DreINT0062604 @ danRer10
Intron Retention
Gene
ENSDARG00000053864 | elmsan1b
Description
ELM2 and Myb/SANT-like domain containing 1b [Source:ZFIN;Acc:ZDB-GENE-131121-13]
Coordinates
chr17:37375371-37376798:+
Coord C1 exon
chr17:37375371-37375731
Coord A exon
chr17:37375732-37376731
Coord C2 exon
chr17:37376732-37376798
Length
1000 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
TTTTGTTTGTATTCGTTCAGACA
3' ss Score
6.03
Exon sequences
Seq C1 exon
AATGGCGGAGCAGAGAGCGGGAGTGAAGCTGACAGCAAATCAGCCAAAGCCAAACGACGTCCTCGTCCAGAACCGCTCTTTATCCCCCCACCCAAACTTGGCACTTTCATCGCCCCACCGGCCTACTCCAGCATCACACCCTTCCAGAGTCACCTACGATCTCCTGTCCGATTGGTGGACAACCCCCTCAACATGCCGCCTTACACTCCTCCGCCCATCCTCAGCCCGGTTCGAGAGGGTTCGGGTCTTTACTTCTCCACGTTCTTGTCGGCTGCGGCTGCTGCAGCTGCTGCTGCTAATAATCAGGTGCTGCCCCCGCCTGCCACTCCCAAATCAGCCACCCGCAGCCTTCTGCGCTCAA
Seq A exon
GTGAGTTCCCTTGACTTTATCTCTAATAAAGCTCATTAAATATCACTTTGATTAGAGTAATCAGCATTTACAACTAAATGAACTGAAATTCGCGATGAAATGCAACCTAAATAAACAGGCAGTCTAGATGCAGATCATATAGCCAGCTATATAGTCTTAACTGTAATACAAGCTTACAAGGGACTGAAGAGCTTTCTAAATAGTCACTCATTTATCTCAGACAAATAGAGATTCCCAAGAAAATGGTTTGAATATCCTGGTAGAGGGTCACAGACTGTGATCACAGCTATTTATTTACTTGCATTCAAAACCTAGATTACTAGAATACTAGATTTTTGTATGGTACATGTGATATGATTTGATATGATGTAACATTTGTAACACTAGTTATGTATCATAATTCTAGTGATGCAGTGTGATTGTGTTATATAACAGATTTTTAAAATTATTTTCCCAATATTGTTGCAAAAAAAGTAGCAATATTGTATTTATTGTAGTTTCTGTTTACAGATATAGAGGTATACATAATTATAACAACTTTCCCTTTTTAAGGAAAGGCCAGATATGAGAAAAATGTCAATTTGGTATCTAATTTTCATGGTAGCTTATGTTGCTAAGCTAAAGATTATTGTCTAAGAGTTCCCCAAAGATCCATTATAACAAATATTGAGTATAATAATGGGTACAAAAATATTGGTTATAATTTTCTTTTAATCCAAATTTAAATATATAGATTTTCAAAATTGTTGTCTATAAAATAAGGTACCCCAAAATTTGTGCGCTTTAAATGAACTCTGTCACAGCTTTAAAATCCTGTATAAATAGGCTCCTCAGTAGACTTGGTACAACTAAGATGGTTTATATTTTCCAGCAAGCCAGGTTATATGTAATTAGTCATAATCATGCTGCATATCTTGTATGGGAGGACATATATATACTGTAATAAGAAACACTGTTTACTTTGAGTCTAAGTACAGTCCTTTTGTTTGTATTCGTTCAG
Seq C2 exon
ACAGCAGCGATATTACCCCTCCAGTTCTCTCAGCTATAAGTGAAGCTACACCTGTCAGCATTGAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000053864:ENSDART00000157122:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.587 A=NA C2=0.000
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:
GACAGCAAATCAGCCAAAGCC
R:
TGGAGGGGTAATATCGCTGCT
Band lengths:
354-1354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]