RnoINT0076338 @ rn6
Intron Retention
Gene
ENSRNOG00000001224 | Itgb2
Description
integrin subunit beta 2 [Source:RGD Symbol;Acc:1305581]
Coordinates
chr20:11781943-11782850:-
Coord C1 exon
chr20:11782631-11782850
Coord A exon
chr20:11782143-11782630
Coord C2 exon
chr20:11781943-11782142
Length
488 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
TCCACCCCACTCCTCCGCAGCTT
3' ss Score
7.3
Exon sequences
Seq C1 exon
AGAGAGGCTCCTGCTCCTGTGGCCAGTGTAATTGCAAGGAGGGTTTCGAGGGTTCTGCTTGCCAGTGTCAGAGGTCTACCACGGGCTGTCTGAACGCACGGCTGGTGGAGTGCAGTGGCCGTGGCCGGTGCCAATGCAACAGATGCATCTGTGAGAAAGGTTACCAGCCACCTCTGTGTGAAGAGTGTCCCGGCTGCCCCTTGCCCTGCAGCACCTACGT
Seq A exon
GTGAGTGTTCCCACTGCCCACATTGGCCTCACTACTTAGGAGCCCTTGGGGACACCACTGCTCCATAGTCCTTAGCAGGATTCAGCAGGATCCATTGTCCCTGCCACCAACCCTATCTTCCTGCATGTCCTGGCTTCACAGAGGGGGGTGTTCTAGGCCTGTGCCCCTTCCGCCTTTGAATGAAGTTTCTGTTAATGCAGGCTCAGCCTTCCATACCCTCTTAGGCACACAATTTGTGCTTCTCCTCACTCGCTTGACTACCCCAAGACCTGAAAGCTCCCAGACCCTCCGCCTAGGACCACCTAGTTTACAAATGACCACACTCTCTTCATACCCTGCACCAGACACAACCGTCCACAGCCATGCACCCCCATATACCTGCGGGCCCTGACGTAGCTAATGCGCCCTTGAACACCAACCAACACGCCAGTTCACACCTCCGTGCCCTTACGAGCTCTCAACGCCCACTCCACCCCACTCCTCCGCAG
Seq C2 exon
CTTCTGTGCCGAGTGCCTGAAATTTGATAAGGGCCCCTTTCAGAAGAATTGTAGTGTTCAGTGTGCCAATGTGACGCTGCAGACTGTCCCTTTCAAGAAAAAGCCCTGCAAGGAGAGGGACTCGGAGGGCTGCTGGATAACCTACACTTTGCAGCAGAAGGACGGAAACGCTTACAACATCCATGTGGACGACGATCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001224:ENSRNOT00000001639:15
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:
PF079748=EGF_2=PD(60.6=27.0),PF079748=EGF_2=WD(100=41.9),PF079657=Integrin_B_tail=PU(5.1=5.4)
A:
NA
C2:
PF079657=Integrin_B_tail=FE(85.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCTGTGGCCAGTGTAATTGC
R:
TAGGTTATCCAGCAGCCCTCC
Band lengths:
350-838
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]