RnoINT0076344 @ rn6
Intron Retention
Gene
ENSRNOG00000001224 | Itgb2
Description
integrin subunit beta 2 [Source:RGD Symbol;Acc:1305581]
Coordinates
chr20:11792231-11793824:-
Coord C1 exon
chr20:11793654-11793824
Coord A exon
chr20:11792473-11793653
Coord C2 exon
chr20:11792231-11792472
Length
1181 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGA
5' ss Score
8.51
3' ss Seq
TCATGCCATGTACCCCTCAGGCT
3' ss Score
5.55
Exon sequences
Seq C1 exon
GGCAGGCTGCTGCATTCAATGTGACTTTCCGACGGGCCAAGGGCTACCCCATTGATCTGTACTACCTCATGGACCTCTCCTACTCTATGCTCGATGACCTGAACAATGTCAAGAAGTTGGGTGGTGATTTGCTGCAGGCCCTCAACGAGATCACAGAGTCCGGCCGCATCG
Seq A exon
GTGAGACCTGCAGTGCACACTCACCTTTCAACCCTGGGAAATCCCTGCCAAGCAGACGCCTCTGTGCACTCGGATCTGCAGAGGCAGAAGCTGGGGGGGGGGAGGTTGGGGGCTGCATATGCAATGTTCATGGGGCCAGAGTTAATCCCGAATCTTTACCAAGGGTCGTACCTGGTCACAGGCTGCTAAGACCTGAGGATTCTTCCAACCTCTCTGTCTCTCTAGTTTATATTTTGATGTTTAAAAGGCAAAAGTCCTACAGTGCTATTTACTAAAAAGTATCTTATCACAGCAACCACGGATTAACAGCATACTGGGTGTAAACTACAGGGCATGGGTCACCGGGCAGGGGTCACAGGACAGGGGTCACAGGGCAAGGGTCACAGGGCAAGGGTCACAGGGCAGGTTTCCCAGGGCAGGGGTCAGTCACAGGGTTACAACACTGACCAACACCACCATATTCATCAAGCATGTGGGACAAGTGGACTCACTCCAGAACAATACTCTGCCTCATGTTTGTCTATGTTTAAGGATGTCCACATGAATACTTGAACACAGGATGCAAGCTCGTCTATTCTTGTGTGCATATACACTCATGTGTGTACACTCGTGCTCACACATGTCCAGCATCCCATACACAAGCACGTTTATGTGCCTGTGCACATGTCTAGTCACACGTGTGTGCCTGTATGCCTGTACACACAAGACCACGTGTGTGTGCGTGTGTGTGCATGTGTGCATGTGCATGTGTGTGTTTGTATATATATATATATATATATATACATACATACATACATACATACATATACATGTATTCACATGCCAACACTCATCATGGTCACACATGGACATGACCATATACATATACATGCTCTGTCACACACACACTCATGTTTGTACATGGCCTCGAGTATTCTCAGCTGTACATGGTTCCACACATGCTTGCACCACACGCTCCCATGTCATATTTGCAAATTCATCATCTTGCTTTCTCCCTTGTTTGGGAGAACTGAAGCTTGGTCCTTAGTCCACTGGAAGGCTCACTGTCCTGCCTAGAGCCCTGCCTGCTGCCTCGTCCCTGTGCCTCCAGCCTCTGCTGTAATCCCTCAGGCTTCAGGTCTTCCCAGTCCTGCCTTATGCTTCTGCCCCTATCCCCCTGCCTCATGCCATGTACCCCTCAG
Seq C2 exon
GCTTCGGGTCCTTCGTGGACAAGACGGTGCTGCCTTTTGTCAACACCCATCCCGAGAAGCTGAGGAACCCATGCCCCAACAAGGAGAAAGCCTGCCAGCCTCCGTTTGCCTTTCGCCACGTGCTCAAGCTAACCGACAACTCCAACCAGTTTCAGACAGAGGTCGGCAAGCAACTGATTTCCGGAAACCTGGACGCCCCTGAGGGCGGGCTGGATGCCATAATGCAAGTGGCTGCCTGTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001224:ENSRNOT00000001639:5
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=0.074
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(13.7=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(19.2=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:
AGGCTGCTGCATTCAATGTGA
R:
AAATCAGTTGCTTGCCGACCT
Band lengths:
348-1529
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]