MmuINT0112734 @ mm9
Intron Retention
Gene
ENSMUSG00000028256 | Odf2l
Description
outer dense fiber of sperm tails 2-like [Source:MGI Symbol;Acc:MGI:1098600]
Coordinates
chr3:144789057-144790854:+
Coord C1 exon
chr3:144789057-144789189
Coord A exon
chr3:144789190-144790794
Coord C2 exon
chr3:144790795-144790854
Length
1605 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGT
5' ss Score
9.54
3' ss Seq
TTCGATGATCTTTCTTACAGATA
3' ss Score
9.11
Exon sequences
Seq C1 exon
GCTCAAGCAAGACGTCGCAAATACAAAGATGGAGTTGAAAGCAACGCTTAAGGAAGCTCAGTTGGCATCCTGTTCAGTTGAATTACTTTTGCCATTATTTAAGAACACTGTGGAAGGAATTAGTCTAGAAAAC
Seq A exon
GTGAGTGTTGGACTTAGAATGGCTAATGAGATGGGAAGTGAGCATAATATTCAGAAGGCCTTGACCAAGGACTCAGATCTCAATGTCATGCCCATGAATGCGCTCATGATACCAAATATGGGGGCTGGGGTAAGAATTCTTTATTCCTGTCATTAGCTGCAGTTCTTCTTATAAAAGGTTGTCTCAGCCTATAGTGTACTTAGTAAGAGACTAGAGTGGAAAGTACAAATTGGTATGTGACTGACCTGGCCTTCAGCTAGAGAATGAAACTTTCTGAAGGGTGGATTTAAAACTAAAATTGTGGTGTGCAGAGATGGTTCAGTGGCTGATCAGTTGCAGAAGAGATGGTTCCCACTTCTGGCCTCCATGGGTACCAGACACACACAGTACACAGACTTGCAGACAAAACACTCATTTACATAAAATAGTAATAAATAAATCTTTTAAAAATAAAACTCCCGAGAGATGCCATGTATCTGTTTACTGTGGCATCAGTTGGAACAGAATGATTTTACGATTTCAAATATGCTTCACTTTGGAACAAAGACAGCCTGTGGTCTGCACATTAGCAGAACAAATACTTCAAAGCTGTGGGGTTCTACAACTTCCTCTTATTTTGATTTAACCACTGTGTAGTGCATTCTGTCTGTTATTGGTAAACTTGCCAGGGCTTACCAATACTATATTCAAAATAATGGTTTTGAAACTAGGAAATAGTTCCTCACTGATAATACTCTAGGGTGTTTTACTTAATGTTGTCTTAACATGTAGGTATGTGCTTTTTTTTATTTTGTCAGGCTAATCTTTCTGCATCCAGTTTGAAGAAGATTTTTGAACAGAACGACATATTATCAAAAGAATTAGACACTTTTAACCGTGTGAAATTAGCCTTAGAACATCTTATTAAACAGACTGACTATGAACAAGTAAGGCTCCTGTGCTGTGTCTGTAGTGATGCCTCCCACTTGGAGGATATTTTATTTCTCTAACTGAATATAAAATATTGGTATATGGAAACAAAAGTAATTCTTTGAATTTTTGTTTGAAATATAATTATTAAACTTCTACTTTAAGTATTAATTTATCTGGCTATAGAAATGTTTAAAATTCTCATAGTTTTAGCTCTCATGTGTATCATTATTTATACACACTTTCCCCCCACACAAATAAAAGGTACAGTGTAGTCACACTGTGTGCATTTCATATTCCACACAGTCTATCTGCAGAGCTCAAATTAAGAAATAGTTACTAATTTAAGGGCCAGGGATATAGTTCAATGGCAGACTGATTAACTGTCATAGGCTATGCCCTGGACTCCACCCTCAGGGAGGGAGGGAAGAGAGTGACTGTAGAGTGCAGTTACTTAGGACATTGGAATTAAGATATTCAAACTAGAAACCAAAGCAAACTATTCAAATGTAATTATATCAACCTAAAAAGCGTCTAAAGTAAGATAGCATAGCATAGAGGAAGACTACAGAATAGGAGAAAATACTGGCAACTCCCTTCTTGCAGAGCATTGATATCTGTAGAAAATGAGCCCCCAAACTTGACAGTAATAATGCTTAAAACTGCGGTTTTAAACTTCGATGATCTTTCTTACAG
Seq C2 exon
ATAGGAGACAGCTTGCTATGCTTGTTGAAGGATCTCAGTGACAATGAAAGTGAGAACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028256-Odf2l:NM_001162539:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.019 A=NA C2=0.056
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
Other Skipping Isoforms:
NA
Associated events
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:
CTCAAGCAAGACGTCGCAAAT
R:
TGTTCTCACTTTCATTGTCACTGAGA
Band lengths:
190-1795
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: