MmuINT0178952 @ mm10
Intron Retention
Gene
ENSMUSG00000047473 | Zfp30
Description
zinc finger protein 30 [Source:MGI Symbol;Acc:MGI:99178]
Coordinates
chr7:29788049-29789436:+
Coord C1 exon
chr7:29788049-29788175
Coord A exon
chr7:29788176-29789337
Coord C2 exon
chr7:29789338-29789436
Length
1162 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
TTCTGCTCTTTTCTTTCAAGCAG
3' ss Score
7.34
Exon sequences
Seq C1 exon
AGTACGGTGATGTTCAGAGATGTGGCTGTGGGCTTTTCTCAGGAAGAGTGGGAGTGCCTGAGTGCCTACGAGAGGGATCTGTACAGAGATGTGATGCTAGAGAACTACAGCCACTTGGTGTCACTGG
Seq A exon
GTAAGCTCATCTGTATCAAACCACATTCCCAGAGCTGACATTCTAACTGCAAAGACCCTCTCTTTGTGGTTTAGAATGGTCACCTCTGTGAAATACTTTTATGGTCCCACAAAACAGAAATACATAGTTATAATTTAACTTTGATAAAATAACCTTTATAAATATAACATATTTTATATAATTATAAATTATATAACATAAAATGTATAAAACGTATAGCTTATAAGTTTTATAAAATAAAACTTTTATAAAAATAACTTTTAAAAGGGTGGGGTAGTAAACAAAAAATTGAAGTCTGGCTCTGCCTTTGAGCCTAAAAGAATCTAATTTTAATGTTTTTCCACTTGGTAGCCATCTTAGTTTTGAAGACTTGATTAAATAGAATTTTTAAAGTATTTATTTGTTTGTTTGTTTGTTTGTTTATTTATTGTAAGTACACTGTGGCTGTCTTCAGACACCCCAGAAGAGGGCATTGGACCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGCAATTGAACTCAAGACCTTTGGAAGAGCAATCAGTGCTCTTAACCACTGAGCCATCTCTCCAACCCTAAAAAGAATCTTTCTTTTGGTCCTGGAGCGATGTCTCAGAGGCTAAGAGCACTGGCTGCTTTTGCAGAAGACCTAGGTTTGGTTTCCAGCATCCACATGGCAGTTCACCACCACTGCAACTCCACTGCCAGGGGATCCAACGTCCCCCTGTAGCCTCTGAGAGAACTGCATGCACATGGTGCACATGCGGGCAAGACACCTAAATCCACAATAAAAAGTAAAAAACTAAATTCAACAGCTGGGCATGATGGCACACGCCTTTAATCCCATCACTCAGGAGGCCAAGGCAGGCCAGTCTCTGAGTTCAAGTCCAGGCTTGTCTATAGAGTGAGTTCTAGGATACCAAGGCTACACAGAGAATCCTTGTCTTGAAAAACAATAACGATAATAATAATAATAACCTCTGTGTGTGCCTACCCACAAGGTCTTGTGTGCTTCATCTTGAATTCACTGTGTAGCCATGACACCGAACCCCTGATCCTTCCTTCATCTCCTAAGTGCTGGCGTCACAGCTGTGTATCACCCCCACCTGGCAAATAGATCCATTCTTTAAATAAATTCTGCTCTTTTCTTTCAAG
Seq C2 exon
CAGGATGTTCCATTTCTAAGCCAGATGTGATCACCCTGTTGGAACAAGGGAAGGAGCCGTGGATGATTGTGAGGGCTGAGAAGAGAAGGTGGAGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000047473:ENSMUST00000032803:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
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:
CGGTGATGTTCAGAGATGTGGC
R:
CTCGGCTCCACCTTCTCTTCT
Band lengths:
222-1384
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