RnoINT0076077 @ rn6
Intron Retention
Gene
ENSRNOG00000007905 | Itga7
Description
integrin subunit alpha 7 [Source:RGD Symbol;Acc:71022]
Coordinates
chr7:3371654-3372361:+
Coord C1 exon
chr7:3371654-3371769
Coord A exon
chr7:3371770-3372171
Coord C2 exon
chr7:3372172-3372361
Length
402 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGA
5' ss Score
3.73
3' ss Seq
AGTTGGGTCCTGTCCTCCAGGGA
3' ss Score
7.34
Exon sequences
Seq C1 exon
ATCCACTTCCTGAAGCAAGGCTGTGGTGACGATAAGATCTGTCAGAGCAACCTCCAGCTTGCGCAGGCCCAGTTCTGTTCCCGGATCAGCGACACAGAGTTCCAGGCTCTGCCCAT
Seq A exon
GTGAGAAGGGTGGAGAGTGCGTTTGTGGGGGAGGAGAGGACCAGAGCTCAGAGTGGTCAGGCAGAGGCCCTGACTCAGAAGACCATAGTGTCCTTAGCAGAGAGGATTCTCCTAGTCTGTACAATGCTGTATGTTTTGTTACACACTCCTTGGTGAGGTAGGGATGGCTGGCTCCATGTTATGAATGGGGAGCAGAGGCCCAAAGGCCTTGCTGTTTATACGAGGTCAGAAAGTGTTGGAGTTAGGGTAAGGATTGTAAGGATCGAGGTGCACTGAAAGAGCTGGCTTGTGTCTTGGGGGACCTGGAGTGGGAGGAGAGGCAGTGTGTACTTGACTGATGTCTGGGAAGAGAGAGCCGGTGAGAGGCCCAGATTCTCCAGTGAGTTGGGTCCTGTCCTCCAG
Seq C2 exon
GGATCTGGATGGGACCGCCCTGTTTGCGCTGAGCGGGCAGCCATTCATAGGCCTGGAGCTGACAGTCACCAACCTGCCCTCTGACCCAGCCCGGCCTCAGGCAGATGGGGATGATGCTCATGAAGCCCAGCTCCTGGCCACCCTCCCAGCCTCTCTTCGATACTCGGGAGTCCGCACTCTGGACTCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007905:ENSRNOT00000030453:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(7.8=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(12.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCACTTCCTGAAGCAAGGC
R:
CAGAGTCCAGAGTGCGGACT
Band lengths:
304-706
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]