MmuINT0084113 @ mm9
Intron Retention
Gene
ENSMUSG00000000157 | Itgb2l
Description
integrin beta 2-like [Source:MGI Symbol;Acc:MGI:1277979]
Coordinates
chr16:96658877-96660159:-
Coord C1 exon
chr16:96660071-96660159
Coord A exon
chr16:96659058-96660070
Coord C2 exon
chr16:96658877-96659057
Length
1013 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
TAAATGGGCCCTTTCCCCAGAAC
3' ss Score
6.98
Exon sequences
Seq C1 exon
CACTGTCTCAGTTGTGTACCAAGGACAATGTGAGCACCTGTCAGGACTGTATCCGGTCAGGGCCCAGCTGTGCCTGGTGCCAGAAGCTG
Seq A exon
GTAAGAACTACAGGGGTTGACTAGCAGAGTGTGGCATCTGTTCCTTCTTTATTTATCTATCTGTCTCTATCTTTCTGTCTCTCTCTGTCTCTCTGTCTCATTGCACCTCTGTATCTGTGTGTGTGTGTGTGACTATCTGCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCACTCTCTCTTTCTGTGTTTGTGTGTTCTATCTGCCCATCTCTCACTCTTTCTCTGTCTCTGTGTGTATATGTCTCTCTCCCTGCTTCTCTCTGTGTCTCTCTGTGATATCCCCCACCGTGACTGTCTGTCTTTCTCCTCTTGGTCTCTCTGTATGTCTCTCCCTGTTTCTCTCTTTAATATCCCCTGATGTGACCATGACCGACTGCCTTGTCTTTTTCCCTTCTGTCTCTACCTGTCTATCCCTCCCTCCTTTATTCCCTCTCCCAGTGAATACATGCATTTCTATCTTCTTCACTATTCTGTGACCATCATTTGCCTGATGATGTGTCATAGTCTCAGGCATGCCCATGGGTCCTTCCAAGATGCTCTGGATACCACCAGAATGACTTTCCCCATTTGCTTTGAGTAATTTGAGGGGAGGTAGGGAGGGGTGTGGATGTAGATGTATGTGCCCATGCACACAAGTAAATAAACGAACAGAATAGCATCCCCTGCCTTATTCCCTCAAAACAGGATCTCAATGAACCTGAAGTTAGGCTGGTGACCAGAAATGCTTGTGCTTGGGATACAGGCACATGTGGCATTAATTTGTAGATGCTGGGGGATCTGAACTGTTGGGGGGAGTAGTTCAGGAGCAGGAAAGGGCCTGCAGCTGCATGATTTGGAGCCCCCAGGGAGATCAAGGCTGTCTCTAAGGCCAGGTATTCTTTGGCAGGCTGTCCCACTCCCCAGAGACTTCTATGCCAAATTTTAAGGGCAAGTGAGGAGGAGATAGGTCAGGGGCTTTAGCCCTTCATGGTCAGTCAGCTTCCTCCTGGTACTAAATGGGCCCTTTCCCCAG
Seq C2 exon
AACTTCACAGGGCGAGGGGAGCCCGACTCAGTTCGCTGTGATACACCAGAGCAACTGTTGCTAAAAGGCTGCACATCTGAGTACCTCGTGGACCCCAAGAGTCTTGCTGAATCCCAGGAAGACAAGGAGAGGGACCAGAGGCAGCTGTCTCCACGAAATGTGACAGTTTTCTTAAGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000000157-Itgb2l:NM_008405:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.279
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PU(11.8=56.7)
A:
NA
C2:
PF0036213=Integrin_beta=FE(41.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGTCTCAGTTGTGTACCAAGG
R:
CCGGTCTTAAGAAAACTGTCACA
Band lengths:
270-1283
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: