MmuINT1035729 @ mm10
Intron Retention
Gene
ENSMUSG00000046897 | Zfp740
Description
zinc finger protein 740 [Source:MGI Symbol;Acc:MGI:1915994]
Coordinates
chr15:102207771-102208361:+
Coord C1 exon
chr15:102207771-102207920
Coord A exon
chr15:102207921-102208235
Coord C2 exon
chr15:102208236-102208361
Length
315 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
TTCACATTTTATATTCCCAGATG
3' ss Score
8.12
Exon sequences
Seq C1 exon
GCAAGTCTTCTGGCTTGTGAAGGCCTAGCAGGTGTGAGTTTGGTTCCCACTGCAGCCAGCAAGAAGATGATGCTGAGCCAGATTGCCAGCAAGCAGGCTGAAAACGGCGAGCGGGCAGGTAGCCCTGATGTGCTGAGGTGCTCCAGTCAG
Seq A exon
GTACAGCACTTGAGTCCGTTGTGGTGCTCTGGGTTTGGGCGGCCCCAGCTCTCTGCATAGAGGCACCAAGCTGTGGCTCCTCTGGCTTTGCCTTGATTCTTCTGTTTAGGGAAGTGGGGAACTGGGATCCAGCTGGGAAGCAAGGAGTACGGGTATCTGGAGAGCCGAGGAAAGTTCTTGTGGTACCTGCAGACTCTTACTTAGACCAGGAGAGGGAAAGAGGAAGTTGATGCGTGGAGAGGAAGCAGGTGGTTTATCTCCTTTGCAAACTGTTTATCAAGAGACTGTGTTTGGTTTCACATTTTATATTCCCAG
Seq C2 exon
ATGGACTGTAAGCCTAGATTTGATTTGTCTTCAAAGGGCCACCGAAAAGACAGTGATAAATCCCGCAACCGCAAAGAGGATGACAGCTTGGCTGAGGCCTCTCATTCAAAAAAGACTGTTAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000046897:ENSMUST00000119800:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.728 A=NA C2=0.782
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGTCTTCTGGCTTGTGAA
R:
AAGCTGTCATCCTCTTTGCGG
Band lengths:
239-554
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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