RnoINT0076064 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58477970-58479672:+
Coord C1 exon
chr3:58477970-58478049
Coord A exon
chr3:58478050-58479416
Coord C2 exon
chr3:58479417-58479672
Length
1367 bp
Sequences
Splice sites
5' ss Seq
GTGGTAAGT
5' ss Score
10.36
3' ss Seq
CCATTTGTGCTTTTTGGCAGACG
3' ss Score
7.83
Exon sequences
Seq C1 exon
CTGATCCTATGTCAGAAAGCAAGGAAGACCAGTGGATGGGAGTCACTGTCCAGAGTCAAGGTCCAGGGGGCAAAGTGGTG
Seq A exon
GTAAGTGTGGAAAAGCGCTCCGTCCTCCGTGTTAGCTGGTTATGGGCTCACTGCAGTGGACACCAAACTCCTGCCTCCGTTTACCTTTTAGCAAGAAACACCCTGCTCTAACACTGGGCCTGGTGCCTAGAATGAGCCAAAGTTTCGAGTCTCCCATGATGCCTGGTAGACTATGAAATGGCTGTGCAATCTGTGTGTCTTTAAAATATCCAGATCCAAAGAACTTACTTAACATTTTTTGAACATCCCGAAAACTGACTGCTCTTCAGACACAAACAAAGAAAAAAAGCAAAGCCAAAAGCCACCATTTCTGCCCTAGGAACCCTTCGAGGTTTTAGAGACAAAAGTTCTGTGCTGTGCGGGAATGATCGTGGATAAAAACATCGCTTTTACTCTCACCCCTAACCTCTTCGGGTGGAAGGCAGCTCGTTGGGTAGACTGGTCTAGAAGCACGTGAGGCTGGAATAGGGTGAACCCTGTGTCCTTCACAGTCCAGTTGCTCTAATAAAGTTTGTACAGAAGCAATGAGAATCTGAGTGAACACTGAGTACACCTCAGGGGCCCGGGACAGAATATAGACTGGGCTTCCTGTAACTAACCCAGACTGGCTTCCATGGAGGGTAATGGTGGAGACCCTGTAGAAACAGAGAATATTCTGTCCTTCTGGACCAGGTAATTCTGCCTTTTAGTAATAGGGAACGGTCTGAGAGCAGAGAATACAAACTGGGACTCAACTGCCAGGAAGGAGATGGTACCAGGAGAAAGAGAACACCTTTGCTTTCGCTGTGTTTGCTTTATCTCCTAAGAAAATACCGTCCATGCTTCTGTGAGAACGTAGTTATTTACAGCCACTCAAAGCCAATTCAATTAAGATGGTGTTGCCCGTGTTTCTGTGGCAGGTGAATTTACAGACGAATTGCCTGTGGGTATGAACTGATGTTTTAATACTTGGAATGGGGCTCTGTTCTCTAAGAGTAAGGCAGAAGCCCTGGGTCTTGTCTTGTTGATGGCCTCTTGGGGTGGGGGGTGATTGGTGTGCTCTGGGATCCTCTCCCAGGATGAGGACACATTTAATCATCTTATTTAGAACCATCCTTTTTATTATTGCTCAGCGATCCGGTTCTGTCAAGTTTTTAAAAAAGATTTATTTATCTGTGTTATGTATGAGTACACTGTCTTTGTCTTCAGAAGAGGCCATCAGATCCCATTCCAGATGGCTGTGAGCCACCGTGTGGTGGCTGGGGATTGAACTCAGGACCTCTGGAAGAGCAGTTTAGATGGTGCTCTAAACCGCTGCGCCATCTCTCCAGCCCCCCAGTTCTGTCAAGTTTTAAATAACAGGCTTTACCATTTGTGCTTTTTGGCAG
Seq C2 exon
ACGTGTGCGCATCGATACGAGAAACGGCAGCACGTTAACACGAAGCAGGAGTCCCGGGACATCTTCGGAAGGTGTTACGTCCTGAGTCAGAATCTCAGAATTGAAGATGATATGGATGGAGGAGACTGGAGTTTCTGTGATGGCCGATTGAGGGGCCATGAAAAATTTGGCTCTTGTCAGCAAGGAGTAGCGGCTACTTTCACTAAAGACTTTCATTACATTGTTTTTGGAGCCCCAGGGACTTACAACTGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.407 A=NA C2=0.012
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGATCCTATGTCAGAAAGCAAGGA
R:
TTCCAGTTGTAAGTCCCTGGGG
Band lengths:
334-1701
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]