MmuINT0163686 @ mm9
Intron Retention
Gene
ENSMUSG00000033327 | Tnxb
Description
tenascin XB [Source:MGI Symbol;Acc:MGI:1932137]
Coordinates
chr17:34846324-34847339:+
Coord C1 exon
chr17:34846324-34846644
Coord A exon
chr17:34846645-34847015
Coord C2 exon
chr17:34847016-34847339
Length
371 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGT
5' ss Score
9.89
3' ss Seq
TTACCTCTCTGTCTCCTCAGCTG
3' ss Score
10.66
Exon sequences
Seq C1 exon
AGGAGGAAGCTACGACCACACAGGCAGAGCCCATCGTGACCACTGAGCCTCCTCCTAAGAAGCCGCACCTGGGAGTGCTGACTGTGACCGATGCCACCCCTGACTCCCTGAGCCTCTCCTGGACGGTCCCGGAGGCACACTTTGACCAATTCGTGATCCAGTACAAGAACGGGGATGGGCAGCCCAAGGTGGTGCGGGTGCCAGGGCATGAGGACCAGGTCACCATCTCTGGCCTGGAGCCAGACCACAAGTACAAAATGAACCTGTATGGCATCTACAGTGGCCAGCGTGTGGGCCCTGTGTCTGCTGTTGGGGTGACGG
Seq A exon
GTGAGTGGACTGTGGGATTCCAGGGTGGGGTCCACTAGAAAGGACCACCAGCTCTGAGTGGGGATCAATGACCTAAGACTGGATAATCCCCCAGACCAGCTGTGGCTGAGGCTATGGCCTATGTGCCTTTTCCTGGAGCTGGCCTATCTTTTTTTGTGCAGGGGATGGGGACATCAAGACCTTTGCTGTGCCAGCACTGTCCAAGTTCTCTTGGCTAACCTAGGAACTTGGGCATGTTGGCCAGCTATCAGATGACCAGGGACATCAGACCCCAAGAGGGGGACCTCCCTGGTAGCCATAGCCTCACCTTCTTCCACCTAAAAAGCCAAGGACACTGGCTGGTGACCCTGCTTACCTCTCTGTCTCCTCAG
Seq C2 exon
CTGCAGAGGAAGAGCCCCCCAGCCCCACAGAGCCCAGCACAGAGGCCCCAGAGTCCACGGAAGAGCCACTCCTGGGAGAGCTGACAGTGACAGGATCATCCCCAGACTCCCTGAGCCTCTCCTGGACCGTCCCCCAGGGAGAATTTGACTCCTTCACTGTCCAATACAAGGACAGTGATGGGCGGCCCCAGGTGATGCGTGTCGGGGGCCAGGAGAGGGAGGTCATCGTGAGAGACCTGGATCCTGGGCGCAAGTACAAGATGAACCTGTATGGACTCCATGAGGGGCGTCGCGTGGGCCCCGTGTCCACCGTGGGCATGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033327-Tnxb:NM_031176:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.639 A=NA C2=0.853
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=75.0)
A:
NA
C2:
PF0004116=fn3=WD(100=74.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGACCAGGTCACCATCTCTG
R:
CCAGGTCTCTCACGATGACCT
Band lengths:
351-722
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: