MmuINT0070227 @ mm9
Intron Retention
Gene
ENSMUSG00000089736 | Gm14378
Description
predicted gene 14378 [Source:MGI Symbol;Acc:MGI:3833469]
Coordinates
chr8:4250849-4251423:+
Coord C1 exon
chr8:4250849-4250921
Coord A exon
chr8:4250922-4251292
Coord C2 exon
chr8:4251293-4251423
Length
371 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TGTCACCCCCTCTCCCCCAGAGA
3' ss Score
9.52
Exon sequences
Seq C1 exon
CACCCCCACCCCCAGGCCCGCCTCCTAGAGCTTCTCTCAGCGGCCCCCAGCTCCAGAGACCCCCAGTAGGCAG
Seq A exon
GTAAGTACTGGGTGTGAAGGTCTGAAGCAAGAGCTATGAGAAGGGCATGGTGGTAAGGATCGTTCTTAGAGTTTACTCATGGGACTCCAAGTACTTTGTGCATTCATTTAATCTTCTTTTGAACAACATTCAGATAGATAGAAGAAGAATGCTTTTATGAGGCTAAGTAACTTGTCAAAGGTGGAGCTGCAAATGGAATTTGGGAGATGGGGTCCCGAGCAGTGAAGAACGGGGTCTTTAGGACTTGAACAGATATGTAAGAGGGATTTATACAGTTTTAGTTTCACACACCCCAATACATAGATTGGTGAAGGAAGCCAAAGCTTGTTGGGAGAATGTGACCTGAGCCTCTGTCACCCCCTCTCCCCCAG
Seq C2 exon
AGATGGCACCACCCAGTGAGGTCCTGAGATCCACTCAGCCGTGGTTTACCGTTCAGAAGGCCTCCTGCGTGTCTTCTCTCCCCTCTCCCTGTCCTCACTCCCCTGTTCAAAATAAATTGGTGACCTGCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000089736-Gm14378:NM_001195258:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGCCCGCCTCCTAGAG
R:
AGCAGGTCACCAATTTATTTTGAACA
Band lengths:
190-561
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: