RnoINT0076393 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104554889-104555281:+
Coord C1 exon
chr10:104554889-104555071
Coord A exon
chr10:104555072-104555149
Coord C2 exon
chr10:104555150-104555281
Length
78 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
TACTTCTTTCTGTCCTGCAGTTC
3' ss Score
9.18
Exon sequences
Seq C1 exon
GACCCATTGGACCTATGAAGAAGGTGCTTGTGGACAACCCCAAGAACCGGATGCTGCTCATTGAGAATCTTCGAGAGTCCCAGCCATACCGATACACGGTGAAGGCGCGAAACGGGGCAGGATGGGGACCCGAGAGAGAGGCTATCATCAACCTGGCCACACAGCCCAAGCGGCCCATGTCCA
Seq A exon
GTGAGTGACAGGCAAGCGTGGGTTTGGGGGACAAGAGGCCATGGCTAGAGTCCTGGCTTACTTCTTTCTGTCCTGCAG
Seq C2 exon
TTCCTATCATCCCAGACATCCCCATAGTGGACGCCCAGGGTGGAGAAGACTACGAAAACTTCCTCATGTACAGTGACGACGTTCTGCGCTCCCCAGCCAGCAGCCAGAGGCCCAGCGTTTCAGATGACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.253 A=NA C2=0.385
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(50.0=72.6)
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:
GAACCGGATGCTGCTCATTGA
R:
CCACTATGGGGATGTCTGGGA
Band lengths:
170-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]