MmuINT0167457 @ mm9
Intron Retention
Gene
ENSMUSG00000026803 | Ttf1
Description
transcription termination factor, RNA polymerase I [Source:MGI Symbol;Acc:MGI:105044]
Coordinates
chr2:28930094-28934998:+
Coord C1 exon
chr2:28930094-28930328
Coord A exon
chr2:28930329-28934908
Coord C2 exon
chr2:28934909-28934998
Length
4580 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
GCTTTTCTTTCTCTTAATAGGAC
3' ss Score
11.63
Exon sequences
Seq C1 exon
CTAGAAACCAAGGTGCTTGGAGTAAGGCAGAAACCCAGAGGCTAATCAAGGCTGTGGAGGACGTGATCCTAAAGAAGATGTCTCCCCAGGAGTTAAGAGAACTGGATTCTAAACTCCAGGAAGACCCTGAGGGTCGCCTGTCAATTGTCCGGGAAAAACTCTACAAGGGCATATCTTGGGTGGAGGTGGAAGCTAGAGTGGAGACCCGGAACTGGATGCAGTGCAAAAGTAAGTG
Seq A exon
GTAAGTGTGAGGCTTCCTGTGTACGCCCAGTAGGGCTCTCATTTGTATGGCCTGGGCAAGAAGTGCAGTATCAGGAACACTCCAGCACCCCCTGCACCTCCTTCTCCTAATGTGCCTTGATTGACAGTGTGCGGTGTGCAGTAGCTTCTGTGCTCGGGTTTATTTCTTCCTCCTTTGGAACTTAAAGACTGGCTTGGTGGTGCACACCTGTGAATCCAGTATGCAAGAGGTTGAGGCAAGAGGATCGCAAGCTCAGGACCAGCCTGAGTAGTAGACTAGCTGGACGTGTGACTCTTGACTACATCTTTCTACAGCTTGAGGTTGGCAGGTAGAATTTTTTTTTTTAAATTAAAACAGCTTCTCCATACCTTATAGTGTGCTGAATAGCAACCCAGAAGTTAGAGTCTGCAAGACTGAAGCAAATGACAGAAATTGAGAAAGAAACCCAAGGACGTTAGTGCCTTGTGTCTGTACAGTTGTAGATCAGCAGCTGCTCTGGGCTCCACTGCAACGCAGTAGTTGTAGTCATACTCTGAGCTAGGTAGGCAGGTTCTGTTCCTCTGTCTGCATATTCCTTACCTGCTCTCACTTTCCAAAGTCCTGGAGGATTGAGCCTGCACGTCCAGCTACAGCTTGACTGAAGCAGTGGTTCCTCATGGTCTGGCCCACACTGTCCACAACACTCCATGATCTCACTGACCAAGCCAGCTCAGTCAGCCAACAGGTTTTCCAGGGAGGGATCGAGGATTAAAAAGAAAGAAATAGACAACACTATTGCATGACCCCAGCCACTTCTGAGGCTGAAGGGGCTTATTTTTTCTCAGTCTGATTTTATACCACTTTAAGTACATGCAAAATGATATCAGTTCTGGGACAAGGAACAAGCAAGGCAATAAACAAAATCCCAGAAACACTATTTCTAGGAGCTACTCGGGATGACCAAGACAAAAGGAATGCCATGCGTGCCTCAGCTGAGCCCACTCTGAGCTTTGCATTAACTCAAATGTAAATATTCTTAATCTGAGCCTATTTCCTGAGTCCCAGCCCAAAGTCCGATTCCCACCGAGTTTTTTTTTTTTTTTTTTTTTTGTCCTGGCCCAATGTCAAATTCCCGCCAAGTTTCTAGAAGTGGCCCCAGAAGCTCTCCACACCTTCCAAATGAGGGTAAAATCCATTACAGTAAATACTTTACATTAAAAGTAGACTGTGCCGAGCCGGGTGTAGTGGCGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGGATTTCTGAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCAATACAGAGAAACCCTGTCTCGGAAAAAAAAAAAAAAAAGACCATGCATCACACTGTCCACACAACTTTCAACTCTGCTTGGGATATTGGGTGCTTTGTTTGAGTTTTATTCTGGGGATCAAACACAAGCTACAAAAGCACTCCAGCACTAAGCCAAGCTCCCAGTCCAGTGTGTGTTTATCAGAAATTCCAGAGAACAGCTAGTGTTGGAAGTATGTAAAGTATGGAGGAACTGGAACCCTTTCTTCTCGTATTTTAGGGTGAAGAGGGGAGTAGACTGGGCCTCAGCTGGAGGCTGATGGGTCAGTGTTGGAAGGGGAATGATGGAGGTCTGACTGTGCTGCTGCAGAACCAGCATGAGATGGGCAGGGTGTGTTCAGTATGAAGAGAGAAAAGGGCACCTCAGCCCCCAAAATGAGCTCAGGCCCAGCCTCTAAGTAGAGCTTGGGAAGAGCAGTGTGGGTTAGCTCTCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTATGCATGACAGTACAATCCTGCCATCCCATCACTAAGGAGGCTGAAGGCAAAGGGCCTTTTAAGGGCAGAGGGCCTTTCAAGGCCAAGACGGACCCACAGAGGAAGACATTGATTGAAAACCAGAAGGCAAGGAGGGGAGAGGGAAGGTGAGGGAAAGTGTGTCGGTAGAAGTGATCTGTCAGGCTGCTACTGAGCTGTGCTCTTTGAGAGCACTCCTGTTCTGTATTCTGACTGTCAGTGCTCAATGGGACACAGACTGGCAACCCAAACTCCAGCCCCAAGCTGCAGGCTCCAGGAGTCAGCATGTGAGTTCTCAGCAAACTTGGCATTGGTGTTCAGAAGCTAGCAATGGGAGCAAGAAAGCCACCTGTTTTGTTATTTGTTTGTTTTTAGATTTATTTATTATTTGTATGTTTGAGTGCTTTGCCTGCGTATATGTCTGTGTACCACATGCATGCTTGGTGCCCTCTAAGGGCATAAGAGGGCACTGGAGTTCCTAAAACTAAAGTTACAGTTGTTTAATTGCAGGCTTTTCCACCTGTGCCCCAGTTCTAAAATAAGAGCTCTGAGATGTAATTATATACGACTAGATGTTGAGGCCATAAGCTTGGGCTTCTTCCCCAACTAACTCATAGCTTAGTTAACCTGCTTAGTCTATTCTGTGAGTGCCACATGGCTGGTTACCTCTTCTCAGTTTTCCTAAGCATTTGGGGTAAATCTCTTCCCACCTGCCTTAGTCAGGGTTTCTATTCCTGCACAAACATCATGACCAAGAAGCAAGTTGGGGAGGAAAGGGTTTATTCGGCTTACACTTCCATGCTGCTGTTCATCACCAAAGGAAGTCAGGACTGGAACTCAAAAAGGTCAGGGAGCAGGAGCTGATGCAGAGGCCATGGAGGGATGTTCTTTGCTGGCTTGCTTCCCCTGGCTTGCTCAGCCTGCTCTCTTATAGAACGCAAGACTACCAGCCCAGAGATGGTCCCACCCACAAGGGGCCTTTCCCCTTTGATCACTAATTGAGAAAATGCCTTACAGTTGGATCTCATGGAGGCATTTCCTCAACTGAAGGTCCTTTCTCTGTGATAACTCCAGCTGTGTCAAGTTGACACAAAACTAACCAGTACACCACCTGACTCTATCCCAGAGTTGTTCTTTCCCTACTGGAACTCCCACCTCCTATTTCCTGCCTCAGCTCATTGACCAATCAGCTTTTTATTGACAGGTAATGCTTTCATACAGTACACAAGAGATTCTCTCCACACAGTTGTGAGCCACCATACTAGTACTGAGAATTGAACCCAAATTCTCTAGAACAGCCAATGCTCTTACCTGCTAAGCCATCTCTTCAGCCCCAATAGCCATTTATAAACAATCACAAGAGCATTTGCATAGTGTCTTCAGTGCCTATAAATAAATAGGCTTATTCCATTTCTCTCAAAAATTCCATTTCCTTTATGGGGCTAAAGAGATGTCCTAGTGGGTAAAGCATGAGGACCTGAGTTCAAATCTCCAGCACCCATGTAAAATAAAAGCCAGGTGTCTGTAGCCCCAACACTAGGGGTGGGATGGGAGCTGGAGGCAGATCCCTGGAGTTCTTTGATTTTCCCTGACTCAACAGTGAGTAACAATAAGGTAGAGAGTAGTAGAGAGGGACAGCCGGTGCTCACCTCTAGCTCCACCACATCCTTGAGCACACACACTCATGCAGCTTCTCCCAACGCAAAGAAACCAAACCCCTCTGGTCAAGACGTTGTCAGGTCCTAGCTTGTCACCTAACGGATACTGCTTAACAGGAAAGTCATGCACTCTGGGAAGAGTAACAAACAGTTCCAGGGTTACACGTTGGCTCTGTTACTAGCAGACATATTACGTTCACACCTGGCCCACTAACTCCACAAGCCCTGTGTGTTTTAACTCAAGTAGGGACAGCAGTGTCCCTCCTGGTGCAGTCTTCCAGCGCAGATGCCCACTTCTGTAAAAGCTTCACGTCCTGCAACACCAGCAGTTCAGAATGTTCTCATTAGTCCACAATTAATTGGGTCTAAAAACAGTCTTATTTCCACTAATACGATATCACGAAGTACAGCTGGTGAGTCAGCAGAGGAGCTGAAGAGAAAACATGGAGGCGAGAAGGACGGGCATGAGGGGAATGTGTGTAACTTACACTTGATGCAAACAAAGGCCATTGTACATGGAAGCCAGCATGCTGAAGGTTTTAAGCTGCATCATAAAAATAGTATTGATAGGTATACTGTGCTTTTCAGCTGAAACATTCCACTTTTATAGAGCTAGTAATGATTTTTCATCAATCTTCATGAGTAAAACCAAAAATTGTCATTTATCAATTTGAAAAACAATTTCCGTTATACAAATTTCATACCACAAAATAGACTCTCTCATGCCCATTATCCACATTAAAAAATGATGACCACTTTATCAATTTATTTATTCCTGCCCAGTGAATGAGAGCAATTTATGTGATAAAAATATAGAAAAGTTGTACTTTTTTAGATATTTATTTTATGCATATGGGTACACTGTTGTTGTCTTCAGACACAGCAAAAGAGGGCATCAGATTCCATTAGAGATGGTTGTGAGACACAATGTAGTTGCTGGTAACCTGAACTCAGGTCCTCTGGAAGAGTAATTGGTGCTCTTAACTGCTGAGCCACCTCTCCAGCCCAGAAAGTTGTACTTTTAAAACTAAAATTAAACAATGCTTTTCTTTCTCTTAATAG
Seq C2 exon
GACAGAGATTCTTACCAAAAGGATGACCCATGGTGGGTTCGTGTATCGTGGGGTCAATGCTCTACAGGCCAAAATCACCCTTATTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026803-Ttf1:NM_009442:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.038 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139211=Myb_DNA-bind_6=PD(24.1=17.7)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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: