RnoINT0076401 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104559320-104559678:+
Coord C1 exon
chr10:104559320-104559484
Coord A exon
chr10:104559485-104559564
Coord C2 exon
chr10:104559565-104559678
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
GACTGATCTGCCTATTCCAGGCC
3' ss Score
7.48
Exon sequences
Seq C1 exon
GACCAGCCAGAACCTTCCGGGTGGATGGGGACAACCCTGAGAGCCGGCTGACGGTTCCTGGCCTCAGTGAGAACGTTCCTTACAAGTTCAAGGTGCAGGCCCGGACAACAGAGGGCTTTGGGCCCGAGCGTGAGGGTATCATCACCATCGAGTCTCAGGATGGAG
Seq A exon
GTGGGCTATCCTTACCATGGTCTCTCTCCGGCCTTGCCTTTGCATAACACCATCCCAACTGACTGATCTGCCTATTCCAG
Seq C2 exon
GCCCCTTCCCACAGCTGGGCAGCCATTCTGGGCTTTTCCAGAACCCACTGCAAAGTGAGTACAGCACTGTCACCAGCACTCACAGCACTACCACCACCGAGCCCTTCCTTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:40
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.804 A=NA C2=0.872
Domain overlap (PFAM):
C1:
PF0004116=fn3=PD(49.4=76.8)
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:
TACAAGTTCAAGGTGCAGGCC
R:
GTGGTGGTAGTGCTGTGAGTG
Band lengths:
182-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]