MmuINT1034084 @ mm10
Intron Retention
Gene
ENSMUSG00000026803 | Ttf1
Description
transcription termination factor, RNA polymerase I [Source:MGI Symbol;Acc:MGI:105044]
Coordinates
chr2:29069892-29071376:+
Coord C1 exon
chr2:29069892-29070077
Coord A exon
chr2:29070078-29071297
Coord C2 exon
chr2:29071298-29071376
Length
1220 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TGTCTTCCACCTCTCTGCAGGGA
3' ss Score
11.52
Exon sequences
Seq C1 exon
GTGTGGCTATTAGATTTGGCAAATTTTCTGCTAAAGAAAATAAACAAATAGAAAAAAATGTGCAAGATTTCCTATCCCTGACTGGAATTGAGAGTGCAGACAAGCTGCTGTACACAGACAGATACCCAGAGGAAAAGACTCTGATCACCAACCTAAAACGGAAGCATGCCTTCAGACTGCACATTG
Seq A exon
GTAAGTGGGGGAAGAGACCCAAGCCGCCCTCAGCCTTCCCACAGCTGCCTGCAGCCCTGTGGTGAGGAAGTCCTTCCTCTGAATCCCATGGATTTCCCTGTCTCTCAAGAGTAGTCCTTCAATGGATTTTGTGAAAAACTGATTTTCTATCCTGTCCATTTGGCAGTAATTATGCCTTCAGTTTCTTTACCTGTCTGTCATTCCTTCCATGCATTATGATCTTCCAAATGAAGTGCTTTGAGCCAAATCCCTGCTCGAGGGCTGCTGAGAGAGTTAGGAGCTCAGTGGGCCTCCCACCAATGACCCCATGCCCAGAAGTTCATGGAATACAAATTGTATACAGCGGAGAGAAGAGAGGAGGAGGTGGGTCATGAAGGAGGCAGGGAAAGGAGTTAAGAGTGCATATGATCAAAATACACTGCATAAGATTTATTGACTTATTATATACACAGTGTACCACCTGCATGTATTCCTGTAGGCAGAAAAGGGCACCAGATTACATTACAGATGGTCGTGAGCCACCATGCGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCTGACAGTGTTCTTAGCTTCTGGGCCATGTCTCTAGCCCCCCAAAATATTTTATTTTATTTTTATTGTTTTCATCTTTTTGAAGGGTTTCTCTGTGTATCGGGCTATCGTGGAATTTGCTTCGTAGACCAGGCTGGCCTTGAACTCAGAGATCCACCTGCATCTACCTCCCAAGAGCTGGGATCAAAGGTGTGCACCACCAAGTCTGGCAAAAGATGTATTTTTAGAAAAGATCAATAAGTGGTAACAGATCCCTCATGAAAGAACCACTTTTGAACTAGAAGATAGTAATCTCACAAGTGTTTTCAGTGTACACAGGGAGGCAGGGGCAGGAGAAGGCTCTCTGGAGAGAGGGAGGTAGGGAGGCTTGACTGGGAGATAATGAGCTTGGTGCCTCTCAGATGATGTTGAAGTGGCAATCCGGTGAGTGGATCTGCAAACCCAGCGTGCACTGCTCCTCAAGGCAGTGTTAACTGTACCTGTTCTGACAGCGCAGGCGCATGAAGCCCCAGCATGCCTCTATGTCCAGCATGCCTCTGCACACTGCTGCACATGACTTAACCATGTCACGCAGGGCTCCAGTAGGTTCCTTTGGTGTTTGTGACCATCTCACGTTGGCCACATGCCACCTCTCTGACTGTCTTCCACCTCTCTGCAG
Seq C2 exon
GGAAGGGCATCGCTCGGCCCTGGAAGCTCGTGTACTACCGTGCAAAGAAGATCTTTGATGTGAATAACTACAAAGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026803:ENSMUST00000100237:4
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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:
GTGTGGCTATTAGATTTGGCAA
R:
CTGCCTTTGTAGTTATTCACATCA
Band lengths:
265-1485
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