MmuINT0006676 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:23002214-23004101:-
Coord C1 exon
chr17:23003948-23004101
Coord A exon
chr17:23002304-23003947
Coord C2 exon
chr17:23002214-23002303
Length
1644 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
ACTCTCTTCTCCACATGCAGGTC
3' ss Score
10.04
Exon sequences
Seq C1 exon
ACCTTTCCCTGAAGAACTCAGGGAGCCGCACGGTCTGGAAGTGGGGTTGGAAGAACCCGGCCGTGTATTAGGGTACCCGAAAACTTCCTTAAGACTCAGGTGCCTCTGGGAGCATTTTGGAAGCGTCAGCAGCCCGGCAGCGGGAACCTCCCAG
Seq A exon
GTCAGAGGGGCTGGGGGGCTGGGAAAAGGGTGGGAGCGGAGAAGCAGGGGTGTGTTTTCCTCCGCGGCTCTTAAGGACGCCGCTTTCATAATTCTGCCATGGTTATCTTAGCGTTGTCGGGAAGTTTGAGATCCTATGAACTGGGGGTTTATCGTGATGTTTTCGTTTATCTTATGGTTGCCAGAATATTTTCCGAAAATAATCTCGTAGAGCATTTGCAGAATCTGCAGTTCGCACGCAGAGCTCTCTTTGCTCCAGCAGTTACAAAGCTCCTCGAATTCAAATTCACTCATGCTTTCTTAACACCCCTGTTCCACCATTTCCTATTCAAGAGAGTGGCCATTGGCCCGGAGAATGGGCATCCTCGGAGAGTTTTGCAGATATTAGTCATCTGAAGAACCAGTTGAGATTTGATTGAGTCAGAAAATATACATGACTAAGCACCATAGTTAGAGCTGTGAACTTTAAATATTACTGGGCAAAGCTTTACTCCCCGTTTTGCTTTGGTTTTGGTTTTGGTTTCCATCTTAGATGTGCACACTCTGTGATGTAAATACTGCAGTCAGAAATGTGTCTTTATATGTTGAGTTACAACTGAAAACTGAGGACGTGACTGCTCTAAGGTATGGTTGAGGAGAAAATTTATTGTAAGTTATGTTAATCCTGAGATTTGCCTGAGACAAATCAGTACCACCATTTGGGCAAGTATTATTAAATATTAAATACTGACCAAGCTATGGACTTTGGCCTCATGCTACAGGAGTTTATAAAGACAAACCTGCATACATTCCCATGAGAGTTTGTTACTTTTCCAAGAACTACAACTCCCAGCATTTTAGGAAGTTATTTGGTTCTTGGGTAGGTAGTGCTTACATGTTAATTTTGGGCTTCACAGTATGAGAGAACAGAGGTATCTGGAAGGGTCCAAACTTAACCTGGCCGTGACTTGGGGGGTTGAAAGGGGGAGTTAGGGAATAGGAGGCTCCCAAGAGAGGAAACAGGTGCCAAGGAAACAGTTATCCAAAGATGTCCACTATGATATATTAATAGGCACCTCAGTTAGCCATTTTTCCTAAGCTCCTTTGATATCTAACAAGGCCAGACCAGCATGCATGCTGTGGAAGGGCAATGTCAAGCCACCTTATTGTTATAGATAGAAAACTCACTCTAAATTAAATAAAATTAGAAAGCCCTTTTTGAATAATTATGATTGCTCACTTACATCAGAAACGTGTCTCCTTAGTTCAAGAAAAGCACATGTGGCCAAACTGTTCATTATTTCATGGTCTGTTGATATTGAATTCTGTGACTATGGACTTCTTACCTAGACCCTGCAGTCAGGGCTTTTTTTCAGAGACCTCCTTTTGGAAAAGTGCATCAGTTTGGATTCTGTGAGTCACAGTAGTTTTCTTGGAGTCTTCCTTGGGGTTCCTGGGAAAAGGACTCTTCGGCATATGTGTGAACTGTGTGTGAATGAGTCTCACACCTCATAGAACAGAGTAAAATCCTCAGAGAAAAGAGACATTTTTTCATGTTATTTTCTCTTTCCTTCATGTTTATCCTCTTGGGAGGTGTCAGCATCTTTCATTTTTGTGGCATGAAAAGTTCCAGGTGCTTTCTGAAGACTCTCTTCTCCACATGCAG
Seq C2 exon
GTCCCCACTGCTCAGCCAGATCTGCTCACCAGTGAATCAACTAAGAACCCTGGATGGTGAAGAGAGAGGAGACTATAGTAAAGAATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
-A630033E08Rik:NM_001110254:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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:
CTGAAGAACTCAGGGAGCCG
R:
TGGATTCTTTACTATAGTCTCCTCTC
Band lengths:
235-1879
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: