RnoINT0076341 @ rn6
Intron Retention
Gene
ENSRNOG00000001224 | Itgb2
Description
integrin subunit beta 2 [Source:RGD Symbol;Acc:1305581]
Coordinates
chr20:11799634-11800292:-
Coord C1 exon
chr20:11800072-11800292
Coord A exon
chr20:11799723-11800071
Coord C2 exon
chr20:11799634-11799722
Length
349 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CAGCCTGCCTGTCTCTCCAGCCC
3' ss Score
7.54
Exon sequences
Seq C1 exon
GTACTTGACCACCTGAGCCAGCCCCCCCACATCCCTCCCTGAGGTAGCTGAGTGACATCTGTGCTGGCCCTCTCTGATCCTCGTACCCTGTGGCAGCAAGCCTGCAAGGAGGAACTCCTTGGGTGATCAGCCTGGAGTCATCTGGCCCTTCTCTCCACAGGACATGCTGGGCCCACACACACTGCTACTCATCCTAGCTGGACTACTCTTCCTGGGATCTG
Seq A exon
GTGAGTTCTGCGGAGCTGTCCCTACACACGGCATTCCTTAACAACAGGGCCACCTCGAGTCTCCTTGGGCATCAGTTCCCAGGTAGTTGAGGAAGGACCAGCCTCTGGGAGTCAAGTCTTGGGCATGGATGGCTTTGGTTGTCATGTAACAGGAGGTGGGGGGTCTGACTTTCAATAGAGCTCTGCTTTGAATCCCATTGGGATGATTCAGAGCCCTTCCCAGATGCCCATAAGGCTGTTGGCACTAGCCTGTACCCTCCCCAGAGCCTCATCCACCTTCCCGTCCCATCATTTTTGAAGACAGTCGGGGTGGATACAGGGCTCTCACTCAGCCTGCCTGTCTCTCCAG
Seq C2 exon
CCCTGTCCGAGGAATGCACCAAGTACAAAGTCAGCAACTGCCGGGACTGTATCCAGTCGGGGCCTGGCTGCTCGTGGTGCCAGAAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001224:ENSRNOT00000001639:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0036213=Integrin_beta=PU(4.1=56.7)
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:
GTACTTGACCACCTGAGCCAG
R:
CAGCTTCTGGCACCACGAG
Band lengths:
310-659
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]