DreINT0131135 @ danRer10
Intron Retention
Gene
ENSDARG00000017010 | scamp2l
Description
secretory carrier membrane protein 2, like [Source:ZFIN;Acc:ZDB-GENE-030131-6432]
Coordinates
chr7:56794600-56795001:+
Coord C1 exon
chr7:56794600-56794677
Coord A exon
chr7:56794678-56794886
Coord C2 exon
chr7:56794887-56795001
Length
209 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
CTTTGTGTTTCCTCCTTTAGGCA
3' ss Score
11.79
Exon sequences
Seq C1 exon
GATGGACACAGGACAGTCCCTTTGTCCGCCACTTCTCAGCCAGCGGTCCTTCAGACAACAGTGGAGCCCAGTCCACAG
Seq A exon
GTTAGTGCAGTGTTATGTTGAATCATCAAAGCACACACGCGTATGGTGATTTAAATTTATCACTTATATCATTATATATATATATATATATATATATATATATATATATATATATAATGTATTATATTTATTACTAAATCATTAATGCTCCTAAAGGTGGCATTCCTATTTTCATGCTTGTATATAACGCTTTGTGTTTCCTCCTTTAG
Seq C2 exon
GCAAGTGTAGCCTCAGGACAGGCTGAGCTCCTCCGTCAGCAAGCGGAGCTGGAGAGAAAAGCAGCAGAGCTGGAGCGAAAAGAGCAGGAGCTTCGAGATCGTGATGCTGCACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000017010:ENSDART00000024076:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.664
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:
GGACACAGGACAGTCCCTTTG
R:
GTGCAGCATCACGATCTCGAA
Band lengths:
187-396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]