MmuINT0024003 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr1:164601916-164605972:-
Coord C1 exon
chr1:164605736-164605972
Coord A exon
chr1:164603788-164605735
Coord C2 exon
chr1:164601916-164603787
Length
1948 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
TTGTTTTCTTATTTTTAAAGGCA
3' ss Score
8.1
Exon sequences
Seq C1 exon
ATTCTCTCTCAGCCTAACCTGGTCCCTCCATTGGTAAGAGCCCCACATACTAACACCTTCCCAGCGCCTGTACAGAGGCCACCAATGGCACTGGCCAGTCAGATGCCTCCTCCGCTGACCACAGGCCTCATGAGCCATGCTCGTTTGCCACATGTAGCCAGGGGTCCTTGTGGATCACTGTCTGGAGTCAGAGGTAATCAGGCCCAGGCTGCGTTGAAGGCTGAACAAGATCTGAAG
Seq A exon
GTTAGTACAGTATTGATGGCCAGCAGAGCAAGAGTCTGTCTCTGAACCCTGTCGGAAATGCCCTGGCCCATAGCCGTGTATCCAGGCATTCGTTGTCTTTACCAGACTTAACCAAGCTAACTGCTTTTTGTTCATCCCAGCCCCCTGTTTGTTTTTGTTTTTGTTTTTTTTCTCCCTTCCATCCTTACCTTTTCCTCCTTTTTATGACCCCTTCCTTTGCCACTATAGTCAGAAAACAAATTAACATTTTAAACTATATTCAAATGGATTGCTTGTGAAATAAGTATCTGAGGGAAATCTGAGTTTGGATACAGTATTTTAAATATTAAAAAAAAGTAATATGGATTGTTATTACCAGTCACCCTGTATTATTTCCCTTTTTTTTTTTTTTCCTACCTTCCTGCCCTCCCTCCCCATCCCAACTTAATACATAATCATGATTTTGTGAACTCTGGAATGGGTAAGACATGTTAGCTACCTTGATTCTTATCCCTTCAGAAATCATTTGAGTAATTTTCATCTTAAACATTCCACATCCTTTTTTTGCATGCCACCTGTGGTGGCCATATTCCAGAATGCAATTATAGATGAACTCAGAAAAGCACTTTGGGATCCTTCATGGTAAAAGGCACAAACAGACATGGGTTTGCTGAGGCCACTAGGAGTCTGTGTGGGGACAGTTTTTAGCATAATTCTCACCCGTCTTCCTATACAGCCAATTTGAGCTTGTTTTTCTAACTACCTAGGGCTGACTTTAAGATTCAAGAGCGGTTTTCTCACCACGTAGATTAGGCTAGAGCAGAGATGAGCTTTGTGCGTATGAGCAGGAGTGTGCACAGTAAGGCTTCACTCTGAGTTAGAGGCATGTTTGTGATAATACTGCTAAAGAAGTCAGTTAACTGACTAAAGTCCCTTCGTGTTTCTAAAGCTTAGGAATCCAATTAAAGGTTACCCTCTAGGAGACTGCCTAGGACCCATTACTCAGTTTTGTTAGGCTGTGTGCCTAGGGTTTCCGTCTGTCTGTTACTACTAAAAAGTGCTTGCACCAAAAGCTTAGCAGATTGTGTAGCCTTCCACTCCCGGCTAATTGCCACTTGATCTTTAAACATTCTTATGTTAAAAAATGACATTAGAACATAATAATATTAGTGGGGTGGGAGAGTATAAATTTCTTATAAACTGTTTTAGTTAGTATAGGTTTACCAGTAGAACATGAAGGAGCTCTTGTGGTTTTTGGTTTTGTTTTGTTTTTTATTATATGCAAAAGGAGTAGAAAGTTAAGTTTAATTGGATATAGTATAGCACTATAATTACAGGTTAATGTAAGTATATTCTTTGGGGCACATTGTCATTGAAACGGATTATTTACCAGCTCAGAATGTGGTAGGAGCTATCAGAACTTAGTGATCAAGTGAAGTCGTAGTTACTAATTTCTGATGCTCTTCCCCTGCAGAAGAGAGCTGTGGGAAGAGGACTCAGCCACAAGACATTTGGTCCTAGGTGTTGGTAATGCCACAATATAAGTGCTTCCTTTTCATTCTATTGTAGACCACATGTTGATAACTAGAAGTTTTAAGTGTTACGTTACATGTATGCTTTCAGACTGTGCAAGCAGCCTCCCCAATAAAGTCTGGTATTAGTGAGCTGTTCCCAAAAGAGAGAGAATCGGCAGCAATGTGTATTTTATTGTTTATAAGAGGGCAGACGCTAGAAAGATGGTGGGGGGTGGCCTTGTTTCAGGTGTTTTGTTTTTTTTAAATCACATAGAATATTTTCAGAGCTAGGAGAAACCTATGCATTAAAAACTGAAAGATCGATGGGGCACAAACTTAGGGAAAACTGATTTTTGTGATTGGTACAAAAATTTGAACTGAGATTGATTTGACAGGCTTTGGTAATGTTAGGTAATGTTGCAGTGCTTTCAGTTTTTGTTTTCTTATTTTTAAAG
