGTGCCGCCCAGCAAGGGCTGACTGACAGCTGCCAGTCTGGAGGTGGTATTGGATGCACACAGAAGGGGGAAAGATGGGATTTGACGGGTCTTTGCCCAGACTGATGGGCTTTAATTGTATTTGTTCTTTCCCTAAG
Seq C2 exon
GCGTTCCCACAGCTGTGCAGAACTTAGCGCCACGCGCTGCTGTTGCTGCTGCTGCTCCCCGGGCTGTTGCCCCCTACAAATACGCCTCCAGTGTCCGCAGCCCTCATCCTGCCATACAGCCTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090621-PABPC4:NM_001135654:10
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.570
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0065813=PABP=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCCAAGGAATGCCAAGTG
R:
GCAGAGGCTGTATGGCAGGAT
Band lengths:
246-927
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)