DreINT0083096 @ danRer10
Intron Retention
Gene
ENSDARG00000056018 | itga6l
Description
integrin, alpha 6, like [Source:ZFIN;Acc:ZDB-GENE-040914-57]
Coordinates
chr14:41186014-41186492:-
Coord C1 exon
chr14:41186255-41186492
Coord A exon
chr14:41186113-41186254
Coord C2 exon
chr14:41186014-41186112
Length
142 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
TTCTCTTTTTCACCCTTTAGGCA
3' ss Score
9.94
Exon sequences
Seq C1 exon
ACCTGTGCACACAGATACCAGGATTGGAGCTTCACTAATCAGCGGTTATTGGGCAGATGCTTTGTCCTGGGACAGGACCTTGTATTGGGGACGGATGGAGCAGATACGAGATCATTTTGTAGGACTCGGGAGACAGATAAACACAACTTTGGGTACTGTCAACAGGGTCTCTCTGTAGCTTTTTCCAAAGACAGCAAATATCTTGTTTATGGAGCTCCAGGAGCATATGACTGGAAAG
Seq A exon
GTATTGCAAAGCAACAGGAAGGTGGTTCTTTACTGATAAAGTAAACCTTTACATTTGCAAAGTATTCCTTGTAACTTCCAAATACAGCAAAATATGTCATATGAAGTAATTGATAATGACATTTCTCTTTTTCACCCTTTAG
Seq C2 exon
GCATTGTGCACATGGAGCCTGTTGAGGACTTCTCTCTGGAGATCTATGAAACAGCAGATGAACACGAACTCAATCCTGTGGACATCAGCAGCTTTTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000056018:ENSDART00000149244:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.006 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:
GGACGGATGGAGCAGATACGA
R:
AAAGCTGCTGATGTCCACAGG
Band lengths:
245-387
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]