RnoINT0076065 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58479417-58482068:+
Coord C1 exon
chr3:58479417-58479672
Coord A exon
chr3:58479673-58481936
Coord C2 exon
chr3:58481937-58482068
Length
2264 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
TTTCCATTTCATTCCTTTAGGGA
3' ss Score
11.42
Exon sequences
Seq C1 exon
ACGTGTGCGCATCGATACGAGAAACGGCAGCACGTTAACACGAAGCAGGAGTCCCGGGACATCTTCGGAAGGTGTTACGTCCTGAGTCAGAATCTCAGAATTGAAGATGATATGGATGGAGGAGACTGGAGTTTCTGTGATGGCCGATTGAGGGGCCATGAAAAATTTGGCTCTTGTCAGCAAGGAGTAGCGGCTACTTTCACTAAAGACTTTCATTACATTGTTTTTGGAGCCCCAGGGACTTACAACTGGAAAG
Seq A exon
GTATGGCCTCTGTATTTACAGAAACACGGCAGCAGTGAAGTTTCTATAATATGCCCCATCCTTTAGTTCATTTTAAATGGGCTGTAAGGTGTTTATGGAGGCGGGTAGAATATTAAAACAAAATCTCTACTGTGGATTTTAACAGGAACACAAATGTTTTAGGGTTGGGGGTTTTTCTTCTGTCTGTGAAAGTTGTTAATCTTTTTCTGAAAGAATGTTAATTGGGTTTGGTTTTTGTTGTTGGTTTTTTTCTTTTTTTGTTTTGTTTTGCTGTTTTATGTTTGTTACTTGAAAGGTGAAACTGTTCACTCTGAACTCCGAGTTGAAGTAGATGGTATACACAAAGACCTGTGCTAACGTGGATGTTTTATTGTATATTATCTTAGAAGGTCATGGTCTGCTAAAAGAAAAGCACAGGAAGCTAAAAGAGCAGGTGACTGGCAGATGGGGGATTTTGAGGCAAAAATTGGAGGCAATTTGAGGCAATGCTGGTTGGAGGTATTATATTATGGTAAGAAAAGGAGACACTGGAAGGGGCAGGAATTACCCATGGTTCTGATCACATTGAGTCTGGTGGATTCCTTTAATAAACATCAGTTTCTCTGGAAAACTTAGGACTAGGACAAACTGCCGTATAATAAGGCAGCCTAGCCGCAATCCACAATGATGAGAACTACATCTGGTTTGGGAATAAAACATTTCGAGAAATAAAAATAAATCATAATATTTCCATAAGCCAGGAAAAGTTTACTATGTGGAAGGTTGAGGCCTGAAAATCAAAAATCCAAGGCTTGCCCTGGCACTTTCTGAAGATCCTCAGAATAAAGCGTGTGTGCAGGAGTTGGGTAGGAGCTGGGAGATGGCCCAGTGCTTAAGAGCACATACCAGCCTTGCAGAGAACCCAGGCTTAGTTAGTTCCCAGCACCTGCATCGGGCAGCTCACAACTGCCTGTAACTACACACACACACACACACACACACACACACACACACACACACACACACTCTCCTAGTCCCAACCGTTATTAAAAGTGGTCCTTGAGCCTCGTGTATGCCATTCTTTATAACACTGGGGAGTCATTCCCTTTGTGATAGAATCTTTCATAGACCCAAACCCATCGAGCTGTTTGACCTCACTGAAAGAACACTTCGTATCCAGAAATACATTTGTATCCAGAAATAGTCTTATTTTGTCAGGAGCAGATGACCATTATATTGTAAAACAGGACAATAAAAACACCAGTTAGGTCCATTTTAATTCATGGAAAATATATCTTCTGACTTACCAACTCTGACTTAAGATGTTAATTTATTTATTTTATTTTTTTTAAAAGGTCGTATTGTGATTTGGGCTTAATAGAATGAAGTATTTTTAAGGATTGTAGAATCTCCTAAAGATGAAATTTTTGTTAAAGCAGTTTGAAGAGATGGATATCTTTTTTTTTTTCTTCTTCTTTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTCGGAGCTGGGGACTGAACTCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCAAGATGGATATCTTAATTTCACTTCACACTACAGAAAAGGAGACTTTGATAGACAATTATAGGAAACAAAATAATTTATTCCAAGTTCAAGTCAGCCATTAGTTTCCCACGTGATTACAAACATTCCATTTTTCATCTAGCTTCTTGGTGTTATAAAGATAGTTTATTAGAATGCATGGGTGATTTTTTAAGATTCTTAGAACAATTTTTTTTCACATAAAGACATGGTCGCTGGGTGGTAATCCCAGCATGTACCAGCGTTAAATCTAATTTTTGCTACTTAAGTGATCTTACCTCTTGACTTACATTTCTTTGAAAATGAACCATCTGAAAGCCAGGCACGGGTGGTAAACACCCTTAACATCAGCATTCAGAAGAGGCAGGCAGATCTCTGACTACAGAGTGAGTTCCAGGACAACCAAGACTACACAGAGAAGCCTTGTCTCAAAACCCTACTACCACCATCAAAAAAAGAAAAGAAAAAAAAAAAAAAAAAGAAAGAAAAAACTTGTATGACCATGTTGAAGAATCTTAAACATCACCTCTTCATTCTCTGTCTCTCCTTCTACATTTCTCTTTCTGTTCTCCCTGACAACATGAGGGATGTTTGTTAGAACCATCTGTTTTATTTTGCCTCATCTTTATTTTATTTTATTTTATTTTATTTTATTTTTTGTTGTTTTCCATTTCATTCCTTTAG
Seq C2 exon
GGATCGTTCGTGTAGAACAAAAGAATAACACTTTTTTTGACATGAACATCTTTGAAGATGGGCCCTATGAAGTTGGTGGAGAGACTGATCATGACGAAAGTCTCGTGCCCGTTCCTGCTAACAGTTATCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.111
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]