MmuINT1035874 @ mm10
Intron Retention
Gene
ENSMUSG00000040123 | Zmym5
Description
zinc finger, MYM-type 5 [Source:MGI Symbol;Acc:MGI:3041170]
Coordinates
chr14:56804149-56804863:-
Coord C1 exon
chr14:56804415-56804863
Coord A exon
chr14:56804240-56804414
Coord C2 exon
chr14:56804149-56804239
Length
175 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CCTCATCTTTAACTTCACAGACC
3' ss Score
8.3
Exon sequences
Seq C1 exon
ATTCATCAGTGGGAAGACTAGTTGACTGTACATTGGACTTGGACATGGAAGCTCATCTCGCAGATATGGAATCATCTGGGGGTCCAACTAGTTCTTTAGCCGGTACATCTAGAAACACACATGTGGAAGATGATGATGTTGTATTTATTGAATCAGTACAGCCTCCAATTTGTGCTCCAGCAATACCTAATGAAAGAAACTTTGTATTTGCTTCCTCAAAACATGAAAATCCACCAGGAACTGATTCCACAATTTCCCCTTCTTGGAGAGATTTGACTTCTCAGAAGGGAAATCTATGTGAAACAATTGTAATTGATGATGAAGGGGACACAGACACAAATGGAGGGGAGGAGAAAAATCCTACCGACTTTATTGAATGGGGACCGAATGGAAATAAAAGTAGTACCAAAAATGTGGATTTCCCCATTGCCAGTCTATCAAGAAGCAAG
Seq A exon
GTAAATTCAGCAAGGGTTACTAATAGTATCATCTTTAGAAGCAGGTGTAAGCCCTAAAGGCTGGGTGAGAGAGGAATTTAATGATTGTACATCACCATAGAGTACCAACTTGGGAGATGTCACTAAAGGATTTAGTGCTAATATACAAACATACGCCTCATCTTTAACTTCACAG
Seq C2 exon
ACCAAGACTGCAGTAGGACCTTTTAATCCCGGTAGGATCGATGTCACGGATGCGTTTCAGAATGGAAGATTTGCAGTTCATCACAATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040123:ENSMUST00000173954:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.889 A=NA C2=0.871
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCACAATTTCCCCTTCTTGGA
R:
TCCGTGACATCGATCCTACCG
Band lengths:
254-429
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types