MmuINT0167450 @ mm9
Intron Retention
Gene
ENSMUSG00000026803 | Ttf1
Description
transcription termination factor, RNA polymerase I [Source:MGI Symbol;Acc:MGI:105044]
Coordinates
chr2:28939053-28940334:+
Coord C1 exon
chr2:28939053-28939138
Coord A exon
chr2:28939139-28940156
Coord C2 exon
chr2:28940157-28940334
Length
1018 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
GGCTTATACCTTTTCTGCAGAAA
3' ss Score
7.62
Exon sequences
Seq C1 exon
GGATGTCCCTCCACCTTTTGTTCAGGCAAAATTTTATAAGCTGAAAGCTGCCTGCGTTCCCTTTTGGCAGAAAAAGACTTTTCCAG
Seq A exon
GTCAGTATACAAATCCTTGTTTAGTTAAGAGTCTAGTGTTGTCCCAGTGTGGTGATCCCAGCAATACAGAGGCAGAGGCATCAGGATCTCTGGGAGTTTGAAGCCAGCCTCTACTATACAGCGTTACCCAAGCCAAATGAGATCCTGTCTCCAGAGTCTCCACCCCTTCAGGCTGAGCCCAGGGCTCTGACAGGTTCTCAGGGCAGTGTGCTGTGCTCTGCTGCCTCATAAAGGTGGTATTCCTGGAGCCACAGGCAGGGGCTCTGTCCTGAAGAGTGTCCTGAAGCGCTGTTGTATACTGTGCAGACACCACCACCTAGCTCACCTCCTCCTTGGGTCCATGACTAGTGCCTCAGTGTCCTTATTGCACAGGTCGATTAGAGGGAGCTGGGGAATTGTATCAGTGAAGCGTTTTTTTGTTTTGTTTTTTATTTATTTATTACATGTAAGTACACTGTAGCTGTCCTCAGACACTCCAGAAAAGGGAGTCAGATCTCATTACGGGTGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTTCGGACCTTCGGAAAAGCAGTCAGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCCAGTGAAGCATTTACTATGCAACTGTATATGTACATGTGAAGCTGGGCGGTGGCAATGCACACCTATGATCCCAGTTCTGTAGAGACAAAGACAAGACTCTAGCCGAGTCTAAAGGACTGTCCGGTCTGGAGAAGTAAGGCAGAGAACAATTGAGGAAGCACTGACATCAGCCTCTAGCCTCCACACAGATGTGGGCTTGTGTGTACATGTGTGTACACAGAGACATGTACATTGGAGAGTCACCTGTGCTGCTGCTGATGAAAGAATAATGTCTGCCTTGTAGGGTTTTTTTCAAAGAATATGTAAGTGACTGTGCACCAGATAAATTGGATCTTCCATGTGCTAAAAGGTGTGGTTCATTATTGTTAAGGTCCTGCAACCTTTGACCTTAATTAGAGGCTTATACCTTTTCTGCAG
Seq C2 exon
AAATCATTGACTACTTATATAAGAACAGTCTGCCTTTGCTGAAGGAAAAGTTAGACAAGAAAATGAAGAAAAAAGACGGCCAGATCCAAACACCTGCAGCTCCCAAACAAGACTTTCTGTTCAAAGACATCTTCCATTGCGATGATGACAGTGATGAAGGGAGCCCAGAGGAGCCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026803-Ttf1:NM_009442:10
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=0.250
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGATGTCCCTCCACCTTTTGT
R:
CTGGGCTCCTCTGGGCTC
Band lengths:
264-1282
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: