MmuINT0003728 @ mm9
Intron Retention
Gene
ENSMUSG00000026940 | 4921530D09Rik
Description
RIKEN cDNA 4921530D09 gene [Source:MGI Symbol;Acc:MGI:1924308]
Coordinates
chr2:25465990-25467066:-
Coord C1 exon
chr2:25466966-25467066
Coord A exon
chr2:25466151-25466965
Coord C2 exon
chr2:25465990-25466150
Length
815 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
CTCTGCCCTGGTCTGGTTAGGAC
3' ss Score
6.85
Exon sequences
Seq C1 exon
TGAAGAAAAGAAAAACTTCCGTAGCAGACATACAATACCAGACAAAAGTGACTACTTTGGTAGAGAGGGTCAAATCTGCTGTGCAGTGCTCCCACCTCTGG
Seq A exon
GTAAGTCTCCCTGGTACTTGGTAGCCAAGTTAGGCCAGGGCCTGGGATACTCTGCAAAACGTTCACAAAGATTAGACCTCCCATGAAGGTCCCCAAACATGATAATCCCAAGCCTGGGAAAAGTCTGGGGTTTTTGAGGTATGTAGCTCAGAAAAGAAGATACCCTCAGGGCCAGGCATGGTGGCGCACACCTCTAATCCCAGCACTTGGGAGGCAGAGGCAGGAGAATTTCTGAGTTTGAGGCCAATCTGGTCTACAGAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCAAAAAAATAAAGAAAGAAGATATCCTCAGCACATGGCTGGCTTGTCCCCACCATGTTCCATGTTCAGGACAGAGCCTACCAGAATCTGAAAATCCAAATGCTAGGAACCTGGCCTCTCGCTTCTGCTCTAGCCCCTTTCCAACTTGACAGCCACAGCGAACAGCTGCTTCTTATGGCCTTCTTTTGTCATAGACCCTCCTGAGTTCCCATTGTCAGGCCTTGAGCGCCATCCATAGCATCTTGACTGAATGTGATACAAGGTGTCTTCATGGTAGGTGAGGTTATTTATCCTCTGCCTACCATGAAAGCGATGTAACCAGGCTATATACAGGCTACCATTCTGCCCAGCTCCTCACAAACCTCAGCACCCAAAAGCACTCAGGGTCATGACTGAGCCCCAAGTACCAAGAATGTGCACTATCTACTACAAGGGGCCCCCGAGATACCAGGGCTAGGAAGCCCTGCTGCCTCCCAAGCCCACACCTGTGTCTCTCTGCCCTGGTCTGGTTAG
Seq C2 exon
GACATAGCTGGCCGCTTCCTAGCTCAGAAAAATACAGAGGAGAACCTGGAGCTACAGATGGAGGATTGCGAGGAGAGGCGGACACAGTTAGAGGCCCTGATGAAGAAGCTAGAACTTGAGGAGGCTGTGCTCAAGTTCCACCAGACTCCCAGCGCTGTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026940-4921530D09Rik:NM_029859:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.111
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
Rat
(rn6)
No conservation detected
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:
TGAAGAAAAGAAAAACTTCCGTAGCA
R:
CCAACAGCGCTGGGAGTCT
Band lengths:
262-1077
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: