MmuINT0024002 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr1:164605736-164606948:-
Coord C1 exon
chr1:164606822-164606948
Coord A exon
chr1:164605973-164606821
Coord C2 exon
chr1:164605736-164605972
Length
849 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTTTGTTTTTTTTCACTCAGATT
3' ss Score
9.23
Exon sequences
Seq C1 exon
GGCTACATCAACAAGTCCAAACAGCCAGTCTAGCAAAATGAACAGTGTTGTGTATCAGAAACAGTTCCAGTCAGCCCCCGCCACAGTGCGCATGGCACAGCCGTTTCCTGCACAGTTTGCACCCCAG
Seq A exon
GTAGGCAGACCCCAGGGGGTGAGTACAGTGCTTGTAATGATGGCTGGTTTGACTAAGGGTGTGGCTTTACAGTCACCATGTAGGTGAGCAGTTACGGTGTGCACCTGGGAATGAAAACTTGTCTGGTTTTAAAAATATGATACTGAAAAATAGATGCAGTAGTAGTTTAGTTTTATAGCAGACATGAGAAATGCTCAAGATCCCCACACGGCTCTGACAGTTTCAATCCTGTTTCTTTTGTCTTTTTGGAAGCAGTTTGATTTTCAGTGCAGGGTCCCCGTGCTTAGGTTTCCAGACCCACCCTCAGGTGGCTTTGGTCCTTATGCTACCTGCACAGTTGAAGAAAGTTTGCGGGAAATAATGTGCAGGCCTGAGTTTCTCCTCCCCTGGCTGAATCATTGGAGACTGGTTAAGATTAGTAAGTCACAAACTAGGATTGGTTCCCAAGGAACACATTTGTTGAGTTACTGTAACTGTACCTTCAGATTATGTTTAGTATAGAAGTGGGCTTTTCTGCAATTGTCCCTTTCTCTCTACCCCTTAGAGTTTCCATCTGAAGTGCCATAGCATGCTTTGCCTAATTTTTCTGTTAAACTTGATAAGCATGGCCCATTTATTCTTTGTCCTTATTAATGGAATGGCACGATCCAAAAACTTCCACTGGCAGAATGGGCACAGATTTACTCTGGGATAAGCCAGCCTGATCTAGTTGGCCTTTTTTTTCCTTTCCTTTTTTTTTTTTTCTTTTTTTCTTTCTTTTTTTTTTTCTTTTTTTTTTTTTTTTTCCTTTTTTCTTTTTTTTTTTTTTTTAACAGTTCAATGTTGTATGTTTTGTTTTTTTTCACTCAG
Seq C2 exon
ATTCTCTCTCAGCCTAACCTGGTCCCTCCATTGGTAAGAGCCCCACATACTAACACCTTCCCAGCGCCTGTACAGAGGCCACCAATGGCACTGGCCAGTCAGATGCCTCCTCCGCTGACCACAGGCCTCATGAGCCATGCTCGTTTGCCACATGTAGCCAGGGGTCCTTGTGGATCACTGTCTGGAGTCAGAGGTAATCAGGCCCAGGCTGCGTTGAAGGCTGAACAAGATCTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
-Bat2l2:NM_001081290:33
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCAAACAGCCAGTCTAGCA
R:
TCTTGTTCAGCCTTCAACGCA
Band lengths:
343-1192
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: