RnoINT0076066 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58481937-58485573:+
Coord C1 exon
chr3:58481937-58482068
Coord A exon
chr3:58482069-58485362
Coord C2 exon
chr3:58485363-58485573
Length
3294 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGA
5' ss Score
7
3' ss Seq
TGAGTCTATTGTTTTTCTAGGCT
3' ss Score
7.99
Exon sequences
Seq C1 exon
GGATCGTTCGTGTAGAACAAAAGAATAACACTTTTTTTGACATGAACATCTTTGAAGATGGGCCCTATGAAGTTGGTGGAGAGACTGATCATGACGAAAGTCTCGTGCCCGTTCCTGCTAACAGTTATCTAG
Seq A exon
GTAGGAGCAAGCAAGTACCACACCTGTCTCCTCAGACGCTGGGGGACTCTCCTTCTGAGGGCCCGTAGCCTTGGGAATGCGCTAGGCGGGAGCCAGGGGCCTTGTCGCATTTGCTTCAGCTTGACATAATGTGCTCATGGGAAAGCAGGCTGCCTGCTGACTGACTCCTCTGGTCTGAGCTTCCGCAAAGTGGGGCAGAATCTGCCATCACCCCAAAATCATGCTCGCTCGCATTTGGAAGGGAGCTGTGTTTGCTGAGTTGATGGTAGCCTGTGTAACCTGCAGCGGGCCCTTCATGAAGCCATGAGGAAATATCTGGGTGTTCAGGGTAGGCCGAATGGTTCTTCCTCAGCCTCTAGGGCCTCTTTTAGACAAACACTTAAGAGCTCCACTCACAAAGTTACTTTTAAGTATCAGGTCAGGACTTCCAGATCCTCCTTTGGTGATTGCCATTCTCTGAGGCCTGGCCCTGCGACTGGAGTGAGGCTCCATGTCAGAGGGCCCTGTGGGTGGCACAGGGCTCCCCAGATGAGGCCAACCAGGACCCGCTAACGCAGCTTGGAGAACACCCAGATTGTGTCTAAGTGCCAATTCCTTAACTCCTGAGGCTTGTTTGCATTACTAATGGTGTCCTAAATTATTCCTGCACATTATGGTAATTACACAAAGGCTTTTAAAAGCTTTAATTCTTGGTGTGAGTTGACATAAAGAATAATTACTGTACATTTCTTGGAAAAATGTAAAAAATCTTCTAGAGCTACATAGTAACCTATTTTTAAAAAGTGATGGGTGGGGGAATACACACATTCTAGAGATATTACTGGAACAATGGAAGGTTTTAAAATGGGAAAAAAGGGGCTGAGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCACAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAAACCAAAAAAAAAAAAAAAAAAAAAAATGGGAAAAAAGCTGCTATGAATAAACACATCTAAACAGTATGCTAGAGTAAACATACGTGTAAGCTATTCTAATTGTGCAAATACACATGAACAGTACTGTTACTTTAAAAAAAAAAACCCTTACTGATTCATACACCATTCCCACCCCCTGTACAAACTAGATAAGACAGCATCAAAGAGAACGTTTATAGCAGCAGGTTATAAAACACCCATTCTATGAGTCAGATTCTATGGACAGTGTTTTACTTATCTATAGTATTATTAAAGATTGTTGTCGCCCCTCCCTGTGTTTACTGAGGGAGCTTAATTTTCTACCTCAAGGTCATGCCATTCATAATTTCCCAAGCAAGGGGGAAATACTCAGGAAAATGATGAATCCAGATGATGGCTGGATATTGGCTGGGTGCATGAGGTCTGTTAGTGACCTTGTGGGACAAGACACTGAGCTATGGTCTTCAAGGAAAATAACAGCAAACTAAAAGTTGCCATGGGCATATATTAGGCAGCAAGCTCTATTTAGGGATGTGTGCTATTTAGGGATTATTTTTTGATGGGGTACATCTAATATTACTTGCTTTGGTAAACAACCCAACAGCCTGGTCCTTCAGATGCCCCTGGGGTTTATAAACACAACCCCTGGTAGAACGCAGGGGGATATGAACCACTTCGTTTTTGTTCTCAGACACCTTTGCCTCCTTTGGAATGGGCTTCCTCAAAAGTAGAAGTCTGAGAAAGAAGTCAAATGTATATATATGCTGGTCTGTGAGGTTTCTCATTTTAAAAGATCAGAGGGTGTCGGGGGCAGTGATCCATCCGCCTGAGCCTGTACCAGCTAGCAAGGAGCGCCGCTTGTCGGATGGACACAGTGCCCCGGTCCAGCTCTCACCAAGCTTAATGGTTTTTCTCCAATCTCTCCTATGCCATGCACGTGACCAGGCCTGCTGTTTTTGACCAGCCTTTCTTATACAGACCCCGATCAGTTTGTTTATAAAACACGGCCTCCCAGGGAGCGGCCTGACACGTCCCCTGATGTGATGATGAATAGCTACTTAGGTTTGTGACCTGAGATGACAAATGAATTGCCTTGCTCGTGGTCATTTAAAAATCGTTTTTGGTCCATACAGAGCATAAATCTTCTTATTTTCTCTCCCATTTCAAGTGAAACACATACGAAAAGCATGCTCGACTTGCCAGGTGGTTTTCAGCGCTGGGTTCAGTTATGTCCTCCCTGCTCTGAACTTGGGGCTCATCATATTTTCAGTTCACCTCACAATTTGAGAACTGCAACAGTAGTGGTGATGCTTTTGATAAATAAAACCCAGCAAAAGGGGTGAAGTTAACACCGGCCACTTTCATAGAGGGAGATGGATCCGTTTGAAGAGTTTTGGCAATGGGTAGTTGTTCTGTCTGCTTTCCTAGCAAACCTCAGTGTCACCCAGAGTGCTGCTTTGTGCATTATAATTGGGCATTCCAATGCGGTCTACCCATTGAACAGTATGTCACCGATCCAAGTGACAGCTTACTCACCTCTACTGTTGATGCGAGGTTCTCAAATGACTGAATCACCATGCATGGTTTGTTTGCATGTTTGTGCCTGAGAACTGACTTGGTCCAAAGTAATGAGATGCTACCTATTATGTGTTAGCAGTGTTAGCATTTGCTCTTGCCTGATTACCAACTAGACAGAAAAGTATAGATGCTGTTCATGTAAATCACTGGTCAACGAAGAACCCTGTAACGTACTGAGCATATGACGTAGCATTCCCAGGGGACTTCAGTATCTGGCTTTCTCTTTCTTTGTCATAGTTTTAATATCAAAATAGGATTTGAATTGATTTTTTAAAGAGTTTTTTTACTCTTTCTTAGTCTATGTATTTATTTCTTTTATGTGAGTCCACTGTCGCTGTCTTCAGACACAGCAGAAGAGGGCATCAGATCCCATTACTGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCTTGACCCCTGAGCCATCTCTCCAGCCTCTTGAATTGATTCTTAAGATGGTTGAATAGTTCACAATTCAAGCTATACAAGTGCTAAATAGCGTAAAACTTTTTTAAAAGTCTTCATATCTATAGAAAGCAGTAAAAGTGCTATAGCACTTTGCTTTTGACCTGTCAAGTCCTTTAGCACTGTGACCCCTGTAGTAAATGTAGATGTAGATGGGAGATTGTGTGGAGAGGTGTGTGGGGATCCAGAGGGAAACATTATTTACCACATTGGTATCCTCCTAATGTTCAGGGTTGATATGAGTCTATTGTTTTTCTAG
Seq C2 exon
GCTTTTCTCTGGACTCAGGGAAGGGTATTGTTTCTAAAGATGACATCACTTTTGTATCTGGTGCTCCAAGAGCCAATCACAGTGGGGCTGTAGTTTTGCTAAAAAGAGACATGAAGTCAGCACATCTTCTCCTTGAGTATATATTTGATGGTGAAGGCCTGGCTTCTTCGTTTGGCTATGACGTGGCGGTGGTGGACCTCAATGCAGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF135171=VCBS=PU(6.8=7.0)
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]