MmuINT0114465 @ mm9
Intron Retention
Gene
ENSMUSG00000011257 | Pabpc4
Description
poly(A) binding protein, cytoplasmic 4 [Source:MGI Symbol;Acc:MGI:2385206]
Coordinates
chr4:122975104-122976064:+
Coord C1 exon
chr4:122975104-122975336
Coord A exon
chr4:122975337-122975755
Coord C2 exon
chr4:122975756-122976064
Length
419 bp
Sequences
Splice sites
5' ss Seq
AAAGTATGT
5' ss Score
6.93
3' ss Seq
TTGGCACTTCTCTTTTCTAGGAG
3' ss Score
9.31
Exon sequences
Seq C1 exon
GGGAGCGTCTGTTCCCGCTTATCCAAACAATGCATTCAAACCTGGCTGGGAAAATCACCGGGATGCTGCTGGAAATCGACAACTCTGAGCTGCTGCACATGCTGGAGTCCCCCGAGTCCCTCCGCTCCAAGGTAGATGAAGCGGTGGCAGTCCTGCAGGCTCACCATGCCAAGAAAGAAGCTGCCCAGAAGGTGGGCACTGTTGCTGCTGCTACCTCTTAGACAAGAAAAAAA
Seq A exon
GTATGTTGACAGTTCGTGTTTTCTGCCCCCTTTGGTTTTTCAGATAGGGCCTTACCATATGTTCCAGGCTGTTGGGGGTGAGGGGGTATATATATAATAAAACAGGATCTGCAATCCCAGCTGCCCATGTGGGCCAGGGACCTTTCTAGCTTGGCCTGAGGTTGTGTCCACTGCCTAGCTGTGAGTGCAGTGTGCAGAGAGGGGTGTTGGTATTTATTACAGTCTTGTTGAAGAGATCACTGTAGTGATGTCTGAGCTGTGGCCCCTGCAAGGTTTAGGAGAGAGTGAACTGGGACTCTTGATAGGGGAAAGGAGAAGGCGATGAGTTGCAGCCGGCTGGGAGCAGCTGGTGCTGACGAGCAGAGAGGTCTCTTTAACAAACAGGCTTGCTTATTTGTGTTGGCACTTCTCTTTTCTAG
Seq C2 exon
GAGTCGAAAGCCAAATAACCCCTCATGGCATCCAGCTAAGGTCTGAAGACATCCTAGTTTGTCTGTGGACCTCCACACCAAGAACCAAGTTGCAAATTCAATAGGTCATTTTGTATCAGAAGGTCAATTATGAAGCACCTATAAGTTTTTCAATTATAAGAATATATTCTCTGGGTTCTGTTGTGACCCAGATGATAACTTTTTTTTTTCTATTATGGGTTCTGGTTTTTTTTTTCCCTCATCCCAGAAATTGGTTTTGATGTACCCAAGACTTAAGTTTCTCAAATAAAGGAAATAAAATCTCCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000011257-Pabpc4:NM_148917:13
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.351 A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0065813=PABP=PD(70.8=68.9)
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Skipping Isoforms:
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTCTGAGCTGCTGCACATG
R:
CTGGGTCACAACAGAACCCAG
Band lengths:
344-763
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: