DreINT0133599 @ danRer10
Intron Retention
Gene
ENSDARG00000100594 | sez6l
Description
seizure related 6 homolog (mouse)-like [Source:ZFIN;Acc:ZDB-GENE-091204-162]
Coordinates
chr10:44803560-44804371:+
Coord C1 exon
chr10:44803560-44803731
Coord A exon
chr10:44803732-44804201
Coord C2 exon
chr10:44804202-44804371
Length
470 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
AATCTTCCTCCATGATTTAGGCT
3' ss Score
7.19
Exon sequences
Seq C1 exon
CTCTGTGTGGCGGTGTTGTTAAGAACGCAACAGTGGGACGAGTGTTGTCCCCCTCACCCCATTCAGGCCCCAACAGCACTCTGGACCGCAGCTGCTCATGGTCTCTGGAGGCTCCAAGCGGCCAGCGGCTGCACCTACACCTGGAGAGAATGGTGTTGGGCACCACAGACAG
Seq A exon
GTAAACCCAGGTACCATCAACATCAATGCATGCTTCTCCTACGACAGCTCTGCTAGAATTGTTATGTTGGGGCTGTTTTTGCCCTATTGACTTCCATTATAATCACATTTTTGGATTACAAATCTCTGTGTCGTTCAGACTGACTCCCCTTTGGTTATGTTGGTTTGTTTTTGTCCCACTGACTTCCATTATAATCACATTTATTGATTGCAAAGCCATGGCACTCTTGATTGGTGCTGGTTTTCACTGTTGGACCCATCTAAAGGGATAATGATGACAACTGATGATCAACAGTAAAATGACAAATGTTACCTCTTAATCCTAACAGGGTAAATCAGCAGCAATCAGTAATGCATGATTATCTGCTGTCATGGCTTTGCAATCAATTAATGTGATTATAATGGAAGTCAATGGGGCACAAACAGCCCCCAACATAACCAAAGGTGAGTAAATCTTCCTCCATGATTTAG
Seq C2 exon
GCTTGTGTTATGGAGTGGTCTCGACGCTGGTTCGGTGGTCCTGTTTGATTCTGGACGTGGAGGTCCGATCCCATTTGAGGGAGTGATCAGCGAAGGTCCGGCAGTTCGGGTTCAGTTTATAACAGACCAGCCGAACAGCCACAACACCGGCTTCAATATACGATTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100594:ENSDART00000172128:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.198 A=NA C2=0.043
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(49.5=94.8)
A:
NA
C2:
PF0043115=CUB=PD(49.5=94.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGTGTGGCGGTGTTGTTA
R:
CTTCAAATCGTATATTGAAGCCGGTG
Band lengths:
342-812
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]