RnoINT0076443 @ rn6
Intron Retention
Gene
ENSRNOG00000012208 | Itgb7
Description
integrin subunit beta 7 [Source:RGD Symbol;Acc:2929]
Coordinates
chr7:143827439-143827918:-
Coord C1 exon
chr7:143827760-143827918
Coord A exon
chr7:143827535-143827759
Coord C2 exon
chr7:143827439-143827534
Length
225 bp
Sequences
Splice sites
5' ss Seq
TTTGTGAGT
5' ss Score
5.91
3' ss Seq
CTGTTCCTTCCTTGCCTCAGGAC
3' ss Score
10
Exon sequences
Seq C1 exon
GAGCAGATTGGCTGGAGAAATGTGTCCCGGCTTCTGGTGTTCACTTCAGACGATACGTTCCACACAGCTGGGGATGGGAAACTGGGTGGCATTTTCATGCCCAGCGATGGGCGGTGCCACCTGGACAGCAACGGTGTCTACACTAACAGCGCAGAGTTT
Seq A exon
GTGAGTCCTCTTTCCCTCCTCCATCTGAGCCTCAGCTCTTCTTTCTGGACTCTTTGGCTCTCATGATTCTCACCGGATAGCATCCCGTGACACTGCCGCACTGCCGTCTTTCGGGGTCTCTCCTGCTAGTGGGATTCTGGGTCCTGGCTTTCTTTGTTCAATCTGAGCTTACTTGGCACACTGGAGGGAGACCAGCAACAGTCGCCTGTTCCTTCCTTGCCTCAG
Seq C2 exon
GACTATCCCTCTGTGGGCCAAGTAGCCCAGGCTCTCACAGCAGCGAATATCCAACCTATCTTTGCTGTCACCGGCGCAACACTGCCCGTGTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012208:ENSRNOT00000016642:6
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(12.1=100)
A:
NA
C2:
PF0036213=Integrin_beta=FE(7.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGGCTGGAGAAATGTGTCCC
R:
CAGTGTTGCGCCGGTGAC
Band lengths:
236-461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]