HsaINT0119434 @ hg19
Intron Retention
Gene
ENSG00000090621 | PABPC4
Description
poly(A) binding protein, cytoplasmic 4 (inducible form) [Source:HGNC Symbol;Acc:8557]
Coordinates
chr1:40026485-40027459:-
Coord C1 exon
chr1:40027357-40027459
Coord A exon
chr1:40026795-40027356
Coord C2 exon
chr1:40026485-40026794
Length
562 bp
Sequences
Splice sites
5' ss Seq
ACCGTATGT
5' ss Score
6.73
3' ss Seq
GTTGGTGCTTTTCTTTACAGGAT
3' ss Score
9.75
Exon sequences
Seq C1 exon
GTGGATGAAGCTGTAGCAGTTCTACAGGCTCATCATGCCAAGAAAGAAGCTGCCCAGAAGGTGGGCGCTGTTGCTGCTGCTACCTCTTAGACAAGGAAAAACC
Seq A exon
GTATGTGTGGCTATTTTCATTTTTGTTCCTATGAGCATTGTTCCTATGAGCATTGTCTTTGTGGTTTGACCTGAGGTTGTATATATGCTCACTGCTTAGCTCTGGGAATACAATAAGTACAGTTAGTTACACGGAGTGTGTTGCAGGTGACTTCTTATCATGAGGACTGTGGACTTTGTCTGCAGGAGCTTGAGTGAATAATAAAACTAGTACTGGTTGATGGTTGTAGGTGTCTCCAGATAGGGAAAGAAGAGACAGTAAAATAAGCTAAGGAAAAAGCACATGGTAAGGACCAGAGCTGGTGTGTTGGGAGGGTTGACTTGGCATAGTCATGACCCTCTTGTCAAGGGCCTCAGGAGCCTTGTCATCTAGTGGTAAAGACCAGAGATGCTGCTAAATGTTGTACAGTACACAGGAGGACAGACCCAACAGAATGTCCAAAGTGTCAATAGCACTGAGGTTGAGAAACTCTCTTCTAGAATACCTTCCTTTATCCACTATATGTTAATGAATCTAAATTATTTGATTATGCATTTATTTGTGTTGGTGCTTTTCTTTACAG
Seq C2 exon
GATTCAAAAGCCAAATAACCCCTTATGGAATTCAACTCAAGGTTTGAAGACTTCCTAGCTTGTCCTATGGACCTCAACACCAAGGATTACAAATTGCAAATTTAATAGGTCATTTTGTATCAAAAGGTCAATTATGAAGCACCTAGAATTTTTCAATTATACGAATATGTTCTTTGGGTTCTGCTGTGGCCCAGACAGTGTTAACTTTTTTTTTATTGTGGGTTTTGATTTTTTCCCCCAGAAATTGGTTTTATTTGATGTACCCAAGTCTTACGTTTCCCAATAAAGAAAAAAAATCTCCATAAAACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090621-PABPC4:NM_001135653:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.512 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0065813=PABP=PD(9.7=23.3)
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGAAGCTGCCCAGAAGGTG
R:
TGGGAAACGTAAGACTTGGGT
Band lengths:
343-905
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)