MmuINT0023966 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr2:32084783-32090057:+
Coord C1 exon
chr2:32084783-32084864
Coord A exon
chr2:32084865-32086130
Coord C2 exon
chr2:32086131-32090057
Length
1266 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGAA
5' ss Score
6.68
3' ss Seq
TCCTGTTCATCTGTCCTAAGGCA
3' ss Score
7.17
Exon sequences
Seq C1 exon
GCCTAGCTCTGCTAGCCCCAGTGGGAAGCCCTCTGGATCAGCAGTTAACATGGGCTCTGTGCAGGGACACTACGTTCAACAG
Seq A exon
GTAGAAGATGGCTTCCCAGACCCTGCAGCCCTGGACACTTAGGCCTGTCTCCTAGCGCCAAAGGAGAGGGGACTGTCCAACTGATGGATGGTTTTTATTAAGGGAACCGTGCCCTACTGCTTAGAGCTGGGCCACCTGAGTTCCTCCTGGCAAAAGCACTTCTCTTGATGGGTGTTTGGATCCTTCTTTGTCCTGCAGAGAAGGGAGGAGCCCGATTCCCACAAGAGGAGATGCCAGAAGGTGTACTATCTATCCACAGCCACTTACGGCTGTCATGGCGCTCTAGGAGACACGGTTAGGCCTGGGTTAGCTCAGGCTGGGTGTGTGTGCGTGCTAGCTCTAGTGAGTGCTGTGGCATGTCTCTGTCCTGGGTGGGATCGTGGACAGGATACAGCGTCCCCCACTTCACAGGAAGGATTTCTCTGTGTCTTTCCCTGTAGGCCCTTTTCTCTTCCTCCTGTAAAGGTGGGCTGGGACTTCAGAGCTCAGGACCTTGGTCAGGCCTGGGACTTAATAAATTTGTCACTGAGAGGTGGAGATTGTGAGGGTGATGGCTCTCTTTTTGCCCCCCTTCCCCAGTGTTCCTTGGAGGTCACTGTTCCTGCTATGAGATGGGTTTTTAACCCTTTCTCCCAGAGCTGAGGGCATAACTCAGGGGCAGAGCACCTGACTAGCATGGGTGAGGCCCTGGGTTCCACCCTGAGCTGACAGAACAACAAAAAACACCCAACAAAGTTTCCCCCAGAAGTTAGACAACTGCGGTTACCCTGTGCAGGCCACCACTGTGCAGAGCTGCTGGCTAGTGTAACCCTGAGATCAGGTGGGGTCCTGGGGAAATGCCGTTATTCAGAGACACTTGGAATGGGGCTTGACTGAATCATGCATCAAGATCTGGGTGATCACAGTTGGCTTCATTCCTCAGCTGGGTGGGTATCCAGCCCATGGGTAGATTGGTCTGCTGAAGGGGCTGTTTGCTTGCCCATGGGGCACAGGGTGCACTGATTTGAAAAGGCCCCTCCCGTCAGCCTTGGGACCTGAAATGTTCACCAAGGATGTGCTACTGACTTGTCTGTGGAGGACCGGGAGTCTTCCCGCCTTTCTCAATCACTGCACCCTTGGGAAGGACAGGACAGTTCTGACTGCACGCCAGGCTCCTCCCTGGTTCCTGTGAGGATAGCTTTTGGTCTGACACTGGAGCAGATAGGGAGTGGTCTCTACACATTTTGCCCTGTGGTCACTTTGGTTTTCCTGTTCATCTGTCCTAAG
Seq C2 exon
GCAAAGCGAGTGGATGAAAAACCCGGCCTGGGAACCGTGAAGCTGCAGGAGGCCTCATCAGCCACCTCCCAGATGAAGCGAACCGGAGCAATCAAGCCTCGGGCAGTCAAGGTGGAGGGAAGCAAAGCCTGAAGGTGCCTGGGTCTCTTGCCTCACCTAACAGGGACGGTGCGCCCCACACCCTAACAGGGATGGTGTGCCACACCAGCCTGGACAGCCACCGCCTGGCTTGGACAGAGCTCTCTTCCATTCACGAAAGCTCCTGAGAGTTCCATCGTCAGCCAGCCTGCATCGTGGACATGTGGCTTTGACCTGCTTGCTTTGGTACAAAAGAGCAGACTTCCTCCTTCCCACCCCTCTGCCCAGTGACTGTGGAGTGAGCCTCCTGTGCAGTGCAGACCTGCCCGCCCGCCCGCCCGCCCAGTTCCCTAGGCACAGTGGTTTGGCAGCAGGGTCATTTTAGCTGGAGGCTTTTTGTTTTAAAAAGCAGCTAAGGTTTTTACAAAGGGGAAATGAGAACAAAATGCTAGCTACATCTGTATAGCTGAACTTTTATATGGTCCTCGCTGTCCTCTCTCTGCTCTGCTGTCCCCAGTGGTCACCTTTTATCTCCGTCCTGTTTGACATGTCACAGTGCTACCTTAAGAGGTGATTCTTAAGAGTCACACACACACACACACACACACACACACACACACACACACACCCCGGTTGGCTAACCGTTGGGGTTTGGAGGATGTGATTGGACATTCTGGTTGGTCCCTCACCACCTTGGGCACTGTGAAGTTGGTATCTGAGTTTAGTTCCCTGGTGTGGAGTTAATGTTTCAGAATAAGAATTATCTGTTCAGGGCCCTTTTGCTGTCATTGGACACAGTGAGTATTGAGCACCGGAGGAATTGTGGAGTTTTGTAATCCAGATTGGCCCCACTTGGGGACTGCATCTTGGGCTCCGTGCTTTAGCCCCCTGGGTGGCTTTGTTCCCCACTCATTTCCTTTCCTCTTTGTGGAGCCTGCTGTGTCCCTCTGGATCCCTGTCCATTCACTCCTCACAGCTTATCACCAAAATCAATATAAGGACACAGGTGAACACCTATTAGTCAAGTTTGCGACAGGAAAGACTATGTATGGCACATTCATCTTCCGTCCTTCACTCCTGGTAACAGGGCAGGGTGTTGGGTAGGGTTTCTAAGCTATAGGTGTGTTACCCTTCCTTAGAGAACTGGACAGGGTCAAGGTATAAGTGGCCTACAGAGAAACCTATGCAGCCTCAAAGGAGGCTGGTGGTGTCTAAAGGGTGGTGTCTTGGGGCTACTGCTTGCAGGTTTTGTGTGAGCACCTGTATGCGAGGCTTCTTGCTTTCACTAAGAACAAGGAAAATTTCCCATTGCTCAAAGGAAAATGAAGTGAATTTCAGGGTGCTCAGCTGCTGCTTAGGACCCCCATTTAATCACCCATCTGGGGTGTTGGAGACAGCCTGCTTCAGAGAGCTCATAGTTGGTGGCAGGGCTGGGACAAGCATGTGGGTCTGTCCTCAAGTGTCACCATGGGCATGAGAGCAGAGAAGCAGCTTAGAAGCTCTGAAGTGGCTTCGCCCTGCCTAGTTGGTTGTTGAAGGAAGCAGAAGTCTGTTTCCCCCGGCAGGTACTGCCACACTGTCCCCAGCATTACCAGTCAGGGCAGCCTTGGTGCAGTTTCATTGCAACTGCAGCCCTCGGCTCCTTCCTTCCCACCTCCGACACATCTCCTCTCTTCTCGCATCCCTCCTCAGAAGCACTGTCCACTTAGGAGTCCCCAGCACAGATCTGCCTGTGCCCCTATCAGCCCTTCCACCCCCCGGAAGTGACCGAGTCCTCTGCCCCACTGCCAAGCTCTACCCCATAAGTCTCACTCAGTAAAAGCCACACAGTCACCTCTTAGAAATGCGGCCAGACCCACCTCACCCAATGCTTGGTGGGCATTATGTGTCAAAAGAAGCAAACATTTTTCTCTTTCAGAATTTCACAGGATGCTGTTACAAACTCAAAATGTGCCCTTTAGGTGAGCCTGCTGTCAGAATGGCAGTACTCCCTGTTTTAAGAAGAAAAATTAGGAGGTCACCTGTTTTCAGTCCTTTCTCTAACCCTGTATTTCCCTCCTGCCTCCCACCCTAAATAAAAACAAGAAACACTAGAATTTATTTATATGTATTGATGTTGTAGGTCTAGATGGAAAAAAAAAAGTAAATGTCCCACTGCTCTGTTTATATAATGTCTGAATTACTCTGTGCAGGAAAGGCCAGGAAATTGCATGTGAAATTTGGTGTGCTCACCACCTCTGTGATCTCAGCTGTGGGCTCTACCCCTCTGAGAGGCACATTTGCAACTAGACGCTGAGGACAGAGGGCAGGCTTCAGGCCAAATGTCCCTACTCCTCGGATGATCTGGTCAAGCCAAGTTTTTAGTACAGAGGTGTTTTAAGGTGCAATATCTCTTTGTGTGGTTTTTAGAGTCAAGCTCAAAGTATAATAGAACTTGGGCCTTATTTTGGTTTCAAACCCCCATCTTTAGATCACACATAAAAACAGGAGCGTCTGTCAGGGTGCCATGGCCTTTGGTGGGAACAGGTAAAGTCCAGCCCTGCCTTTTCTACTGCTGAGATGGGTGGAGGTGGGCAGAATCTTTTACTCCTGCCTGCTGAAGTCACCTCCTACTGCTGGTGGCTTTGTTGGTGCCACTGATGGTGAAATCCATGGTTTGGCAACCAGGACTCTTCAGTCTGTTGGTCCTGATGCGGCGTGTAGCATCTGTCGGTGAAGACTTCTGCCGACTGCATTTAGTCTGGTCTCTTAACAGTTGCTTTCCTTGTCTGATTCCCAAGTTTAGCATTTTCAAATTCAGAGTTCACAGAACACTTCTGGGTCTAAGCTTCCTTAAGGGGGATAAACAAAGGATGATTGCAGTACACATTTAGAAATGCTGGTTCACATCCAAAGCCACGCTTGCTCTGCCACTTCTAGAGATACTTGGATAACACTGTCCACCTTGCTGTCCTGTCCTCTGGAGCCACCTTCCAGATGGTCAGTGATGAAGTCGTGAATGATTTGACACTCAGGGCCCAGGGCACAAGAGTGTACCCGCTGAGGCCATGAGGCAACTCTGGCTAAGTCCGCCCCCCAACATCCACTGGGGTCCCCACTCTGCCAGGTACCTGCATGTTAACTTTCATGTTCGCCTTGCCCTCATTTCCAGCAAGTCTGGGTTAGAGGGTATGTTGGGAATCTTTCACAGGCAAGGGCACAGAAGTCTGGCTTCTGTATTCTTTGATGAGTGGAAAAGCCAGCTCTTTGTGAGATGGCTCTAAGACAAGTTAGGTCATGTGGAACAGAGTGGTCAGCGTTGGGGATGAGCACAGTCACCCAGCTGTGCTCTCCACTGTCTACCAGCTCTGACTAGTGATCTTCCAGGTGCATGACACCTGCAGCCCCCAGCTGCTTGCTTCAGACCTGCAACCTCCCCAGGCCCCATCTTTGGCATGTCACAATCCTGGAGCAGCAGTTCCTGTGAAGGCTCCTTAGCTGAAGGGTCCTGTGCTCTAGGCTTTCCACCTCAAACCTTTTATAGAAAAGGACTTGGGGGATTGTTCTTTTTGAGGGTCCTTTTGTTTTCCTTTGCTTTTCTTTTGGCCTTCCCTCTGTCTTTCACTTAGACCAGCTATTTGAAAGGGCAGACGATGCTAAAGGTGTACTGTGCAGCTTGTTTAGACGTGATATGGGGAACTTCTTCGGATGGGAAATGGAATCGTGAATTCACCCTCCCTTCCCTCCGGGTCAGTCCCTGTTGTTTCTCCTTTCAAATATGTGATTGTACTAGGTCTTTCCATACGAAAGAACTCTCCTTATTTAAATAAAAAAAAAGTATAAAAAAATAAAGCCAAACATGCTTTCTCA
VastDB Features
Vast-tools module Information
Secondary ID
-Bat2l:NM_001159634:31
Average complexity
IR-C
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
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGCAGGGACACTACGTTC
R:
CAAAGCAAGCAGGTCAAAGCC
Band lengths:
350-1616
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: