DreINT0062593 @ danRer10
Intron Retention
Gene
ENSDARG00000011445 | elmsan1a
Description
ELM2 and Myb/SANT-like domain containing 1a [Source:ZFIN;Acc:ZDB-GENE-041001-151]
Coordinates
chr20:25993008-25994940:-
Coord C1 exon
chr20:25994628-25994940
Coord A exon
chr20:25993075-25994627
Coord C2 exon
chr20:25993008-25993074
Length
1553 bp
Sequences
Splice sites
5' ss Seq
CAAGTGTGT
5' ss Score
3.84
3' ss Seq
CTTTATTTCCTATTTTTCAGGCA
3' ss Score
9.76
Exon sequences
Seq C1 exon
GGTAAAGGGCAAGATGACAAATCAAAGCGTCGTCCGCGACCTGAGCCCCTGGTCATTCCTCAACCGTGCACTTTCATCGCCCCTTCCATCTATTCCAGCATCAGTGCCTACCAGAGTAACCTGCGTTCTCCATTGCGTCTGCCGGACCATGCCATCATGATCCCGCCATACACTCCTCCGCCCATTCTGTCACCTGTGCGGGAAGGATCGGGCCTGTACTTCTCTACTGTCCTCTCTTCTATGGCAGCAGGCAGTCAAGTTTTGCCACCACCACCCACACCCCGCAGCGCCTCGCGAAGCCTACTGCGCTCAA
Seq A exon
GTGTGTTCCTCTTTTTTTATAATTAGTAATAATTCACAGTAAGCGTCAAACATAAAAATGTACTAATGCAACAGTGTGCAGAAATGCACCGTTCATTTTAGCAGCTAATATTAAACTATTTTTAATGATAAAAACATATTTACAAATAAAAACAATATATATAAATAAAAATTATGATTCATTATTAGTTGATATCACCTAAACAATATTATTGTAAACTGTGGGATTTTTATCTTGACTCTTTATTTGTGTTTATTAATACTTATTAATAGGTCACTTAGTATTTAGTATTAATTGGGTATTTACGATCTATCAATTAATTATATTTTTACAGCATTTATTAGTCAATTAACAATTTAAATAAACTTCATGTTAGAACTTTTGGTACCACTTTAATTGTCCATTTAGTTAATGTTAATTAATATATTTACTGACATGAACAAACAATTAGTTATACATTTATTATAGTATTTATTCATCTTTGTTCAGTTAATGTTATTCAAGTTAAACAAAAATTCATGTTAATTCACAGTGCAATAACTAACGTTACCAAACACAATATTGGATTTTAATCATGCATTAGTTGATGTTAAACTCCATTCATTCATTCATTTTCATTCATTCTTTTGGCCTAGTCCTTTTAATGTTACACTATGATTATTTAATGCTTTAGAGATTATTTATGCTTAGTTGAAGAAAGTAAATACATTAACTAACGGACCATTATTCTAAAGTGCTTCTGTACTTTTTTTTTTACTTCTTTGCTATGGTAAAAGCAGTGGTAAAAACTATTACTCATCATTAAGTAATGTTGAATGTAACATGTTGTACCATACTTATTTATAGATGGCTCGGAAAAATAAGAACATTACTCACTTATACTATCTTAAACAGTCACAATTTTAGTTTACATTATAAACACATTGTCAACCTTACCCAGATAAATAAACTTTGCATTGTTCAATAGTTTAAGGTGCATTAAACTCTTAGGGCCCTATCATACACCAGGTGCAATGTTGTGCGAGGCATGACGCAATTGTTGTTTGCTAGTTTCAGCTTGGAGCACGAGTCATTTTGACGTTTTACGCCACGCTGTTTAAATAGCAAATGCATTTGCGTTCATATGTGCACCCATAGGCGTTCTGGTCTAAAAAGGGAGGCGTGTTGAGGTGTATTGCTGGCATGTTGCTATTTTGAGAAATTATAACAGATTTTTCAATAGACCAGAACAAAGTCGGTCTATTGTCCAGCGCAAAGCGCGTTAAAACCAAGCCTAAAACACACAAGCAGCCAATCAGCAGTAAGGGGTGTGTCTATTAATCAAAATGGGAATATCAAAAAGGGCATGTGGGATATGGGCGTCTTTGTTTTGGCATTGTTTAGTTGTCATTATATAATGTTAATGAACTAACAACATTTACCCTTATTGTCAAGTATTTATTATCATTATTAGCTGTTAGTTTAAGTATTGTGCAAACTAATGTAAACTTATAACTTTCACTATTTATGCTTATTCTTGATCTCTCTCCTTCTCTTTATTTCCTATTTTTCAG
Seq C2 exon
GCAGTTCTGACATCACTCCTCCTGCTCCTCCACTGATTGGAGAAGCAACTCCTGTCAGCCTTGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000011445:ENSDART00000142611:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.476 A=NA C2=0.652
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACAAATCAAAGCGTCGTCCG
R:
GGCTGACAGGAGTTGCTTCTC
Band lengths:
358-1911
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]