RnoINT0076446 @ rn6
Intron Retention
Gene
ENSRNOG00000012208 | Itgb7
Description
integrin subunit beta 7 [Source:RGD Symbol;Acc:2929]
Coordinates
chr7:143823820-143824527:-
Coord C1 exon
chr7:143824378-143824527
Coord A exon
chr7:143824014-143824377
Coord C2 exon
chr7:143823820-143824013
Length
364 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGA
5' ss Score
9.48
3' ss Seq
TCTGGTCTTCCTGTCTTCAGGTG
3' ss Score
11.54
Exon sequences
Seq C1 exon
AACCTGTCATCCACCGTGACTCTTGAACACTCTTCGCTCCCACCTGGAGTCAGCATCTCTTTCGAGTCTCACTGTAGGAGTCCTGAGAAGAGTGAGGGTGAGGCTGGGGACCGTCGGGGACAGTGCAATCATGTCCGAGTCAACCAGATG
Seq A exon
GTAAGAGCCAGCCAGCTGCAATAGATATGATTTCCCACTTACCTCCACGGAGGAGAAGTGGGCGTGGAAGTGGGAAACAAGCAGAAGAACCCATGGGATCGCCATTGAGGAGGGGTGCACTTTCACTTGTTCTTAGTTTGCTAAGGGCCAGGATTCTGTGTGGTTGGTGGACTCTGTGTGTGTGTGTGTCTGTGTGTGTGTGTGTGTGTACATGTGGGTGTGTATAGCTTTGTCTGGTCCTCCTGTCTTCAGTGTGTGAGGATGTGTGTGTGTGTGTGTGTACCAGAGGTGGTGTGTGTACAGGAGTGTGTATGTACATGAGGGCGTGTGTGTGCACAGCTTTGTCTGGTCTTCCTGTCTTCAG
Seq C2 exon
GTGGATTTCTGGGTCACTCTTCAAGCCTCTCACTGCCTCCCAGAAGCCCATGTCCTACGGCTCTGGGCCCTTGGCTTCTCAGAGGAGTTAACTGTGGAGCTGCACACACTGTGTGACTGCAATTGTAGTGATGCCCAGCCTCGCGCTCCTTACTGCAGCGATGGACAGGGGGACCTTCAATGCGGGATATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012208:ENSRNOT00000016642:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.260 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0036213=Integrin_beta=FE(11.4=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.1=60.0)
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:
AACCTGTCATCCACCGTGACT
R:
TGCATATCCCGCATTGAAGGT
Band lengths:
343-707
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]