MmuINT0179171 @ mm10
Intron Retention
Gene
ENSMUSG00000024276 | Zfp397
Description
zinc finger protein 397 [Source:MGI Symbol;Acc:MGI:1916506]
Coordinates
chr18:23956339-23957196:+
Coord C1 exon
chr18:23956339-23956853
Coord A exon
chr18:23956854-23957054
Coord C2 exon
chr18:23957055-23957196
Length
201 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TTATATTGTACTGGTTTCAGGTC
3' ss Score
7.49
Exon sequences
Seq C1 exon
GAAAGAAGAGGTTACACCTGGGCCCCGAGAGGCTCTGGAAACTCCTCCCCAAGCACAAAACCCAACTGTACTAAGCTTTTTGTGAGCTATTTCAGCCCAGAATGGCTGTGGAATCCAGAGCAATTTCAACTTTAAAACCTCAGGACCATCAAGAAGAATTAATACTAGTGAAAATAGAAGATAGTAGCTTTTCTTGGAGTCAGAAATGTAAACAGAATGGGAGTGCCCAATCTTGCCAAGAATTATTTCGCCAGCAATTCAGGAAGTTTTGCTATCATGAAACACCTGGGCCCCGAGAGGCTCTGGGGCGACTCCAGGAACTTTGCCATCAGTGGCTAATGCCAGAGTTGCACACAAAGGAGCAGATCCTAGAACTGTTAGTGCTGGAGCAGTTCCTGAGCATCCTACCTGAAGAGCTGAAGATATGGGTTCAACAACATGGTCCAAAAAGTGGTGAGGAAGCTGTGACTCTACTGGAGGATTTGGAGAAAGAGTTTGATGATCCGGGGCAGCAG
Seq A exon
GTGATGTGTTTGGGGGAAAAATTGCAGCCCTAGATGTAGTATCTTTGCTGGTTAAAATGTTGTCTCTGAGGAACCGTGACCTTGATGTCCCAGTAGCACATCTTTACCTCTTCAACCTTTTTCCTCCCCATCCTTCATTTGTGGCACTGGCCTTATTATAACCATGTAAGATTCCTACTAATTATATTGTACTGGTTTCAG
Seq C2 exon
GTCCCAGATAATCTACAAGGACCGTCAGTGTCATGGAAAGATTTGACATATCTCAAAACATCCCAAGATTCAACCAGCATCCAAGTCCGGCCTTTGAAGACACAGCTGAAATCCTGGAATCCTTGCCTTTCCTCTAAAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024276:ENSMUST00000060762:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.177
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(97.9=68.1)
A:
NA
C2:
PF0202312=SCAN=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGACTCCAGGAACTTTGCCAT
R:
TTCAAAGGCCGGACTTGGATG
Band lengths:
305-506
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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