MmuINT1024309 @ mm10
Intron Retention
Gene
ENSMUSG00000029112 | Nkx1-1
Description
NK1 transcription factor related, locus 1 (Drosophila) [Source:MGI Symbol;Acc:MGI:109346]
Coordinates
chr5:33430734-33433976:-
Coord C1 exon
chr5:33433625-33433976
Coord A exon
chr5:33431591-33433624
Coord C2 exon
chr5:33430734-33431590
Length
2034 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TTCCTTTTCGCCGCCCGCAGGTG
3' ss Score
11.79
Exon sequences
Seq C1 exon
ATGGACGGACGAGCTGAGCTGCCCATCTTTCCCCGGGCTGGAGTGCCACCGCTCGCGGCCAGCGACACTGTTCCCGCGGTGCCAGAGGGGGCTGGAGCGGCCCGGCCCGCCGCGCCCCCGCGCCCCACCTCCTTCTCCGTGTTGGACATCCTAGATCCCAACAAGTTCAACAGTAGGAGACGCCGCTGCGTGCTACTGGGCCCTGTGGTGCCCGCTACGTGTGCCCCATGCGCCCCGGCCGCGTGCGTCGCGGTCCCCGCTGCCTCCGGACGTTCGCCGCGCGCAGAGCTAGAACGCCGAGCCCTCTCCGCCGCCACAGGAGTCGCAGCGGCCGCGGGAGCTGAGCCTACAA
Seq A exon
GTGAGTATAAGGGGTTGGTGATAGGGGCGAGGACACCGACTGCTCCGGAATGTTTATGCTCCCGGCGAGCTGGGCCTGACCCAAGCGCCGCCGGGCTCTGTGGAAAGTTCGCAGAGCGCGGGGTCCGCCCCAAGCATCCGTGGCCTCCTCCCGACCCGGACTCTAGGGCCCTCACTGCTGCACGCTTCTGGAAAGGTTCTGTTGGGCCAAATCTGGGGCCTTGGGGTTGCGACTACGGTCCAGGATTCATCTAGTCAATCTTTGGTGTTGGAGGGTAGTTGGTGCTGGAGGCAAAGGGACATGCGGCGACTGACTTGGTGACTTACCCACCCCCACCGTGGCCTTCCCGGCCCTCCCCCTTTGGACAAATCAGACTAATTGTGACAAAACGCTGGTTATCTCTGGAAAAACAATTAAATCCCTTCGATTACAGTTAAAGGGAAATGTGCTTAGCGGCGGAAAGCGGCCGGTAATGGGGCGGCCCGCGCCCCCTTTGCGGTCGATATCCCATTACGGCGCATGCATATCTCTTTCAAGCACCTTGCAAACTCCCCCCGAACATCTAAATTATAGGGTCAAAATTCGGATAATTACTCGATTAAAACCTATTACACTTATTAGGGGCCGCTATTGATCGCGAATTGCATTCGACCAGCTCCTGATTGCTTTTTGTGCCCCTCCCCCGTCCTCCTCTAACTTCTTGGCCCCTGCGCCTCTCATGGACCAGAACGCTCAGGGAGAACTGGACTGGGGCCGCCAGCTCTACCAACGCGGTTGCATTGACCTTCCGTTCCTAGAGAGAGGAAGGGCAGGCCATGCAGGCTGCAGTTGGACCCCTCTCTCCGCCAAGGGGTTGGTCTACGAGGAACTCGCGGCTGCCTGCTGGAGCTGTGTAGGGAGGGAGCGAGCGCTGCACAGTTGGGAGAGGGCAGCCAGGCAGGGCTGGGGCAGGGATGACTGGCTACGTGTCGCCTGAGGGAATAGTTGTCCTGCTAAGACCTGGGAGTTGAGGACAGGACACCCGCACTCTTCATGCGACCTGGGTCATTTGAGCTGGGTTATTTTCGAGTTGCGATTTTATGCTCCAGTATGTCAGCGTCAACTCGATCTGAGAGCTGAACACCGGCCCTGGGTCGGAAAACGTGGAGGCCTCCTCTGGCATTTAAAGACCACCTGTGGGTGAGGGGCATGAAAGGTCCTCAGATTCCTGCAGAGCAGACAGACAGCCTTGCAAAATTTCAGAGGCAAAATGCAGTCATGGCGGCAGCATCTCTCTGGATGCAGCGGGATTAGCGCTCATACTCCCTCCCAGGGCCCTGCTTAGAGGTTCACAATACGCTTTCCCAGCCTCCAAACTCAACCAGCCCACGGGAAGCTGGAGCCCGCTTAAGACAGAGTCGCTGGGGAGCTGGTTGGTGGGCCCCAGAGGTCCGCAGGGAAGTCAGCACTTTGCGACGCCTAGTTTTCAGGGCCTGAAGCCTGAGGTAGGGACAGCTCCCAGACGACCGATTTTGGTTTTCAGAAGTGGCCTCCTCACAGCCGGCCGACCCCACCCCAGGCCTCGCGCCCCTCCAGCTATTAACTGTGCGGTAATTGGCTGGCCCCGCGCCCGCTGTAATTGGAAGGTAATATACGCCCAAATAAATTAAATGGACTTTAACTAGTTTGTACATTACACAAAATGAGTTTAATTAAGTTTGTATCTGCCCCGTGAATCGATCGGAGCTCTTTCTCCGCTGTACACTCCGAGGGCCGCCCGCGCACCGCAGCCCTAAAGGCCAAGGCCAGGACTGCGGATGGGGCAGCAAAGCAGCTCGACACGGAGTGGGTCCTTCCGAAGGAAGGCAGAGAGGAAATGCAAGCAATCAAGGAGGAACTGTGGCAAGGAGGAAGAAAAAGAAAATCTTTGGTGAGGGGGCAAACGAGGAAGAGGAGAAACACAACAGTTAAAAGAGAATCTCTCCTGGGGCGGAGCGGGCAGGGCGGCTGGCAGCGGGCCTGACCCTCTGTTCTCTTCCTTTTCGCCGCCCGCAG
Seq C2 exon
GTGCTGGGGACTCTTACAGGGCGGACGAGGCCGAGGCCAACGGCTACAGCAGCGGCAGCGGTCGCAGCCCGACCGCGGACAGCGAGGATGAAGCGCCGGAGGACGAGGACGAGGAAGAAGCGCCCGAGGTGCAGGATGCTCAGGGCACGGAGGAGCCTCGGGGAGGCAGCGGCGGTCTCGGGGCCCGCGGGTCGGGCTGCCCCGGAGCGGCCGAGGTCGAGGCTTCCCCTGTGGACGATACTGCGGCCCCAGGGCCCCGTGGGAACTCGCCCGGAGCCCCGGGCCCGCCTGCAACTGCTACGGGAGCGGGGAGCGCGGGGAGTACCCCGCAGGGCGCCGCCGTGACCACCAAGCCCAAGCGGAAGCGCACGGGCTCGGACTCGAAGTCCGGGAAGCCGAGGCGTGCGCGCACCGCCTTCACCTACGAGCAGCTCGTGGCGCTGGAGAACAAGTTTAAGGCCACTCGCTACCTGTCGGTGTGCGAGCGCCTCAACCTGGCGCTGTCGCTGAGCCTCACCGAGACGCAGGTGAAGATCTGGTTCCAGAACCGCCGAACCAAGTGGAAGAAGCAAAACCCAGGCGCTGACACCAGCGCGCCGACCGGCGGCGGCGGGGGCCCCGGCCCGGGAGCGGGGCCCGGCGCGGGGCTGCCCGGCGGCCTCAGTCCGCTCAGCCCCTCGCCTCCCATGGGCGCTCCGCTCGCCTTGCACGGCCCGGCCGGGTACCCGGCGCACAGCCCAGGAGGGCTGGTGTGTGCTGCGCAGCTGCCCTTCCTGTCCAGCCCGGCCGTGCTGTCGCCCTTCGTGCTGGGCTCGCAGACGTACGGCGCGCCCGCCTTCTATGCGCCCCACCTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029112:ENSMUST00000173348:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.551 A=NA C2=0.705
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=WD(100=19.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
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
- 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