MmuINT0070147 @ mm9
Intron Retention
Gene
ENSMUSG00000075425 | Gm13547
Description
predicted gene 13547 [Source:MGI Symbol;Acc:MGI:3650473]
Coordinates
chr2:29617048-29619022:+
Coord C1 exon
chr2:29617048-29617326
Coord A exon
chr2:29617327-29618914
Coord C2 exon
chr2:29618915-29619022
Length
1588 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCTG
5' ss Score
4.87
3' ss Seq
CCTGCTCTGTTCTGTGACAGGTG
3' ss Score
11.34
Exon sequences
Seq C1 exon
CACAGACTTCAGACAGTGACTCCCGCTAGGACAGAGATGGCTTCCTCTGGCCATGATGTTAGTACTTCTTTCGTGATTCTCATTCCCCGAGAGACATCTGCCAGACGAAGGAAACAGGCCTCAGCCCTGCTGAAGGAGGAGACCCGAGTGAGGGCCACATCCTGCTGGAGTTGGGTATGGGGAGAGGAACGGAGAGAGGCAAATGAAGACAATCAGTTAGAGCCGAATGGCTTTGCAGTCATCAAAGCTGACCCTGGCCAGGTGTTCTGGTCTGCTCAG
Seq A exon
GTGCTGGGGCTTAACCTGTCAGCTCAGAGGTGGCACGTGAGGTGGGGGCAGAGGGATGGGGCGGATGGGAAATGACTAGAGGAACTACCAGCCATTTATGAGACTTTTGCTATCCTAAAGGCCTGAAGAGCATCCATTCCTCGCTGGGAAAAGTCTGATCTGTTCCAGTTTCCTCAGAGACCATTCAGACCAATCCCTTGCTCTGTGGCTAAGAACTTTGTGGTTTTAAACCATCTCTGAGGTTAATGGATGGCTTTCTGGGCCAGCAGGACTGCTCAGTGGAAAGACACTTGCTGCAAACCCTGCAAATCTAATGTCCATTCCCGAGACAGAACTGACACCCGTGCCTGGCCGGCTACTGTCACCCTGCTCTTCTCTATTAGATTCAACCTCCCGGATGCTGCAAGCCAAAGGGCAGCCATTGTTCTCTGCTTTATCCAGTTGTTTCTGAATTGACAAACACAGCCAGTGCGTGGGTCTGGGAGGAGGGAAGGCAGGAAAGCAAGAGAGGGGAGAATGGTTATGTTGACCATGACGATGAGTCTGTCCCAGGAGCAAGGCCTATAGTCGGGGCAGTTAGCTCTCTGCCTCCTGGACTTGGCACGTGTACCTGCTGTGGCTGCCACAGGTCAGAGCTCCAGAGGGAACTAGGTCCTTGGGTGTTCAGGAAGGAGACCCTGCAGCTCCTGCTTTGAGCTCTGGCCCTTCAGAATGCTACCAGGTGGCCTGAAGCCTGGGCAGGCATGTCTGTACCCCAGTAGCTCCCAGCATGTGCGACTGTCCTGTGCCTGCTGCTCTGCTACCCCGCTTGCCCCGTCCCCTCATGTCCATGGGGCACATGGGCTGCGCTGCCAGACAGGCTAAAGAACAGGTGTGGTGGGTGTGCTCACACCCTGGAAATCTCAGAGATCTAAGATGGTAGGAGAGGATCTGTCCCCTCACAGCCTCTCATGCCTGCTCTGAAACATGTAACTACACCACTGAGAGGACCACGGGCAGTCAGCCATAGAATGCAGCATATGGAGTCCTTCCCCCATGCAAATGGTAGAGCATCACCAACATCCCAAACTTGGCCAATACGAAACCTTTACCTGCCCCACCCCATCCCATCCCACCCCACTCCCCAAGGTTCTTGTAGTCCCTGTCCACATGGAATAAAGCACACAAGTTACTTCACCAAGGATCGTTTGAAAGTGGCTGTCTTTACTGAGCTGTAACGCTGGAGAAGAATTCTCTCTCTCTCACAGAGCCTTTATCATTGGATCTTGGACCCGCCTGGCTGGCCAGGTTCCCACTGCCTGCAGAGGCTCACATCAGAGTGGCAGCAGCTCACACCACCAGTGCAAGCCACCCAAACTCCTTTTTTCCCTCTTTTAAGAGCTGGGAAACTCCCAGCATTCCCAGCTGAACCAGAGTCCAGTGGATGTTCATGCCAAACTGCGCTTTGCCATCCTCGGTCTGGTGTGCAGATATGTCTGATACCCTAGAGGGAAGTGGGCAGACTGTGGACCACGAATGTCCATGGCAGTGAGGAGCCTCTCTCCCACGTGGTCTTCTAATCCTTCACCCCTGCTCTGTTCTGTGACAG
Seq C2 exon
GTGCCCACGGATGGCACTGCTCCTGCACCGCCAACCACTGATGACACTATGTTTCTTGGTGTCGTTCCCTGCCCAGATGCTGATCTCATTAGTCGGGTATCACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000075425-Gm13547:NM_001177392:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.321 A=NA C2=0.593
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
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:
TCAGACAGTGACTCCCGCTAG
R:
GCAGGGAACGACACCAAGAAA
Band lengths:
343-1931
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: