RnoINT0076067 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58485363-58486525:+
Coord C1 exon
chr3:58485363-58485573
Coord A exon
chr3:58485574-58486331
Coord C2 exon
chr3:58486332-58486525
Length
758 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGC
5' ss Score
8.84
3' ss Seq
TCCCCTTTGCTGTGTTTTAGGTG
3' ss Score
13.1
Exon sequences
Seq C1 exon
GCTTTTCTCTGGACTCAGGGAAGGGTATTGTTTCTAAAGATGACATCACTTTTGTATCTGGTGCTCCAAGAGCCAATCACAGTGGGGCTGTAGTTTTGCTAAAAAGAGACATGAAGTCAGCACATCTTCTCCTTGAGTATATATTTGATGGTGAAGGCCTGGCTTCTTCGTTTGGCTATGACGTGGCGGTGGTGGACCTCAATGCAGATGG
Seq A exon
GTAAGCGGATCTTTGTTACTATGTCCAGCTAATGTTGCTGGTGACTGGCTTCTAGAGAAGGACTGTGGATTAGTTGGTTAAAAAAAAAATGCCTTACTATCCTGTCCAGTCTTCATCATTGATTGACAGCTGACATTCATCCCCCCCACCCCCACCCTTGTGACACAGAATAATGACCTTTTAAAAATTACACTTTCACCTGAGTTCACTTGGGGAATCATAGTTTCTTTTTTTTTTTTCTTTTTTCTTTTTTTCGGAGCTGGGGACTGAACCCAGGGGCGCTCTACCACTGAGCTAAATCCCCAACCCCAAGTTTCTTAAAGATTTAAATTTGGAGAAGAAATCACTTAGGGAATCAGCATCAGCTACGTGACAGTCTGTGGTTTCTTATGGGGAAGGGGGCAGCTGTCGAGCATCCCAAGTGTCTCACAGAAAGTTGGAAGTGGTGACCGTCACTGCCTAGAGGACTCCTAGTTCTTGAGGCCAGCTGGAAATGGTAATGGAATGGCAGATCCTTTCTGGAAGTGCTCCTGTACTGTGCCTCTGACTCGAGGGACTACCTTTAAATCGCTACCCTCACCATTTCCTTGGCCTATCACAGATCTTCTGTTCAGTATTTTGATTGATGACACGCGAGTCCCTGATTGGAGGCCCTCTCTGTTGTGCTGTGTTCCTTGGAGCCTATATTGGTAGTAATTTCCCTATGCCTTTTGGCACCTTAGCAGTGGTCCCTAGCTCTCCCCTTTGCTGTGTTTTAG
Seq C2 exon
GTGGCAAGACATCGTTATCGGAGCGCCACAGTACTTTGACAGGGATGGCGAAGTCGGGGGTGCGGTGTACGTCTACATTAACCAGCAAGGCAGATGGAGTAATGTGAAGCCAGTTCGTCTAAATGGGACCAAAGACTCGATGTTTGGAATCGCAGTGAAAAATATCGGCGATATTAATCAAGATGGCTATCCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:6
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:
PF135171=VCBS=PU(6.8=7.0)
A:
NA
C2:
PF135171=VCBS=FE(87.8=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:
TCTCTGGACTCAGGGAAGGGT
R:
AACATCGAGTCTTTGGTCCCA
Band lengths:
350-1108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]