DreINT0083043 @ danRer10
Intron Retention
Gene
ENSDARG00000042282 | itga6a
Description
integrin, alpha 6a [Source:ZFIN;Acc:ZDB-GENE-050309-23]
Coordinates
chr9:3501624-3501891:+
Coord C1 exon
chr9:3501624-3501703
Coord A exon
chr9:3501704-3501813
Coord C2 exon
chr9:3501814-3501891
Length
110 bp
Sequences
Splice sites
5' ss Seq
AACGTATGT
5' ss Score
7.69
3' ss Seq
AAATTATTGCTGTCGCCTAGAAC
3' ss Score
3.65
Exon sequences
Seq C1 exon
GTAACATTCTACATCATACTGAGCACAGGCAAGATCTCACTCGAGACCAAAGAAGTCGAGATTGATCTTCAGCTGGAAAC
Seq A exon
GTATGTCTAAAAACACTTGATTTTAATATGTTTGATATATTAGTGTCAACGTCACCAGAAAGCTTGTTTAAGTATGATGAATGTATCTTGAAATTATTGCTGTCGCCTAG
Seq C2 exon
AACGAGTTCGCAGGAGGGTCTGAGCAAAGTGAAGGCCAAAGCCAAAGTGGTGATTGAACTGCTTCTGTCTGTACAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042282:ENSDART00000114168:17
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:
PF084417=Integrin_alpha2=FE(5.6=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(5.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATTCTACATCATACTGAGCACA
R:
CCTTGTACAGACAGAAGCAGTTCA
Band lengths:
155-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]