MmuINT0178705 @ mm10
Intron Retention
Gene
ENSMUSG00000039634 | Zfp189
Description
zinc finger protein 189 [Source:MGI Symbol;Acc:MGI:2444707]
Coordinates
chr4:49521217-49522482:+
Coord C1 exon
chr4:49521217-49521595
Coord A exon
chr4:49521596-49522397
Coord C2 exon
chr4:49522398-49522482
Length
802 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TGGCTATGTTTCTTACTCAGGAG
3' ss Score
6.96
Exon sequences
Seq C1 exon
GAGTTGTAGTTGGAGCGGTTCCGCGAAGGCTCCGGGTAACGCCTTCTGGTCCGGGGGTGGTCGGTAGTAGTGCAGCTTGACTTTGAGGCGGAGGAATTGGCAACAAGGAGGAGATATTACAGGGAGACCCTAAGGCTAGGCAGCGGGACAGAGGACTGGGTTTGGGGTTGGAGGACAGCCAGACAGAACGTCTGATATGCCCCTAGGAACTTGACCGCTCCGAGACAGAGGCAGGACCACACCAGACCCATCCGGTGAGCCCCTTCTCGCCGAGCCTTATTTCCAACAGCCATCTAGGCCTCATCAGAGCCCCAATGTCGTGTGGCTGCTATTCCTGAACGAGGCGATGGCGTCCCCAAGCCCACCGCTGGAGCCAAAG
Seq A exon
GTGAGTTGCCCTTTCAAGAGATCTCCGTTATTTCGCCACTCCCAAGACAGCAAGGCCGCGCCATCACCTCTTCCCCTGTCCCCCTCCTGGCCATTTCTACAACTCTTAAGAAAGGACCCCAGTCAACTCCTGTGTACCCCTTGCTGCGGGACATACCCCTTGCTGCAAGGTGCTTTTAGTTCACTTACAAACTCCCCAAGGCCCCTTTTTCTTTTTTCCTTTCTTTCTTTTTTTCTTTTTTTCAAGAGTAACTTGATAAATCGGCTGGGGAAAATTAAGACTGCTCCAAGTTAGATCTCATTTATGAGTTTCTCAGGTGAGGCACTTTTTTCTTTCTTTTCTTCTTTTTTTTTTTTAAATCTCGTCTGTCCTCTGCAGCTAGCACAATGTCTGAACTCAAGGTGAGTGTTTAGAAAACCTAATGGAACTGCGTCGAATTGGGTCCCAAGCTGGTGTGGGTAGAAGCTTGGGGCGAACAGTGAGGCCAGGGAACGTTGGGGTGGTCTTAAGGCTGTTAACTAAAAACAGTCGTGGTATTAGTGTGTAATAACGAAAGCAGAGAAGACCTTCAGTTTGGAAGGCGTGGATCTAGACCAGTCCAGATCCTTTTCAGTGTGAGGTGCCATGAATTGAGCACCTTTTGGAACTCTTACTTACCGTGTTCCTCCTAGTGAATGGGAGCATGGTAAAGTGACAATAACTTCTCCCACTTTCAGTGGAGAGACCACTGGAACTGACTACAGAGAGAAAACAATTCCAGCAGTGGCTGACATTTGAGGCTATGGCTATGTTTCTTACTCAG
Seq C2 exon
GAGGAGTGGGGTTATCTGGATCCAGCTCCGAGAAGCCTGTATAAAGATGTCATGATGGACAGCTACGGAAAGCTGGTCTCGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039634:ENSMUST00000107696:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.172
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PU(0.1=0.0)
A:
NA
C2:
PF0135222=KRAB=FE(93.3=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TGGTCGGTAGTAGTGCAGCTT
R:
CTTCTCGGAGCTGGATCCAGA
Band lengths:
357-1159
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