RnoINT0076419 @ rn6
Intron Retention
Gene
ENSRNOG00000008346 | Itgb6
Description
integrin beta 6 [Source:RGD Symbol;Acc:1303119]
Coordinates
chr3:46682894-46683620:-
Coord C1 exon
chr3:46683486-46683620
Coord A exon
chr3:46683312-46683485
Coord C2 exon
chr3:46682894-46683311
Length
174 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
TCTGCGTTTTTCTTTTCCAGGCA
3' ss Score
12.14
Exon sequences
Seq C1 exon
GAACTGCGGTCTGAGGTGGAACTAGAAGTATTAGGAGACACAGAAGGACTCAACCTGTCTTTCACAGCTCTCTGTAGCAATGGCATCCTCTTCCCACACCAAAAGAAGTGTTCCCACATGAAAGTCGGAGATACA
Seq A exon
GTAAGTAGATCCCCAATAAAACTTTAGAAACAACAATCAGATGGCCCGGAGGCCAGCTGGCTCAGCTCGCCGAAGCTGGACTTCTTGGCAAAGCCGTTCTCTCCACCAGCCTCATTTCCAGCCCTGCACGTTGCTGGATGGAGGAAACAGATAATCTGCGTTTTTCTTTTCCAG
Seq C2 exon
GCATCCTTCAACGTGTCTGTGAGCATAACAAACTGTGAGAAAAGAAGCAGGAAACTTATCATCAAGCCTGTGGGACTTGGGGACACCCTGGAAATACTCGTCAGCGCAGAATGTGACTGCGACTGCCAGAGAGAAGTAGAAGCCAACAGTTCTAAGTGCCACCACGGGAATGGCTCCTTCCAGTGTGGGGTGTGTGCCTGCAACCCTGGCCACATGGGTCCTCGCTGCGAGTGCGGCGAGGACATGGTGAGCACGGATTCCTGCAAGGAGTCCCCAGGTCACCCCTCCTGCAGCGGAAGGGGTGACTGCTATTGTGGGCAGTGTGTCTGCCACTTGTCTCCCTATGGAAGCATCTATGGACCTTACTGCCAGTGTGACAACTTCTCCTGTCTGAGACACAAAGGCCTGCTCTGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008346:ENSRNOT00000011030:10
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(10.4=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.2=27.9),PF079748=EGF_2=WD(100=25.7),PF079748=EGF_2=PU(32.3=7.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGTCTGAGGTGGAACTAGA
R:
CACATTCTGCGCTGACGAGTA
Band lengths:
245-419
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]