RnoINT0076303 @ rn6
Intron Retention
Gene
ENSRNOG00000010966 | Itgb1
Description
integrin subunit beta 1 [Source:RGD Symbol;Acc:2927]
Coordinates
chr19:61714402-61715067:+
Coord C1 exon
chr19:61714402-61714640
Coord A exon
chr19:61714641-61714844
Coord C2 exon
chr19:61714845-61715067
Length
204 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
AATGATCTTTTTCATTGCAGGAA
3' ss Score
10.02
Exon sequences
Seq C1 exon
GTGCAATGAGGGTCGTGTTGGGAGACACTGTGAATGTAGCACAGATGAAGTGAACAGTGAAGACATGGATGCTTACTGCAGAAAAGAGAACAGCTCAGAGATCTGCAGTAACAATGGAGAGTGTGTCTGTGGACAGTGTGTGTGCAGGAAGAGAGAGAATACAAATGAAATTTACTCCGGCAAATTCTGCGAGTGTGATAACTTCAACTGCGATAGGTCCAACGGCTTAATCTGTGGAG
Seq A exon
GTGGGTCAGCACCAGCAGTAGCTACACACACAGTTCCTCTGAAGAGTCTGTGGGTGAACACACAGAAAGGGAAGGTGCAGGAGTTAGGGCAGGCTTTCCATTAGATCTGCTTTCTTCTGTGCGGTGGCTTGTTTTTAATTTGTGAATAATTGCTGTGACGATTTATTTTACCATTGTTTTGAGAAATGATCTTTTTCATTGCAG
Seq C2 exon
GAAATGGTGTGTGCAGGTGTCGTGTCTGTGAATGCTATCCCAACTACACTGGCAGTGCATGTGACTGTTCCTTGGACACTGTTCCATGCGTAGCGACAAATGGTCAGATCTGCAATGGCCGGGGCATCTGTGAATGTGGTGCTTGTAAGTGCACAGATCCCAAGTTCCAAGGGCCAACCTGTGAGACCTGTCAGACCTGCCTTGGTGTCTGTGCAGAGCATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010966:ENSRNOT00000014785:12
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=WD(100=46.9),PF079748=EGF_2=PU(32.3=12.3)
A:
NA
C2:
PF079748=EGF_2=PD(64.5=26.7),PF079748=EGF_2=WD(100=42.7),PF079657=Integrin_B_tail=PU(4.5=5.3)
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:
CAATGAGGGTCGTGTTGGGAG
R:
AGGAACAGTCACATGCACTGC
Band lengths:
308-512
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]