MmuINT0178442 @ mm9
Intron Retention
Gene
ENSMUSG00000022335 | Zfat
Description
zinc finger and AT hook domain containing [Source:MGI Symbol;Acc:MGI:2681865]
Coordinates
chr15:68000277-68001785:-
Coord C1 exon
chr15:68001698-68001785
Coord A exon
chr15:68000427-68001697
Coord C2 exon
chr15:68000277-68000426
Length
1271 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCACCCTGCTTTTCTGACAGAGG
3' ss Score
8.03
Exon sequences
Seq C1 exon
GACAAAAGGAGTTATTCTTGTCCTGTATGTGAAAAATCATTTTCAGAAGACCGATTGATAAAGTCACATATCAAGACTAATCATCCAG
Seq A exon
GTAAGGTTATGAATTTAAACGGAAGATTAATTTTTAAATAGTTATGTCTATTTTAAAACATAATACTGTAGTAAGCAGTACCAGCTTAGAATGAAGAGGGAGGCTTGAATTAATTCATTATTTGAAATGTTCTTGCCTTCAGAAGCCCTTTGTTGGCCTTGCTCCACCCAGTACTATGGTAGGTATGCTGGCCACAAACCCGCCAGGAAATGTCAGTTTTACTATCATGTGATCTTTGAGGTAGATCTTAGTGTCAGACTCCATTGTCATATTAAGTAGAGCAGGCAGAGCGGACCTGGGTTCTCTGTGTTACTTAAATAATTAGCAAGCAAAATATACCTCCTTCTCAATCCCTGTCTCTTCTTATTGACAAATTAGTGTGTGCCCTTGATAGAGGAGAATGGCCTAGTCTGTGAAGAGCAAAGGGCTCTCACAGTTTTAGCTGGGGACAAGGTGAGCCTTGAACCTTTGTCAGTATGGGAGCTCATGGCTTAGGTTGTTTGTTCTATGTCACTCTAGTGTGAGCTGACTATATCCTTTAAGAGCACTGACCTTTGATCATGAATACAGAATTACACAAGGAACCCCGCGTGTCCAATCTCAGCTTCCACGTGCTTCTAATACATTTCCAAGCCCTTTGTATGTATCCACCCAGGGACTTTTTCTTCTAGAGTATTTTAAAGTTTAGCTCACTTAAGTTTTCTATGAAAGACTATACAGGTTATCTCAATAAATAATGGTTTTGCTTAGCATGACCTCTGTGTGACCTATAAAAAGCAGCGCTAACCATGATTCTTACTGCATCCTAAGATATTTATTATGTATGGTCATTTAAAGTATCCTGGGTTGATATGAGATTTTTTTTTTGTATAGTTTGTTTGAATCAAGCTGCAGTATTTTAGTATTTAGTACTTTATATTATTTATGTTCCTTGTAGTCTGTAGAGTCCCCAGTCTGCAGTCTGTTTTCCACACTAGTGACTTCTGGGAGAAACTGAGTTACTTTTCCTATGAAAAGCCTGTGTTGATTTGTCTGGTCATTGCCTTGCAGTGTTTTCTCTGTTCTTCATACTAAAGGTTAACAGAGTCTTAGATCACGGCTTGATCAGATCCAAGTTTAGCTTTTTCAGTAAAAACACTGTCTCATGACACCAAGGAGGCACTTGATGGACATTTCTTAGGTATGCAGGTGCTCCACTGAAGTTTATTTACCTCACACCTGAAGAGCAAAGTGCCGCATCCCCTCTGATTACCACCCTGCTTTTCTGACAG
Seq C2 exon
AGGTCTCCATGAATACCATTTCTGAGGTTCTTGGGAGAAGAGTCCAGCTCAAAGGGCTAATTGGAAAGCGAGCCATGAAGTGTCCATATTGTGATTTCTATTTCATGAAGAATGGCTCAGACCTTCAGCGGCACATCTGGGCTCATGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022335-Zfat:NM_198644:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PD(53.6=50.0)
A:
NA
C2:
PF134651=zf-H2C2_2=PU(38.5=19.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAAAAGGAGTTATTCTTGTCCTGT
R:
CCTCATGAGCCCAGATGTGC
Band lengths:
238-1509
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: