DreINT0133621 @ danRer10
Intron Retention
Gene
ENSDARG00000076052 | sez6l2
Description
seizure related 6 homolog (mouse)-like 2 [Source:ZFIN;Acc:ZDB-GENE-091204-189]
Coordinates
chr3:15105467-15106212:-
Coord C1 exon
chr3:15106023-15106212
Coord A exon
chr3:15105631-15106022
Coord C2 exon
chr3:15105467-15105630
Length
392 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGA
5' ss Score
5.17
3' ss Seq
CTCGCTCCTCCCTTTCCAAGGCT
3' ss Score
7.94
Exon sequences
Seq C1 exon
TTAAAGCGGTGTCGTGTGGAGGATGGATCAGGAATGCTACAGTTGGTCGCATCCTTTCTCCAACCCTCCCCTCTGCAAGTAACCATAGCAGCGGAAGCAACCTGAGCTGCCATTGGCTGCTGGAAGCCAAGGAAGGCCATAGGCTCCACCTCCACTTTGAAAGGGTGGCTCTTGATGAAGACAATGATAA
Seq A exon
GTAAGAGTTCACGATCCCACACTCTTCTGTATGTCTTCTCAGATGAGCACAGTTTTAATTATTTGTTAGTGGATGAACAAACGAAGCACATAAGTGTGATTTTTCCCCTTAGAAAACAATATAAAATGGTATAAATAAAGCCTATTATCTGTGCATTTGTTTTTAAACAGAAAAATAAATGAGTTCCGGTACCTGCTTTACCTGAACTATTTGGTGTTTTTAATGTATTGTGGTTTGATTATTGTATTTGCTCATTCAGTTGCCATGAAATATTCAGTTTTTTTAACAAATGTACAAGCTACACAGACATAAGCATCCATGAGATCCTTGCAAAATCAATTTTTCACCTTTTTCCTTCCTGTCACATTTTCTCTCGCTCCTCCCTTTCCAAG
Seq C2 exon
GCTGATTGTACGCAGTGGGAATAGCACGACAGCACCGCTCCTCTTCGACTCGGATCTGGATGATGTTCCGGAACGGGGCTTTGTGAGTGAAGGATCGTCTCTCTTTGTGGAGCTCACGGCAGATTCCTCCTCCATCCCACTGCTGCTGGCACTCCGCTATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076052:ENSDART00000142594:7
Average complexity
IR
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:
PF0043115=CUB=PU(55.2=93.5)
A:
NA
C2:
PF0043115=CUB=PD(43.8=82.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTAAAGCGGTGTCGTGTGGAG
R:
AGCAGTGGGATGGAGGAGGAA
Band lengths:
334-726
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]