MmuINT0168107 @ mm9
Intron Retention
Gene
ENSMUSG00000036752 | Tubb2c
Description
tubulin, beta 4B class IVB [Source:MGI Symbol;Acc:MGI:1915472]
Coordinates
chr2:25077678-25079564:-
Coord C1 exon
chr2:25079454-25079564
Coord A exon
chr2:25078889-25079453
Coord C2 exon
chr2:25077678-25078888
Length
565 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
CCTACTGTTTTCTCTTACAGGTC
3' ss Score
13.54
Exon sequences
Seq C1 exon
GTGGCAAGTATGTGCCCCGCGCCGTGCTCGTGGACTTGGAGCCCGGCACCATGGACTCGGTGCGTTCAGGGCCCTTCGGGCAGATCTTCAGACCTGATAACTTCGTCTTTG
Seq A exon
GTGAGTGTGGTGGAGGTGTGGACGGGCTTGCTACCCATGAGGCTCAAAGGTCAAGGGGCTGACCTAAAGTTCTTCCTTAATAGCCACCAGGTGTACACTTTCTTGCCCTCTGAGTCACTCAATCCCTTGGCCGAAAGCAGCTTTAGGAGGAAGGTCCAACTGACTGCGGGTAGATTAGTTGCTAGTAGAGAGTATGAGAAGACCTGACCTAGTGGCAGGGGCCCTGTACTCTCCTTGAACATTGGCAGGGGTGCCTTTGGAAGTATTTACTGTCTTAGCTCTAGTGTGTTCTGTACATCTCCGTCTGGTCTCCCCCACCCCCCATCCCCAATCTATGTATCCCTGCCTGGCCTCTTTAACTGTAGACCAGGCTGACCTTAAACTCAGAACTACCTGCCTACCAAGTGCTGGGATTAAAAGCTTGTGCCATTATGCACAGCACCCCCTCTCCCCTTTTTTTTAACATGGCAGATTGTTTTGGGTCTGTACACTTTATTCAGTGTCACCTCATGTCATTTGGCCCCTTGGGCACATACTTAGTGTGACCTACTGTTTTCTCTTACAG
Seq C2 exon
GTCAGAGTGGGGCTGGGAACAACTGGGCCAAGGGGCACTACACAGAAGGTGCAGAGCTGGTTGACTCGGTGTTGGACGTTGTGAGAAAGGAAGCTGAGAGCTGTGACTGCCTGCAGGGCTTCCAGCTGACCCACTCCCTGGGTGGGGGGACTGGGTCTGGGATGGGTACCCTCCTTATCAGCAAGATCCGGGAGGAGTACCCAGACAGAATCATGAACACCTTCAGTGTGGTACCTTCCCCCAAGGTGTCGGACACAGTGGTTGAGCCCTACAATGCCACCCTTTCAGTCCACCAGCTGGTTGAAAACACAGATGAGACCTATTGTATTGATAATGAAGCACTTTATGACATCTGCTTCAGAACCCTAAAGCTGACCACACCCACTTACGGTGACCTGAACCATCTAGTGTCCGCCACCATGAGTGGGGTAACCACTTGCCTGCGATTCCCTGGCCAGCTAAATGCTGACCTGCGGAAACTGGCTGTAAATATGGTGCCCTTCCCTCGCCTGCACTTCTTCATGCCTGGCTTTGCCCCCTTGACCAGCCGGGGCAGCCAGCAGTACCGTGCCCTGACAGTTCCTGAGCTCACCCAGCAGATGTTTGATGCCAAGAACATGATGGCTGCCTGTGATCCAAGACATGGGCGCTACTTGACTGTGGCTGCCGTGTTCAGGGGCCGCATGTCTATGAAGGAGGTGGACGAACAGATGCTTAATGTCCAAAACAAGAACAGCAGCTACTTTGTTGAGTGGATCCCCAACAATGTGAAGACAGCTGTCTGTGACATTCCACCTCGGGGCCTGAAAATGTCGGCCACCTTCATTGGCAACAGCACCGCTATTCAGGAGCTGTTCAAACGCATCTCAGAGCAGTTCACAGCCATGTTCCGACGCAAGGCCTTCCTACACTGGTACACGGGTGAAGGCATGGATGAGATGGAGTTCACTGAGGCTGAGAGCAACATGAACGACCTGGTGTCCGAGTACCAGCAGTACCAGGACGCTACAGCTGAGGAAGAGGGAGAGTTTGAGGAGGAGGCTGAGGAGGAGGTGGCTTAGAGCTGTCTTAGTCACTAAAGCATGGGAGCAGTGTGAACTCTTTATTCATTCACAGCCTGTCTGCTAGCCATGTCCACTGTGCATTTGCTGTCCTGTGTCCTGACATCACTTGTACAGATACCACCATTAAAGCAATTCATAGTGTGTGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000036752-Tubb2c:NM_146116:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.102
Domain overlap (PFAM):
C1:
PF0009120=Tubulin=FE(16.7=100)
A:
NA
C2:
PF0009120=Tubulin=PD(59.0=37.0),PF0395312=Tubulin_C=WD(100=34.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGGACTCGGTGCGTTCAG
R:
GGACTGAAAGGGTGGCATTGT
Band lengths:
353-918
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: