MmuINT0178952 @ mm9
Intron Retention
Gene
ENSMUSG00000047473 | Zfp30
Description
zinc finger protein 30 [Source:MGI Symbol;Acc:MGI:99178]
Coordinates
chr7:30573068-30574455:+
Coord C1 exon
chr7:30573068-30573194
Coord A exon
chr7:30573195-30574356
Coord C2 exon
chr7:30574357-30574455
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-Zfp30:NM_013705:3
Average complexity
IR-S
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
Rat
(rn6)
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: