DreINT0083053 @ danRer10
Intron Retention
Gene
ENSDARG00000042282 | itga6a
Description
integrin, alpha 6a [Source:ZFIN;Acc:ZDB-GENE-050309-23]
Coordinates
chr9:3491606-3492282:+
Coord C1 exon
chr9:3491606-3491733
Coord A exon
chr9:3491734-3492192
Coord C2 exon
chr9:3492193-3492282
Length
459 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
AACTTCCGTCTTCTTTGCAGGTC
3' ss Score
10.08
Exon sequences
Seq C1 exon
ATACTGGAAGGCAAACAACACAACACTAAGATGTTTGGATATTCCCTTGCTGGAAATATGGACTTGGATCACAACTCGTACCCTGATCTGGCCGTGGGGTCACTTTCTGACACAGTTTTCATATACAG
Seq A exon
GTACCAAAATGCTAAATGTTCATGCTAAACGTACAATATGTACAATTGGTTCATTAAAGAGTATCCAAAAACCACTAGAGAAGTGCTATGTTTTGCTGACTTATGTACTTGCATTGTCCTAATTGTTTTGAAGGATGTTCAAATCCATAGAAATTATCAATTTTAACTAGTGAGACGAAGCGTGTGCTGTGTGTTCATGCTAACGACGTCACACACCCACCATTTCTGGTTTGGTTTTCTAGAAAACAGCAGCAAGGCTTTAATGTGTTGTGTGTTTTATTCAACTGCACAGAGCAGCATTATAACTGAAGCCTGAAATGTATTTAGTCTGATAAAACAGAGCGGCTCCTTCTCCGCATGATCAAAAGCTGAAGAACAGCAAGTGGTGGACTGTGGCATAATAAAAGCCACCCCCCCCCCCCCCCCCCCCCCCCGTAGTAACTTCCGTCTTCTTTGCAG
Seq C2 exon
GTCCAAAAATGTCATCAGCATCAAGAAAGACATCAAGGTGACACCGAAGGAAATTGACTTGACGAAGAAAACATGTGGCAACAGTATTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042282:ENSDART00000114168:9
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:
PF0183918=FG-GAP=PU(88.6=72.1)
A:
NA
C2:
PF0183918=FG-GAP=PD(8.6=9.7),PF084417=Integrin_alpha2=PU(6.2=93.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGGAAGGCAAACAACACAAC
R:
AATACTGTTGCCACATGTTTTCTTCG
Band lengths:
214-673
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]