MmuINT0179440 @ mm9
Intron Retention
Gene
ENSMUSG00000078796 | Zfp541
Description
zinc finger protein 541 [Source:MGI Symbol;Acc:MGI:3647699]
Coordinates
chr7:16667401-16667919:+
Coord C1 exon
chr7:16667401-16667587
Coord A exon
chr7:16667588-16667858
Coord C2 exon
chr7:16667859-16667919
Length
271 bp
Sequences
Splice sites
5' ss Seq
GTAGTCCAG
5' ss Score
-26.62
3' ss Seq
TCAGAGCTAAGACCTGGAAGAAA
3' ss Score
-12.14
Exon sequences
Seq C1 exon
CCATCAGCCAAATGGGGGTCCCACAGACTGGATGGAGTCAAAGAGCACTTTTGTGTGCAAGAATTGCAGCCAGATGTTTTACACCGAGAAAGGGCTGAGCAGCCACATGTGTTTCCATAGTGACCAGTGGCCATCACCTCGAGGGAAGCAGGAGCAACAGGTGAAGGGGCAAATGGTGGCTTCTGTA
Seq A exon
GTCCAGGGTTAGACAGGCTTTGGGGATAGATGAAGAGACAATGTCATCCATCTCAGGTTAAAGGCAGAATCCTGGCATGGGGTGACATGAGGGCCAGGGCCATCTGTGCAGGCCTACAGTAGCCCCACTGACAGCAATGATATTGACAGCCCAAGTCCTGACCCTAGTCAGCAGTGACCCAAAATTTGCAGGGCTGGGATGCAGGAGAAGAAGGAACTGAGGAAGGCTGGGGGGCCAGGCAGGAAGGTATGTCAGAGCTAAGACCTGGAAG
Seq C2 exon
AAAAGGAAGGCTGGCAGGGAGGAAGGAGCAGTAGAAGATATGAAACGTCATTATGATTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000078796-Zfp541:NM_001099277:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.535 A=NA C2=0.857
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCAGCCAAATGGGGGTCC
R:
TGCAATCATAATGACGTTTCATATCT
Band lengths:
247-518
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: