DreINT0083312 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13116977-13117383:+
Coord C1 exon
chr8:13116977-13117138
Coord A exon
chr8:13117139-13117269
Coord C2 exon
chr8:13117270-13117383
Length
131 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGT
5' ss Score
6.36
3' ss Seq
TGTTTTCTGGTCTTCCTCAGGCT
3' ss Score
9.99
Exon sequences
Seq C1 exon
GAGATCTTCGCTCCTTCCAGGTGAATGGCAATGCAGCCACTTCATTGACTGTCTCTGACCTGAAAGAAAACATGCCTTACAAATTCAAAGTTCAAGCTCAGACCACGCAGGGCTTTGGCCCAGAGCGAGAGGGAATCATCACCATCGAGTCCCAGGATGGAG
Seq A exon
GTTTGTGACTTATTATGATCCAGTCAAATCTCAAAGATTTTTATATCACAGTGTATTTTGTGATGTCTTTGAGGATGTGGCTGGTAATGATGAAGTGTGTTTGCTAAAGCCTGTTTTCTGGTCTTCCTCAG
Seq C2 exon
GCTCCATGTCCCAATACAGCAGTCAGTCGGTCACGAAGAGAGAGGTGTTCAATCTGCCCACAGAAATCACACACACTTCACACACCATGTTCTCAGAGCCCTTTGTTTCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.564 A=NA C2=0.615
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(48.8=76.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCAGGTGAATGGCAATGCA
R:
GGGCTCTGAGAACATGGTGTG
Band lengths:
249-380
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]