RnoINT0076435 @ rn6
Intron Retention
Gene
ENSRNOG00000012208 | Itgb7
Description
integrin subunit beta 7 [Source:RGD Symbol;Acc:2929]
Coordinates
chr7:143822102-143822986:-
Coord C1 exon
chr7:143822763-143822986
Coord A exon
chr7:143822322-143822762
Coord C2 exon
chr7:143822102-143822321
Length
441 bp
Sequences
Splice sites
5' ss Seq
GAGGTACCT
5' ss Score
7.63
3' ss Seq
TCTGCCTGGCTCTTCTCTAGGCT
3' ss Score
8.64
Exon sequences
Seq C1 exon
CTGTGCCCCTGGCCGCCTTGGTCAGCTGTGTGAATGCTCTGAGGCTGACCTGTCCTCCCCAGATTTGGAATCTGGTTGCCGGGCCCCCAATGGGACAGGGCCCCTGTGCAGCGGGAAGGGTCGATGCCAATGTGGACGCTGCAGTTGCAGTGGACAGAGCTCTGGGCGTCTGTGCGAGTGTGATGATGCCAGCTGTGAGCGACACGAGGGCATCCTCTGTGGAG
Seq A exon
GTACCTAGAGCCTTTGGGATGAGGGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAGGGGAGGAGGGGGAAAGGAAAGAAAGGAGGGAGGGGAGGAGGGGGAAAGGAAAGAAAGGAGGGAGGGGAGGAGGGGGAAAGGAAAGAAAGGAGGGAGGGGGAAGAGATGGAGGGGAAGAGGGGTAGAGGGGGAAGAGGGGGGAGGGAGGGGGAGGAGGGCTTTCTAGGGTACTTATGACTCTGAGAGTAAACTTCAAAGACTGTAGTATATGAGTCAGAGGATGTGTCTGGCACAGTTAGCACAGACTGTGGAAGTATGCTGTGCTAATTGTGTGTGAGAATTGTGGTCACCCTCTGCCTGGCTCTTCTCTAG
Seq C2 exon
GCTTTGGCCACTGCCAGTGTGGAGTGTGTCACTGCCATGCCAACCGCACTGGCAGAGCATGTGAGTGCAGTGAGAGTGTGGACAGCTGCGTTAGTCCCGAAGGAGGGCTCTGCAGTGGGCATGGTGACTGCAAATGCAACCGTTGCCAGTGCCTGGATGGCTACTACGGGGCTCTGTGTGACCAGTGCCTAGGCTGCAAGTCACCATGTGAGCAATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012208:ENSRNOT00000016642:11
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:
NO
A:
NA
C2:
PF079748=EGF_2=WD(100=51.4)
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:
ATTTGGAATCTGGTTGCCGGG
R:
TCACACAGAGCCCCGTAGTAG
Band lengths:
343-784
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]