RnoINT0076334 @ rn6
Intron Retention
Gene
ENSRNOG00000001224 | Itgb2
Description
integrin subunit beta 2 [Source:RGD Symbol;Acc:1305581]
Coordinates
chr20:11785317-11787335:-
Coord C1 exon
chr20:11787246-11787335
Coord A exon
chr20:11785458-11787245
Coord C2 exon
chr20:11785317-11785457
Length
1788 bp
Sequences
Splice sites
5' ss Seq
TACGTGAGT
5' ss Score
7.77
3' ss Seq
TAGCTGTTCTCTTCCCATAGAAA
3' ss Score
8.59
Exon sequences
Seq C1 exon
AAACTGACAGAGATTATCCCCAAGTCAGCGGTGGGCGAGCTGTCTGACGATTCCAGTAACGTAGTCCAGCTTATCAAGAAAGCCTACTAC
Seq A exon
GTGAGTCTGATGCCCCTCTTCTGGTGTGTCTGAGACAGCTGTGTGTGCTCCATATGTTAAATGAAAGATAAATAAAATATATTTTAAAAGAAAAAAGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGTACCTAGGAAGCGAAGGCCCTGGGTTCGGTCCCCAGTCCAAAAAAAAAAAAAAAAAGAAGGGGCTGCCGTTGTATTTCAGGAAAATACCCAGGTGGGTTGGGACAAGCAGCGGCCCCATGAAAGGACCAAGTGCGGAAAGTGGCTGCTCTCTCTCTCTCCGTACCCTCCTCTCTTTCTCCCTGCCTGCGGTCCAGAAGCTATGAAGATGTCAGCAGGGCCCCCTCNNNNNNNNNNNNNNNNNNNNNNNNNGAGGGGGCCCTGCTGACATCTTCATAGCTTCTGGACCGCAGGCAGGGAGAAAGAGAGGAGGGTACGGAGAGAGAGAGAGCAGCCACTTTCCGCAGCTTGGTCCTTTCATGGGCCGCTGCTTGTCCCAAACCCACCTGGGTATTTTCCTGAAATACAACGGCAGCCCCTTCTTTTTTTTTTTTTTTTTGGACTGGGGACCGAACCCAGGCCTTCGCTTCCTAGGTACGCTCTACCACTGAGCTAAATCCCCAGCCCCTTTTTTCTTTTAAAATATATTTTATTTATCTTTCATTTAACATATGGAGCACACACAGCTGTCTCAGACACACCAGAAGAGGGGCATCGATCCCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTCTGGAAGAGCAGACAGTGCTCTTAACCACTGAGCCATCTCTCCAGCCCCGGCAGGCCCTTCTTACTGGCTCTTCCCTTCAGCCACCATGGCGTAGCGGGGAGTGGCTGTCTGGAGAAGGCAGAGTGGTTTCTCTGGAGGGCGGAGGGACCCCAGACATCATCCCGGTAGCCTTGGACCTTGTGAAGACTCCCTTGTGCCTCTTGTCTGCCAGCCCTTAACCTTATTCTGGGTGACCCCTGACCCCTCTTCCGTCTTCCTCCTCTTCAGGGATGGGCAATCTGCCCAGATGCACCCAGATTCGCTTGCCTCAGAGGCCCAGTGTCCTGGTGAAAGCCAGCATGCACCAAACAAGGCTCAGGGTTCAGACAACGTTCAGTCCCAAGCAATAACAGAACTCCACTCTCAGCGATAGGTGTCCCCCCAAAGTTCTGACCTGTGTCGTCATCATGTTGCTGAGCGTCCAGTTGGTTAGCAGCCCATACTGTGTGGGAAGCCTCTCAGTAACACTGCTAGAGTACAAGCCAGGGGCTGGGGTGGGGAATCCTGTTTTCTCCTCTGACCCTGTGAGCCCCGGTTCCCCTAGTCAGGCTCCTGTACCTGGCCCCTGCCCAAGTGTGCCTAGCTCTGTCTTCACAGCGATGACTTGGGTGATGCCATCTTCACTTACTCACGGGCTACCACCTGTACTCTCTCTCCTTCCAGTTGTGCTTCAACCCCTACATCACTTCAACAGTCTGTCGTTCCTCCCCTGCTAACCCAGGTTCAACAGCAAAGGGATAGTCCTCACAGGGTTCATGGCCTGTGTCTGTGCTGGTCACTTGCCAGCAGCCTGTCTCAGAGCAATCCCGTGACATCAGCCATCTGTCCTGTGCTGGCACAGCCACCGAGCTCCCTTTAGGTGTCTGTGTCATCCGCTGGTGTGCAGGAGGGACTTGAGGAGTGAGATGGCCGGGGGCAGGGACAGCCATACCTATCACTCCTGAGCATAGCTGTTCTCTTCCCATAG
Seq C2 exon
AAACTCTCCTCTAGAGTCTTCCTGGACCACACCACCATCCCGGACACCCTGAAAGTCACCTATGACTCCTTCTGTAATAACAGAGTATCGAGTATAGGCAAATCCCGAGGGGACTGTGACGGTGTGCAGATCAACAACCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001224:ENSRNOT00000001639:11
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(7.0=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(11.1=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:
AACTGACAGAGATTATCCCCAAGT
R:
CGGGTTGTTGATCTGCACACC
Band lengths:
230-2018
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]