Seq C2 exon
GCAAAGCAGAGAGCAGAGGTTCTTCAGTCCACGCAGCGGTTCTTCTCTGAACAGCAACAGAACAAACAGATAGGAGGCAAAACCCAGAGAGTGGACAGTGATACAAGTAACCCTGAAACGCTGAGTGACCCTCCTGGCACCTGTCCGGAAAAAGTAGAAGAAAAGCCACCCCCTGCACCCACCATAACCACCAAACCTGTTAGAACTGGACCAATCAAACCTCAGGCCATCAAAACCGAAGAAACAAAATCGTAAAGGCTGTGGTTTATTGGGGATGGGTGGGTAGGGAAAGTGAAGTCAAATAATGCCAGCCAGCAGCCACAGGGGTAAAGTGGTCTGTGACATCATCCTGTGAGACACAAGGGGCATAGAGCATTTACAGTGACAGAGCTGCTGCACAGTGAGGCTCCACAGGCTCGCACCTCCGGTGTAACATTTGCATCTTCAGTTGGTTTGTATACAAGTACGTAAACAGTCTGTAAGTGCATACAGTTTAGTCCTAAGGAGCATGAAACACCAGAAGTAGGAGGAGGAGAGCGATAGATACCACAGAGTAGCTCAGCTGGACACTGGGTGGTCCCATGAATCCATCAGCTGTGGCTCTTCTGCTCCCTTGTGTTCTTTGGATGTGTCTATGGCTCTTCTAGGCTTGAAAGTAAAATGATGCTAACTGGTGCTGGATAGAGGAGCCTTATCTTTTATTACGGCAGCTTGCTATTTTTGTAACATGGTGATTTGGTTGAACACAATAAAGTACAGTAGTAACTGATCTCCCCTCTTCCTGGATGAGTGAGCAGATGATTGAATATTGATGTCAGCATCCTTGAACACACTCAGATGAGCAACATAGAGCTTCTGCTTCTATTTAAAATGATGCTGGGTTTGATTGTGGTCCGAAGCTTTGAAGCACTACTTGGCGTCTCCTTCCTTGGAGGTCTCACCATTTAAACATAACATTTGATAACGTGTTGGTAAGGTGAGGTCTAGCTTGTCTCCACTAGGTCATCTTCATATGAATCCAGTGGGTATACGGTTTTGTTTTAGGGATAGTTCATTTTTTAATGACGGTTTTTAGCTGACATTCATGGAGAGAATGAATCCTTAGAACTGTGCCGCTAGTGAAAGGAAATCCTGTCTAAGAGTGTTTCTTTACAGAGCAGTGTCACACCATCCTTTGGGCCCTCTGCTGGAAACATAGAATCAAGTCTCAAATAATGCCTTTTAAATTGTCTCCTCTAGTATTATAGATGTAGGACAGTACTGTATCATACCTCTGTGAATGTAACATAGCTTGTACCTGCTTTATGATACGTAGTAGTGACCGTGCTTTATCAGAGCTGTTTTTTAATGATGTTGCTCAGAATGTTTTCTTTCCAGATGATGATTGAGAAGCTAATTAAAAAAAAAAACAGAAACAAAAAATGGTGCCAGGTACCACAAGAGTAACAGAACTGTGCTGTTTTCTGGGATTTTGTTTTTTACTTTTTTTTTTTTTTTTTTTTTTTGATAAGAGTGTGCTGGATGTCTCTACAATTTTGTTCAAATGACTGCAGAACCTGGAAAAGCTGTTGCTGCTATTGATGCATAACATACTGCTATTATTGGTCTTTTTATATAAATATAAATATATATACATATATATAATTTGAATTTTTTGGAAACTTTAGCTGTGCTGTCAACTTTGGAAAAACGTATCCCAGTTTACTGTGTTGAGTTGGCATTGTACAGAAATTAACAGCCATATTGGTCTAGAAATGTTGAACTTAATTTTTTTTTCCATTTGTACAGGGGTAACGCACTGTATTAAATATGTAAGGTCTTATCTACGTGGGTTTGATTACAAAAACTAATAAAGTATTCTCTAAATAATGA
VastDB Features
Vast-tools module Information
Secondary ID
-Bat2l2:NM_001081290:34
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
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:
TCCATTGGTAAGAGCCCCACA
R:
GAGGGTCACTCAGCGTTTCAG
Band lengths:
344-2292
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: