MmuINT0160584 @ mm9
Intron Retention
Gene
ENSMUSG00000020694 | Tlk2
Description
tousled-like kinase 2 (Arabidopsis) [Source:MGI Symbol;Acc:MGI:1346023]
Coordinates
chr11:105108773-105110951:+
Coord C1 exon
chr11:105108773-105108909
Coord A exon
chr11:105108910-105110798
Coord C2 exon
chr11:105110799-105110951
Length
1889 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
CATATTCTTTATATTTCTAGGCA
3' ss Score
7.65
Exon sequences
Seq C1 exon
TCAAAACAAGAGAAGATGGCGTGCAGAGATAAGAGCATGCAGGACCGATTGCGATTAGGCCACTTTACTACTGTCCGGCATGGAGCCTCGTTTACTGAGCAGTGGACAGATGGTTATGCTTTCCAAAACCTCATCAA
Seq A exon
GTAAGTCAGCTGCCAGGATGAAGTGGAGGAACTTTAAATGTATTTGGATTTTTAAGGTTTTCTGTAATTATTGTTGGTTAAAAAAAAAAAAATGTAGGATTGCCAGGTGGTAGTGGCTCATGCCTTTAATCCCAGCACTCAGGCAGATGCAGGTAGGCAGATCTCTAGTTCAAAGCCAGTCTAGGCTACAAAGCAAATTCAGGCCAGCCCAGCTTACATGATGAAAACCCCTGTCTCAAAAACAAAAGAGACAAACTGTGTCTGTCTGTCTGTCTGTCTGTCTGTCTTGAGTTATATATCTAATACTGCTCTATTAACTTTATTTATTTTGATTTGTTAGGTCAGTTTCATCTAAGACTGGAAGATATGTGGAGGAGGCATTATATTCTTATTACTAATAATTTACTTATTTCCTGTAGTAAGGATTGAAACTAGGGTCTCCTGCTTGGTAGGCAAGCACTGTACCATTGAGCTAAATCAGCTGCATGTCCATTCAGGACAGTCTCTAACTTTTGACCTCCAGGTCACAGTTAGGACTTAGGTTCTCTTTCTCACTTTTCTCTGTTGAGATAGGTTGGTTAATACGAATTGGAGAGGAGAACATGTTACTACTTTTGAGTGACAATGAACCATAAAAGATTGAGTCCCGAAAGAAAAGTACAAATATTGATGCTATATAAATACCTATGAAACATCAACTTCAAACTTAGTTCAAGAGTATTTTTGCTTTGTAAATATACCAAATATGTGGTTGGTTGGTTGGTTGGTTGGTTGGTTGGTTTGTATGTATGTTTGTTTGTTTGTTTGTTTGTTTGTTTGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTTGAACTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTAGGATCAAAGGTATGCGCCACCACGCCCGGCTTTGTTTGTTTTAATAAGAAGAGGCTGTCACATCAGAGAATATCCAGAAAGTAGAGTAGCATCTTCCCTATGAGTGAGGCATACCTGTGCAGCTGAAGTGTACTAATACTAAGGCTGTCTGTCATACCAAGGCGTGCCATCCCATGACACCTTGACCAAGAAGCACAAATTGCCCGTTCTGTGTTCATGAGTATGGAGTCAGAGGGTAGTGCTACTCAAATCTCTTAATAGTGTAGCTTCAGCTGTATAATGTGCACAGACTGAATCTAAGATAGGATGGTTAGTTGCCAATTAAGATATGTAATGAGATTGTTTTAAAAATTCTTTAGCCAGGTGTGGTGCGCACGCCTTTAATCCCAATGCTTGGGAGGCAGAGGCAGGTCTTGAGTTTGAGACCAGCAAGTTTCAGGGCAGCCAGGGCTACACAGAGAAACTCTGTCTAGAAAAACAAAAATAAACAAACAAAAGAAACTTCTTAGCCAAACTAGTGCACTAGGCCAGTGTACTGTATATAGTTTTTCAACATTATTGTTGTATGGTAATTAACAGAGTTAATTTCAAGGCACTCAGGACTTCTCATAGGGTGGGCATTTCATACCAAGTTTTCCTAATGTAATACAGATTTTATTTTCTTAGCTTTTAAAAGGGAATCTGAAAATTGTTCCTTTCAAGTCTGTAAGGTCCTAGCAGGTATTTATTCACTTTCCCTTACCTTTCAGTCATCATCATAACTAGTTCCTTAAAGTACAGGCTCCTTCCAAAAACATTCCCACTGACTATGGGGCCCTTACCCTGAAGGCTAAGTACAAATCTCTATTCCATGAAGCACGCTTAGCACTCGTGAAGTCTGTCAGACATGCAGGTGAAAAGTTGTTTGCATGAATTCCACAGCAGTGGAATTTATTTACCTTCTGTGTCATATTCTTTATATTTCTAG
Seq C2 exon
GCAACAGGAAAGGATAAATTCACAGAGAGAAGAGATAGAAAGGCAACGGAAAATGTTAGCAAAACGGAAACCTCCTGCCATGGGTCAGGCCCCTCCTGCAACCAATGAGCAGAAACAACGGAAAAGCAAGACTAATGGAGCTGAAAATGAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020694-Tlk2:NM_001112705:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.386 A=NA C2=0.962
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAAACAAGAGAAGATGGCGTGC
R:
TCATTTTCAGCTCCATTAGTCTTGCT
Band lengths:
286-2175
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: