MmuINT0041415 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr6:121973323-121973957:+
Coord C1 exon
chr6:121973323-121973491
Coord A exon
chr6:121973492-121973872
Coord C2 exon
chr6:121973873-121973957
Length
381 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGG
5' ss Score
5.53
3' ss Seq
TCTCCTCTCTCTCACAATAGTGC
3' ss Score
9.37
Exon sequences
Seq C1 exon
GATCCGAAAAAGAACCGAATTATGCAGTGGAGGGATATTAAGACTGAGAATGGGCTTAAGCAAATGTCCTTCAGCCTGGCAGCAGAGCCCATTCAGGGCCCCTACAAGATAGTGGTGCACAAACAGTCAGGGGTGAAGGAAGAACACTCCTTTACTGTGATGGAATTTG
Seq A exon
GTATGGATTGGGAAGACCAAAAAGGAAAAGCAGATCTCATAGGATTCTGGTTATCATAGGATGAATTACTTTGTACAAATTGAGTTCCATCTGACTCTAGCTAAGGCTATCCATCTAGCAACATGGGAGTTCCAGAAAGTTCTGGGATTTTTCAGAAGCAAATTATTTGTTTTGTTTTGTTGTTTGTTCATTTTTCTTATTTAAGTAGATATCCCTGTGATTGTCAAGAAGTGATATAATGTATAAACACTCATCATTCTAACTTTATTGGGGTGGGCCATGCCTTATTAATGTGAAATCACTATTTCTGGGCAGAGAGTGATCACTTAGGCAACTATACATGTCATTCCACTCCTGAGTGTCTCCTCTCTCTCACAATAG
Seq C2 exon
TGCTTCCCAGATTTAATGTCGACCTGAAGGTCCCAAATGCCATCTCTGTGAATGATGAAGTGCTCCAAGTGACTGTATGTGGGAA
VastDB Features
Vast-tools module Information
Secondary ID
-Cpamd8:NM_008646:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATCCGAAAAAGAACCGAATTATGCA
R:
TTCCCACATACAGTCACTTGGA
Band lengths:
254-635
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: