MmuINT0087682 @ mm10
Intron Retention
Gene
ENSMUSG00000055148 | Klf2
Description
Kruppel-like factor 2 (lung) [Source:MGI Symbol;Acc:MGI:1342772]
Coordinates
chr8:72319426-72321656:+
Coord C1 exon
chr8:72319426-72320242
Coord A exon
chr8:72320243-72320743
Coord C2 exon
chr8:72320744-72321656
Length
501 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
GTCATTCCTCTCTGATGCAGGTG
3' ss Score
9.83
Exon sequences
Seq C1 exon
CGCTGGCCGCGAAATGAACCCGAGGCGGGCGGCACGGATGAGGACCTAAACAACGTGTTGGACTTCATCCTCTCCATGGGATTGGACGGTCTGGGCGCCGAAAATCCTCCCGAGCCCCCGCCGCAGCCCCCGCCGCCTGCCTTCTACTACCCGGAGCCGGGTGCTCCGCCGCCCTACAGCATCCCCGCGGCCAGCCTGGGAACAGAGCTGCTGCGCCCCGACCTGGACCCGCCTCAGGGGCCGGCTCTGCACGGCCGCTTCCTCCTCGCGCCTCCCGGGCGGCTAGTGAAGGCCGAGCCCCCCGAGGTGGACGGCGGCGGCTACGGCTGCGCTCCGGGCCTGGCCCACGGACCGCGCGGGCTGAAGCTCGAGGGCGCCCCAGGAGCGACAGGTGCATGCATGCGGGGTCCCGCCGGCCGCCCCCCGCCGCCCCCGGACACGCCGCCGCTCAGCCCCGACGGCCCCCTGCGCATCCCGGCGTCCGGTCCCCGCAACCCGTTCCCGCCGCCCTTCGGTCCCGGCCCCAGCTTCGGCGGTCCCGGCCCCGCGTTGCACTACGGGCCTCCCGCGCCTGGCGCCTTCGGTCTTTTCGAGGACGCGGCGGCAGCGGCGGCGGCGCTGGGCTTGGCTCCACCTGCCACGCGCGGTCTCCTCACGCCGCCCTCGTCCCCGCTGGAGCTGCTGGAGGCCAAGCCCAAACGCGGCCGCCGCTCCTGGCCCCGCAAGCGCGCCGCCACACATACTTGCAGCTACACCAACTGCGGCAAGACCTACACCAAGAGCTCGCACCTAAAGGCGCATCTGCGTACACACACAG
Seq A exon
GTGGGCGCCTGGCCTCATTCCCGGGATCTGCGGCAGGGGGATGGCCGCGAGTTCAGGAACAGGCTAGGTTACAGAGGAAGACCCTGTCCATCCTCCAGAAGGGAAATGGATACTGTCCCCAGAGTCTATGACACTGCCAAGGGGGTGTGGCAGTTTAATGGGTTGGCTCCGAGGGACTCAGGTCTCAAGAATTCGGGACATAATTAAGAAGCTGTGGAGGGCTGGGCTGGGGCTTAGCACTGCATATAAAGTTTGGCATGGTGGCCTGAGCCTGTCATCTCAGTACTGAGCAGAAGAATCAGGAATTCAGACCTAATCTCAGAATGTTAGGGGAGGAATGCACCTGAGCCTGCTAGTGGTCAGCTTCAGGAGCCCAAGGTTCTCTGTTTAGATTAGATGTGGGATGGAGATGAGAGGGAGAGGGCAGTGCTATCCGGTGCAGGGTGCCCAGAGCAGGCTTTCGGGGAAATTGAGGCTCAATGTCATTCCTCTCTGATGCAG
Seq C2 exon
GTGAGAAGCCTTATCATTGCAACTGGGAAGGATGCGGCTGGAAGTTCGCGCGCTCTGACGAGCTTACCCGCCACTACCGAAAGCACACAGGTCACAGACCCTTTCAGTGCCACTTGTGCGACCGGGCCTTCTCCAGGTCCGACCACCTGGCCTTGCACATGAAGCGACACATGTAGCCTGGGTCGACTCGGCTAGCCCATGCGCGACTGTGGCAGGTTCCACGCGCGGGGCACGGTCCCCTTGCAAACAGACTGCTATTTATTGGACCTTAGGACAGAGCCGGACAAGTGTGGCCACAGGAAAATGACTCTGCCACCAGTTCTGGCCCCCACAGTGACTGAAGGCCCCAGGAAAGAAGACAGGAGTCTGTGAAGAATGTTTTCAAAATGGTGCAATAATTGACTTATTTCCCTCGGGTCCCCACTAGAGGATCGAGGCTAGATGCCTTGTGAGAAATGCCTTTGAGTTTACTGTCCCCAACGTTTTTATAATATTGTATATAAGACTATGACCGATTGTATTTCTATAAGGGAGACGATGGCATCTCTGCCGCCTGCTTCGTTTTTATACGACTTTTTTTTAATTAAAGTTTTGGATCTTTGGAGGAATCACGGTAGTGGTGTGGCTGGGGATAGGGTAGGTCCTGAGGGGACAGGGAGCAGTCAGTGCCTGTGGCCAAGGTCACCAGCTGCAGCCCCCAGCTGCCAAGGCCTGTGGGTTCGCTATAAATGTAAACATGGTGTTTTAGGATTGAGCACAGGTTATTTTTAAGTCTGCTACTTTGAGCCATAATTTGCCCCACCCCCACCCCCTGTATCCCAAGTGGGAAAAGCCTTGGCTCCACTGATGTGGCTGACCATTCCTTTTTTTAGAAAGAAAAATAGAAAAGAAAATTAAAAACCTTTTCCTGGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055148:ENSMUST00000067912:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.832 A=NA C2=0.052
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PU(35.7=3.7)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(60.7=28.8),PF134651=zf-H2C2_2=WD(100=44.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCGGTCTTTTCGAGGACG
R:
CACAAGTGGCACTGAAAGGGT
Band lengths:
358-859
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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