MmuINT0164448 @ mm9
Intron Retention
Gene
ENSMUSG00000022858 | Tra2b
Description
transformer 2 beta homolog (Drosophila) [Source:MGI Symbol;Acc:MGI:106016]
Coordinates
chr16:22250938-22252868:-
Coord C1 exon
chr16:22252680-22252868
Coord A exon
chr16:22251054-22252679
Coord C2 exon
chr16:22250938-22251053
Length
1626 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
ATTATTTTTATCTTTTGAAGGCT
3' ss Score
7.3
Exon sequences
Seq C1 exon
GCAAATCCTGACCCCAACTGTTGTCTTGGCGTGTTTGGGTTGAGCTTATACACCACAGAAAGAGACCTAAGAGAAGTGTTCTCTAAATATGGCCCCATTGCTGATGTGTCTATTGTATATGACCAGCAATCTAGACGTTCAAGAGGATTTGCCTTTGTATATTTTGAAAATGTAGACGATGCCAAGGAA
Seq A exon
GTAAGTAAATTCTTACTTTCACTTTAGTTAAAAACACCAATCTTGTTGTTAACTGTTCTGATAACCAAGTGATTGACAAGGTAATGTCTTGTTTCATAGTATAAATTTAAGATCTAAGACATGCATCTATAGATTAGAGTCAAAAGAAACTATTTCTGCCCGGCGGTGGTGCCGCACACCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTAAAGATATATGTAAATACACTGTAGCTGTCTTCACACACTCCAGAAGAGGGAGTCAGATCTCGTTACTGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCTGGACCTTCAGAAGAGCAGTCGGGTGCTCTTACCCACTGAGCCATCTCACCAGCCCACCACACACCTTTAATCCCAGCACTTGGGAGGCAGAGGGAGGTGGATTTCTGAGTTCGAGGACAGCCAGGGCTACACACAGACTCGAAAAACCAAAAAAAAAAAGAAGAAGAAACTATTTCTACTTGGAATGTGTTAAGTTCATTGATATTCTGAAGTTATTCTTAACCTGTGCAAAATTACATGCCAATGAAGTGTGACTCCGGGCATTTAATTAGTCTTGAAGCTAATTTAATTAATCTGTACTCTTACATTATTTTGAAGTAAATTCTAAACCTATGATTTGCCGTCCCTGTAATGCTGTGTTGATACATAAACCATGAAGTTTGATAAACTGTTTTGATAAGTTTGGTAAAGCATACACTGAGCTTTTTTTTTTTTTTTTTTTTTTCTTTTATGTTGAACTTTTTACTTGACTCAGTAGAAAGTGAGAATGTGATTATCTGTTTAGTAATGTGCAACTTTACATTTTAGACTCATTAGTGTAAAAAGAGAGCAAGCTAATAACAGGTCCATTGATTATTGTTGAGACCTGGAATTAAGCTAGAATTTTAATACACTAATTCTTCATGAAATTGGGAGTTCTCAAAAATTTTTTTTAGAAGTTAGATGTAAATAATTATAAAAATGACATTAAATTTTTAAATAAAATTCAAAAAGAACCTTCTAATATGCCAAAAGATGTAAGATACGGGTAATAAAATTGACAGTGCCAGCATTTTGTATTTGTAAGCCTGTATTTGTCTTTGTATAGAGCTACAACTTAAAAACAGCCTTAAACTCAAAGATAAATCAAGCCTTTTCATAAAGGCTTTTGGCTCCCACAACAGGCGTTTTGAATCATACAATGTCAGAGACAATTTTTCTTCTAATTCCAAACAGCCATGTGTGAAGGGGAGCATTTGGGCTTATTTAATTAGCAAGTGCTAATTTATGAAAAATTAGAATTTGGGTTTCATAAGTATTAGTGTGCTGTGCGTGTGTATAATCCCAGCATTTAGGATGTTAGAGATCAAGGGTTTAGCTAAAGTCCATCTAAATTTGTAGATAGCTATTTTGTGGGTCATGTAGGCTGATACCGTGGTCTGCATACTTTTTTATTTTTGTGGTAAATTTGTAGTACACAGAAAAACATTTATAAATTGTGGGGGTGGTTTTTTTTTTTCCTGGCCAAAAAATAGCTATGCGGTAATTAAATATATTGTCCAGGATGTTTGTAACAATTATTTTTATCTTTTGAAG
Seq C2 exon
GCTAAAGAACGTGCCAATGGAATGGAGCTTGATGGGCGTCGAATTAGAGTCGATTTCTCTATAACAAAAAGGCCCCATACCCCAACACCAGGAATTTATATGGGGAGACCCACTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000022858-Tra2b:NM_009186:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.063 A=NA C2=0.641
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(76.1=85.7)
A:
NA
C2:
PF0007617=RRM_1=PD(21.1=38.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGACCCCAACTGTTGTCT
R:
GGTCTCCCCATATAAATTCCTGGTG
Band lengths:
294-1920
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: