RnoINT0076402 @ rn6
Intron Retention
Gene
ENSRNOG00000005580 | Itgb4
Description
integrin subunit beta 4 [Source:RGD Symbol;Acc:2928]
Coordinates
chr10:104559565-104560182:+
Coord C1 exon
chr10:104559565-104559678
Coord A exon
chr10:104559679-104559775
Coord C2 exon
chr10:104559776-104560182
Length
97 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
TCTTGTTCCTCCCCTTGCAGATG
3' ss Score
12.96
Exon sequences
Seq C1 exon
GCCCCTTCCCACAGCTGGGCAGCCATTCTGGGCTTTTCCAGAACCCACTGCAAAGTGAGTACAGCACTGTCACCAGCACTCACAGCACTACCACCACCGAGCCCTTCCTTATAG
Seq A exon
GTGAGTTATCAAGCTCAGGGGACCCTGACTCCTGGGAGCAGCCACTGCAGAGTGGAGCTGGGACCTGTACTCCACCCTCTTGTTCCTCCCCTTGCAG
Seq C2 exon
ATGGACTAACCCTGGGGACCCAGCGCCTGGAAGCAGGGGGCTCCCTCACCCGGCATGTGACCCAGGAATTTGTGAGCCGGACCCTGACCACCAGTGGCTCTCTCAGCACTCATATGGACCAACAGTTCTTCCAAACCTGAATCCCCCAGGAACCTGGGCCCCTCCTTGCCTCCTCGCCCTGGCGCCTTCTTCCTCTGCTGTTGTACCCACCTGCATGCTGATCACAGAGCCAGCACCTGTAGTCAGAGAGCGGGGGTAGGTGCTGTCTGGGAGGCATGAAGTGGGTAGAGGTGACACAAGACCTCTGACTGCATCCTGCCCTGGGTCCAAACCCACATGTAACCAAAAAGCTGGAGCCGACACAAGGACCCAGCCTTTGTTCTGCACTTAATAAAAGACTTTGCTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005580:ENSRNOT00000065339:41
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.872 A=NA C2=0.565
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTTCCAGAACCCACTGCA
R:
CAGGGTCCGGCTCACAAATTC
Band lengths:
169-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]