MmuINT0001104 @ mm9
Intron Retention
Gene
ENSMUSG00000038987 | 1700019L03Rik
Description
RIKEN cDNA 1700019L03 gene [Source:MGI Symbol;Acc:MGI:2447809]
Coordinates
chr2:32633348-32633803:-
Coord C1 exon
chr2:32633637-32633803
Coord A exon
chr2:32633538-32633636
Coord C2 exon
chr2:32633348-32633537
Length
99 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CCCTGGATCCCTCTCCACAGCCA
3' ss Score
8.61
Exon sequences
Seq C1 exon
ATGCAAACAGAGGCGGAGGACGGCGACTTTGATGTGGTGTTCCAACTGCAGCGCAAGGAGCTGCTGCAGCAACTGCTGGTATTGCTCAGCTCAGGGGTGGTTTTGAAAACACAGCCGGACATGGGTTCCCACCAGGACAAGCAGCCCCAGGGCCTATCCAAAGAAAG
Seq A exon
GTGAGCAGATAGCCCTGTGGGGGCCTCAGCAGACCCTGGCTCTCCAATATTTTTCCTCTTGTGGGGATGGAGGGGATGACCCTGGATCCCTCTCCACAG
Seq C2 exon
CCAACGCATCACCCAGACATCCAAGGAAGGGGCTGTTTCTCTGCTGCAGCAGCTCTCGACCATCACAACCTATAAGCCAGGGGATCTTGGGCTGGTGCCTCGACGTCCGGTCCGCATCCCACTCAAACCCCAGGATCTCAGGCCCCTCTCCTATATCACCCGAATGGGGATCTGCCAGAACACGAATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038987-1700019L03Rik:NM_025619:7
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.357 A=NA C2=0.109
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:
GAGGACGGCGACTTTGATGTG
R:
CCTTGGATGTCTGGGTGATGC
Band lengths:
178-277
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: