DreINT0083282 @ danRer10
Intron Retention
Gene
ENSDARG00000028507 | itgb4
Description
integrin, beta 4 [Source:ZFIN;Acc:ZDB-GENE-030131-7209]
Coordinates
chr8:13083625-13083953:+
Coord C1 exon
chr8:13083625-13083792
Coord A exon
chr8:13083793-13083876
Coord C2 exon
chr8:13083877-13083953
Length
84 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACA
5' ss Score
8.92
3' ss Seq
TCTGCTTACTTTATTTTCAGACC
3' ss Score
9.54
Exon sequences
Seq C1 exon
GGTAAATTTAAAGTGCGTATGAAGGCCCTTAATCAGGTAGGAGAAGAGCCCGTGTGTAAGGTCAACCAGGCTGACCGCGCAGGAACCTTGAGAGTCAAGCCCACCACCTTCAGCTCTGCCTTTAAAATCAATGCAGAGGTGCTCTGTCCAACCTGTGACTGTGAAAAG
Seq A exon
GTAACACTTGCTGCCTCTGTACAACTCTTCTCCAGTTCCGTGTGTTCATTTCATATCTTACACTTCTGCTTACTTTATTTTCAG
Seq C2 exon
ACCCCGGTTAAAAATGCAGTGCGCTGTACTGGCCATGGAGATCTGGTCTGTGGGAAATGCCAGTGCTATGCAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028507:ENSDART00000029308:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=PD(12.6=94.6)
A:
NA
C2:
PF079748=EGF_2=PU(78.6=84.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGTGTGTAAGGTCAACCAGG
R:
CTGGCATTTCCCACAGACCAG
Band lengths:
182-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]