MmuINT0179856 @ mm10
Intron Retention
Gene
ENSMUSG00000055150 | Zfp78
Description
zinc finger protein 78 [Source:MGI Symbol;Acc:MGI:107783]
Coordinates
chr7:6371306-6373253:+
Coord C1 exon
chr7:6371306-6371396
Coord A exon
chr7:6371397-6373126
Coord C2 exon
chr7:6373127-6373253
Length
1730 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ATGTACTTGTATCATCTCAGGAA
3' ss Score
6.71
Exon sequences
Seq C1 exon
GTTGGACTTCCCAGGATACAGTTGTTCTCCAAGAGAGAAGCCAGGAGGAGGATAAGACATGACAGTTGAACTAATGAAAGCCATGCTACAG
Seq A exon
GTGAGTTTATGTCTGCTATCTTCCATGAGAAGGTTTTTTTTAATTAGGTATTTTCCTCATTTACATTTCCAATGCTATCCCAAAAATCCCCCATACCCTCCCCCCCACTCCCCTACCCACCCACTCCCACTTTTTGGCCCTGGCGTTCCCCTGTACTGGGGCATATAAAGTTTGCAAGTCCAATGGGCCTCTCTTTCCAGTGATGGCCGACTAGGCCATCTTTTGATACATATGCAGCTAGAGTCAAGAGCTACGGGGTACTGGTTAGTTCATAATGTTGATCCACCTATAGGGCTGCAGATCCCTTTTGCTCCTTGGGTGCTTTCTCTAGCTCCTCCATTGGGGGCCCTGTGATCCATCCATTAGCTGACTGTGAGCATCCACTTCTGTGTTTGCTAGGCCCCAGCATAGTCTCACAAAAGACAGCTATATCTGGGTCCTTTCAGCAAAATCTTGCTAGTGTATGCAATGGTGTCAGCGTTTGGAAGCTGATTATGGGATGGATCCCCGGATGTGGCAGTCTCTAGATGGTCCATCCTTTCATCACAGCTCCAAACTTTGTCTCTGTAACTCCTTCCATGGGTGTTTTGTTCCCAATTCTAAGAAGGGGCAAAGTGTCCACACTTTGGTCTTCGAGAAGGGGTCTTGATTCGCACTAAGTAATGCTACTTGGGAAATTCTGATCAATAGTCTGTTCCAGGGCTTAGCCATCCCTTCATCCATAAGACACTGTCCTTAACCTTAACTGCCTACTAGGTGACTAATAACTATGATAAGGTGTAGAGCCCACTCAGAACCCCATTGTTTTCATGCTTCGTATACACCCTTTTATGATGTAAAATCTAACTAGTTCATGGTCAAACCACCTTGGATGTGCGTCATTGGATCCTGAAAGTTAAAGAGGGTTGGGCCTGACTAGTTCTTAGATGAGAGACAGAGACTGACTATGGAGCCCAGCTGGCTTCAGACCTGTAGCAACCACCCTGCCTCGCGCTCCAGTGTAGAAGGATTCAAGGTGTGTACCACTATGCCTTGTCAGAAGACTGGCTTCCTTTTTACATCAGACAGAGGTATCTCAGTACTGGTATGAGTTGGGTTCCGGTTAGACGGACATGCAAAGCCCCTCCCATGAATGTTAGTCCAAGTCTCTTATAACATGGAGCTTGTAATTGGCATCTGAATTTGAGGCAGTCTTGTGATACCTGACACTGTTTGAGGAATGTGTGTGACGATTGGATTAGATTAGAGATCTTCCACCTGCTCCCCACAGTAGAGCTGGCTAGTTGCAGGTAGGCAGATCCTACATATTTTAATCATCAGAGATCATGGATGTTTTGAGAGTGTGGGAGGAGAAAAGGAGTGTTTTGTTGGTTGGTTGGTTTGTTTTTTGATATTCTCTCACTCATCATGAGTCATTTTACTCTTTTTCTTTTTGTTTTGAAATGGTAGGAGGTGGTGCAACATGTTGGCCAAGCTGGCTTTAAGCTCCTGGACAGAAACACCTTCTCATTTACATTTAATCCCTGTCCCACTCCCAGTCAACTATAGTTTGTTTTCTATCTACATATTTGTGCTTTCCAGACATTTCTAATAAGTGCAGTGGTGCAAGATGTAGTCCCCTGTGTCTTCTCTCCTTTAGCAACTGACTCCCAAGGGGAGCTCTTCCCTCTCCCCCAAACAAAAGAATAAAAACATAACAAAAATTTGCAAATGTACTTGTATCATCTCAG
Seq C2 exon
GAAGCAGTGACATTCAACGATGTTGCAATAGACTTTTCTCCGGAGGAGTGGGACTGGCTGAATCCTGCTCAGAGGAGTTTGTACAGGACTGTGGTGCTGGAGAACTACCGGAACTTGGTCTCTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055150:ENSMUST00000207347:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
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:
TGGACTTCCCAGGATACAGTTGT
R:
CCACAGAGACCAAGTTCCGGT
Band lengths:
216-1946
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