RnoINT0076346 @ rn6
Intron Retention
Gene
ENSRNOG00000001224 | Itgb2
Description
integrin subunit beta 2 [Source:RGD Symbol;Acc:1305581]
Coordinates
chr20:11789774-11790813:-
Coord C1 exon
chr20:11790697-11790813
Coord A exon
chr20:11789870-11790696
Coord C2 exon
chr20:11789774-11789869
Length
827 bp
Sequences
Splice sites
5' ss Seq
TTCGTGAGT
5' ss Score
7.9
3' ss Seq
GGTGTGTCCCCTCTCTCCAGGAC
3' ss Score
11.02
Exon sequences
Seq C1 exon
TTTGCCACAGACGACGGCTTCCACTTTGCCGGTGATGGGAAACTGGGTGCCATCCTGACCCCCAACGATGGCCGCTGCCACCTGGAGGATAACATGTACAAGAGGAGCAATGAGTTC
Seq A exon
GTGAGTGCTCTGACTGCCGTGGCACGCCCCACGACCAAGAGGGGTGACAAGGGGACAGGGTGAGAGCAGGGGCACATGCCCGGGTCACCCAAACGGAACCCAGACTCCTCTTAACACAAATCAAGTCACAGAGGCCGTCCCGGAGACCCTGGTGACCACATGAAACTCCTGTCACCCAAATCAACCCGAGAGGCAGGTCTAGCCCTGGTCCTCATGACAGAAGGCCTCACAGAGCCTTCTCCGTTCACCACACTGTCTCTATGCATGCCTGCTCTGCCTGCAATGATCTTGTCAGAGCCTCAGGCCATCCCTGAATGCTCGTTGCCTTCCCAAAGGTATCATAAAGGATTTTTTTTTTGAGCCCACACACTCAGGGACTACCTGGAACCCACTGATTTGGAGCTGGCGGCAGACAGAATCTGGGGGGTCCTGACCCTGGACAGGAGCAGGGATATCTTATCTCCCTTCCTCCCCCTAAAGTTGGCTATCATATCCTTCCACTATACATCATGGAGGTGAAGAGGTGGAGTCTAAAATCTAGCCCTAGTGGAAACGCAGGCACTTCCTAGGTACCCATACGCCAGTTCCTCGGGATACTGCTTGAGCTCTGGCTGGCTTAGCACCTAGAGTCGTGACTCACAGTAGCCATCACAATTATCAGTATTCTCTTGGCGGATTTCAAAGGATTTGGTTGGTTCCCTGCCAAGCCTGTCATATGCTTGTAGATCTGCACCAAGTAAAGCCCGGCCTGAGCAGGGGCCAATGCTCTGTCAGCCTGGACGTTTGCTTCGAAGGCTCGTCTGACAAGGTGTGTCCCCTCTCTCCAG
Seq C2 exon
GACTACCCGTCAGTGGGCCAGCTGGCCCACAAACTTTCCGAGAGCAACATCCAGCCCATCTTTGCAGTGACAAAGAAGATGGTGAAAACCTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001224:ENSRNOT00000001639:9
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(9.1=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(7.5=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:
TTTGCCACAGACGACGGCTT
R:
GGTTTTCACCATCTTCTTTGTCACTG
Band lengths:
207-1034
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]