RnoINT0076335 @ rn6
Intron Retention
Gene
ENSRNOG00000001224 | Itgb2
Description
integrin subunit beta 2 [Source:RGD Symbol;Acc:1305581]
Coordinates
chr20:11784675-11785457:-
Coord C1 exon
chr20:11785317-11785457
Coord A exon
chr20:11784863-11785316
Coord C2 exon
chr20:11784675-11784862
Length
454 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGC
5' ss Score
8.69
3' ss Seq
ACACCACCATTCTCCTATAGGTC
3' ss Score
9.52
Exon sequences
Seq C1 exon
AAACTCTCCTCTAGAGTCTTCCTGGACCACACCACCATCCCGGACACCCTGAAAGTCACCTATGACTCCTTCTGTAATAACAGAGTATCGAGTATAGGCAAATCCCGAGGGGACTGTGACGGTGTGCAGATCAACAACCCG
Seq A exon
GTGAGCCTGGCCTGCTTATGTACCTGCGGTTCCTATACCAGTGTTGGGGGATCCTGTGAAGATCTCAGCGACCCACTCCCAAGGACAGCTAGGAAGAGAAGGAGGATCACAGGAATTAGCCAGAGAGGAAACCATCAGGGACCAGCGCCCAGCCTCTTCTCCCTTTAAACACATGTGAGGAGGCCAGATGCAGCATCAGGGGAGGGTACCAGACACGGTCTCAGCTATGGCTTCATGCCTATCAGCACAATGAATACCTGAAAATTTCTATCTACTATGGTTCCTGGGTAGACAGATGGGCCTGGGGTGACAGCACCCTCTAGAGGCAACTGCTGGAGATCCACCACTGGACAAGTATCTGGTTGGGGTACCTGAGAGGCTGGGCAAGGAACAAAGAGCAAGGTTATCCTTGGTCACCCACAGTCCCGAACTGAACACCACCATTCTCCTATAG
Seq C2 exon
GTCACCTTCCAGGTAAAGGTCACGGCTTCGGAGTGTATCCAGGAGCAGTCCTTTGTCATCCGGGCGCTGGGCTTCACCGACACAGTGACGGTACAGGTCCATCCCCAGTGCGAGTGCCAGTGCCGGGACCAGAGTCGGATGAGGAATCTCTGTGGAGGCAAGGGAGTCATGGAGTGTGGCATCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001224:ENSRNOT00000001639:12
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:
PF0036213=Integrin_beta=FE(11.1=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.1=60.3),PF126612=hEGF=PU(15.4=3.2)
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:
CTCTCCTCTAGAGTCTTCCTGGAC
R:
CTGCAGATGCCACACTCCATG
Band lengths:
326-780
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]