RnoINT0076437 @ rn6
Intron Retention
Gene
ENSRNOG00000012208 | Itgb7
Description
integrin subunit beta 7 [Source:RGD Symbol;Acc:2929]
Coordinates
chr7:143821330-143821955:-
Coord C1 exon
chr7:143821750-143821955
Coord A exon
chr7:143821491-143821749
Coord C2 exon
chr7:143821330-143821490
Length
259 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TTATGCCTTGTCTCCATCAGAGG
3' ss Score
7.26
Exon sequences
Seq C1 exon
GGACTGCGCGGAGTGTGGGGCGTTTGGTACGGGTCCCCTGGCAGCCAACTGCAGCGCGGCTTGTGCTGACGTGAATGTGACCTTGGCCTTGGCCCCCAATTTGGATGATGGTTGGTGCAAAGAGAGGACGCTAGACAACCAGCTGTTCTTCTTCCTGGTGGAGAATTCGGCCAGAGGGGTCATACTGAGAGTGAGACCCCAAGAGA
Seq A exon
GTAAGTGGGCAAAGACACCATGTATATGATAAGTGGAGCCTACCAGGCAGGATCTCAGAATTGGGGATGTAAGATAAGGGCAATGGGTTTGAAACAGCTGCAAACCTAGGGCAGACGCAGAGGGAATGTGACTAAGGCCCGAGGAGGGAGGACAGCCTTCAGCTCTGCTGGGTCCTCGATTTTAATGACAGGGCTGGGGAGGCTGGACACCCTTGGGTAGGGTAACTGTGGATCGGCCTTTATGCCTTGTCTCCATCAG
Seq C2 exon
AGGGAGCAGACCACACCCGTGCCATCATACTGGGCTGCGTAGGGGGCATTGTGGCAGTGGGATTAGGGCTGGTCCTGGCTTACCGGCTCTCAGTGGAAGTCTATGACCGCCTTGAGTACAGCCGCTTTGAGAAGGAGAGGCAGCAACTCAACTGGAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012208:ENSRNOT00000016642:13
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:
PF087256=Integrin_b_cyt=PU(53.2=46.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGCTGACGTGAATGTGACCT
R:
AGTTGCTGCCTCTCCTTCTCA
Band lengths:
292-551
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]