RnoINT0076337 @ rn6
Intron Retention
Gene
ENSRNOG00000001224 | Itgb2
Description
integrin subunit beta 2 [Source:RGD Symbol;Acc:1305581]
Coordinates
chr20:11782631-11783588:-
Coord C1 exon
chr20:11783344-11783588
Coord A exon
chr20:11782851-11783343
Coord C2 exon
chr20:11782631-11782850
Length
493 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
CCTCGGTGGTTGTTTTGCAGAGA
3' ss Score
7.92
Exon sequences
Seq C1 exon
GTGTGAGTCTGGCTACATTGGGAAAAACTGTGAGTGTCAGACGCAGGGCCGGAGCAGCCAGGAGCTGGAGGGGAACTGCCGGAAGGACAATAGTTCCATTGTGTGCTCGGGGCTGGGGGACTGCATCTGCGGGCAGTGCGTGTGCCACACGAGTGACATCCCCAACAAAGTGATCTTTGGGCAATACTGCGAGTGTGACAACTTCAACTGTGAGAGATATGATGGCCAAGTCTGCGGTGGCCTAA
Seq A exon
GTAAGTGTGTGAAGGTGGGACGGGGGAGGGGGGCTTTCTTGTCCGTGTGCACCAGGAGATATTAAGTGGGACATTGGGGACAGACAGACAGGCTAGCAAACCTTCCCTGCATGACCTGTGTGTCTGTGTCTGTGTTACTCAGCATTGTCCTGGGGAGGCAGTGGTGGGTCCTAGTCATGTCCTGATCCAAGAGCTTTCCAGATACAACATGGAGGTCCCATCTGGCTGGCTGGTGGCCGTGTTGCCAAAGAGGCAGGGCAGGAAGGTATCCCTGGTCTCTGTGGTTTCACCAGGCTGTCCTTCCATGGTGCTCTGGGGTCATGTGAGGAGGGAGAGGTAGAAGCAGGGAGCAGAGGAGGCTTAAGTGCGGTCCTCCTTGATCAGGCCGGGGAGCACAGTGGCCCGGGGAGCATGGTGGAGGGAGGGATGAGCCCCCTGTTCCTAGCAGCCTGCAGGGGAGTGATTCACGGTAACCTCGGTGGTTGTTTTGCAG
Seq C2 exon
AGAGAGGCTCCTGCTCCTGTGGCCAGTGTAATTGCAAGGAGGGTTTCGAGGGTTCTGCTTGCCAGTGTCAGAGGTCTACCACGGGCTGTCTGAACGCACGGCTGGTGGAGTGCAGTGGCCGTGGCCGGTGCCAATGCAACAGATGCATCTGTGAGAAAGGTTACCAGCCACCTCTGTGTGAAGAGTGTCCCGGCTGCCCCTTGCCCTGCAGCACCTACGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001224:ENSRNOT00000001639:14
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:
PF126612=hEGF=PD(76.9=12.0),PF079748=EGF_2=PU(36.4=14.5)
A:
NA
C2:
PF079748=EGF_2=PD(60.6=27.0),PF079748=EGF_2=WD(100=41.9),PF079657=Integrin_B_tail=PU(5.1=5.4)
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:
TAGTTCCATTGTGTGCTCGGG
R:
CGGGACACTCTTCACACAGAG
Band lengths:
347-840
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]