MmuINT0167454 @ mm9
Intron Retention
Gene
ENSMUSG00000026803 | Ttf1
Description
transcription termination factor, RNA polymerase I [Source:MGI Symbol;Acc:MGI:105044]
Coordinates
chr2:28925412-28926896:+
Coord C1 exon
chr2:28925412-28925597
Coord A exon
chr2:28925598-28926817
Coord C2 exon
chr2:28926818-28926896
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-Ttf1:NM_009442:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Associated events
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: