MmuINT0163681 @ mm9
Intron Retention
Gene
ENSMUSG00000033327 | Tnxb
Description
tenascin XB [Source:MGI Symbol;Acc:MGI:1932137]
Coordinates
chr17:34835038-34836158:+
Coord C1 exon
chr17:34835038-34835334
Coord A exon
chr17:34835335-34835816
Coord C2 exon
chr17:34835817-34836158
Length
482 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTTCTCTGTCTCCTTCTCAGCTG
3' ss Score
9.61
Exon sequences
Seq C1 exon
ACCCCAAAGAGGAGCCTACTGATGCCTCTTCCCTGAAACCTCGCCTGGAGGAGCTGACTGTGACAGATGCCACCCCTGACTCCCTGAGCCTCTCCTGGACAGTCCCTGAGGGGCAGTTTGACCAATTCGTGATCCAGTACAAGAACGGGGATGGGCAGCCCAAGGTGGTTCGGGTGCCAGGGCATGAGGACCAGGTCACCATCTCAGGCCTGGAGCCAGACCACAAGTACAAGATGAACCTGTATGGCATCTACAGTGGCCAGCGTGTGGGCCCTGTGTCTGCTGTTGGGGTGACAG
Seq A exon
GTGAGTGGACAATGGAAAACTCAGGTAAAACTCAAGAGGAGGTGACCTTAGCTCCTTGGTGACAGGAGTGGGGATGAGGGCCATGGACAAGTATGTGGCCTACTTCCTTTCCCCTAGAGCTGGCCCCTTCTCCTAGGCAACAGGAAAATGGATGGTTTTATTGTGCTGGTAGAATCCAAGTCCCCTGGTAGCTATGGTTTCTGCCTCCTTCCCAAGACCTGAGGACAAAGAACCCTGCTCACTTCTTCTTCTTCTTCTTCCTTTTTTTTTTTTTTAAATTTAAGATTTGCTTTATTTATGAGTGCACTGTCACTGTCTTCAGACACACCAGAAGAGGGCATCAGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAAGACCTCTGGAAGAGCAAGTCAGTGCTCTTAATGACTGAGCTGTCTCTCCAGCACCCCCTGCTCACTTCTCTGTCTCCTTCTCAG
Seq C2 exon
CTGCAGAGGAAGAGCCTCCTAGCCCCACAGAGCCCAGGACAGAGGCCCCAGAGCCCACAGAGGCCCCAGAGCCCACAGAGGAGCCACGCCTAGGAGAGCTGACAGTGACAGGATCGTCCCCAGACTCCCTGAGCCTCTCCTGGACCATTCCCAAGGGAGACTTTGACTCCTTCACTGTCCAGTACAAGGACAGTGATGGGAGGCCCCAGGTGATACGTGTCAGGGGCCAGGAGAGGGAGGTCATCGTGAGAGACCTGGATCCTGGGCGCAAGTACAAGATGAACCTGTATGGGCTCCATGAGGGGCGTCGTGTGGGCCCTGTGTCCACCATAGGTGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000033327-Tnxb:NM_031176:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.680 A=NA C2=0.843
Domain overlap (PFAM):
C1:
PF0004116=fn3=WD(100=81.0)
A:
NA
C2:
PF0004116=fn3=WD(100=70.4)
Main Inclusion Isoform:
NA
Other Inclusion 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:
GAGCTGACTGTGACAGATGCC
R:
TCACTGTCAGCTCTCCTAGGC
Band lengths:
355-837
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: