RnoINT0076051 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58498913-58499313:+
Coord C1 exon
chr3:58498913-58499028
Coord A exon
chr3:58499029-58499123
Coord C2 exon
chr3:58499124-58499313
Length
95 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGA
5' ss Score
5.55
3' ss Seq
TTTCTCTTCCTTTTTAATAGTCA
3' ss Score
8.15
Exon sequences
Seq C1 exon
GTCCACTTCTTAAAGGAAGGATGTGGAGACGACAATGTCTGTAACAGCAACCTTAAGCTAGAGTATAAATTTGGTACCCGAGAAGGAAATCAAGACAAATTCTCTTACCTTCCAAT
Seq A exon
GTAAGAATCACAAGCAGAAGTAATAGACCTCTAGACTTTGGTTACAAAAGGAACCGAACGTGGGTTGATTGTCTCTTTCTCTTCCTTTTTAATAG
Seq C2 exon
TCAGAAAGGCATCCCAGAATTAGTCCTAAAAGATCAGAAAGATATAGCTCTGGAAATAACGGTGACCAACGGCCCTTCTGATCCAAGGAATCCCCGGAAAGATGGTGACGATGCCCACGAAGCCAAACTCATCGCAACGTTTCCAGACACCCTGACATATTCCGCCTACAGAGAGCTGAGGGCTTTCCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:14
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=0.344
Domain overlap (PFAM):
C1:
PF084417=Integrin_alpha2=FE(8.0=100)
A:
NA
C2:
PF084417=Integrin_alpha2=FE(13.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGAAGGATGTGGAGACGACA
R:
GGCCGTTGGTCACCGTTATTT
Band lengths:
177-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]