MmuINT0001099 @ mm9
Intron Retention
Gene
ENSMUSG00000038987 | 1700019L03Rik
Description
RIKEN cDNA 1700019L03 gene [Source:MGI Symbol;Acc:MGI:2447809]
Coordinates
chr2:32636162-32637145:-
Coord C1 exon
chr2:32636874-32637145
Coord A exon
chr2:32636316-32636873
Coord C2 exon
chr2:32636162-32636315
Length
558 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
TTGTGGCCCCTGATGGGCAGGGA
3' ss Score
2.95
Exon sequences
Seq C1 exon
GTATCAGCGGAAATGGGATGAACTGGCTGTGCGGGAGAAGCTGTTCCATCAGGAGTTCGAGCAGCTGGCCAACAACAAGAAGGAGATTGTGGCCTTCCTCAAGCGCACGCTGAACCAGAAGGTGGATGAGATCACAGACCTTAATGACCAGCTGCAGAGCCTGGAGGTGGCCAAGGATATGGAGAAGGACGCGTTCGAGGCCCAACTGGCCCAGGTGCGCCATGAATTCCAGGAAATCAAGGACCAGCTCACCACAGAGAACATCGCCCTCG
Seq A exon
GTGAGGGGGCCAGGGGACCTATGGGCACACACTAAAGGCAGCAAGGCCCAAATCCACAGCTGTCACTGGCTGCGGCGGGGCCTCACCTGGGAACTAGGGATACCACAGCTCCCTTGGGTAATAAGAGCTGTATGCCACTTCAAACACTATCTGCCTTAATTGTCCTTGCATTCCCAAGGCCAGAGATGCTCTCCCTCCCGCAGCTCATAGATGAGGAAATGCTTCAAAACAATGGAGGATTTTATCTATGCCACCCATCTGAAAGGGGAGGTTGCGACTTGTCTGCCCAGGGTCAGCTGCTGCTGTCTCGGTCACTCTTATGTGGGGAGGTTTCAAAGGGGACTTTCTGAGGAGGATCTGAGCAAGGTTTGCTGAGCTTAGAGTATGTGGTAAGGCAGAAATGCAGTGGCTGTGCGGGGCCAGCCATGGCACGTGCAGACCAGTCCTGTTGGGGAAGGTGGCGAGGTAAGACAAGAAGAAAGTTTACGACCTCAGAGGGGTGTGGGTCAAGGCTCTCAGCAGCCGCTCCTCACCAGCCTTGTGGCCCCTGATGGGCAG
Seq C2 exon
GGATCAAGCTGAGTTCCCTGGAAGAATTCCGGCTGCAGAAAGAGGAGCTCACGGAGAAGTACTTGGCACTGGAGGAGCAGCTCCATAGGCAGGAGGGCGAGTACAAGGAATACGTGTACAACCTGGAGAAGAAGTCTGTGCTGGACAAGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038987-1700019L03Rik:NM_025619:2
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=0.000
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:
AGGAGATTGTGGCCTTCCTCA
R:
CTGTCCTTGTCCAGCACAGAC
Band lengths:
346-904
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: