RnoINT0076070 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58487766-58492375:+
Coord C1 exon
chr3:58487766-58487884
Coord A exon
chr3:58487885-58492276
Coord C2 exon
chr3:58492277-58492375
Length
4392 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGT
5' ss Score
6.99
3' ss Seq
GTTTTCACTCTTGTTTACAGATC
3' ss Score
9.5
Exon sequences
Seq C1 exon
GTTCTTGAGGGTACAACGCCTTTCTTCGGCTACTCAATCGCTGGGAACATGGACCTGGACAGGAATTCCTACCCTGACGTTGCTGTGGGTTCCCTCTCAGACTCAGTAACTATTTTCAG
Seq A exon
GTGTGTGCTGCCGTTGACTTTGGTTAAACAAGCTTCAAAATGATCTTACTCTGTTGTTTTTGTTTATTCATTTTTACCTATTTATCGAGGCAAAGGCTTGTATAAATTTGAAGGTTTTTTTTTTTTTTGGACGGGATATAACAGTAAATGATAAAAATTATGTAATTTCTTGCTAATACTGAACTGATTTGGAGTAAAAATGTGTTGGAATTAATGGAAAGTGTTGCTTCCTAAATATATCTTTAAAACCTTTCTTCGAGTCTCGGGGATATGACTCTGGCTTCAAGTCACTTGCCTGGCACTGCTGGGCAGGCATAGCAGCCCCTCCTGTAATTCCAGCCCTGGAACGGATTCCTGGAACTAGCTGGCTAGTAGTTCTAGCCTTTAGGTAGCTCTAGGTTTAATTGAAAGTGTAATCAAGGAATCTCTGGGTTACTCTGAGTCCACACTGAGCAGGTGTCGAGCTGTAGGAAGCCTTGGGTAGGGAAGTGCAGTCCGAGGACTGGACACAGCCAGAGCTGATGTGGTGGGTCCCCACAAGGAGTCTGGGGTGGTCGGATTCTCAGACTCTTGGGCACCCAGGCACTTCTGGGATGCTACAGAAGAGCTGAGAACGGAGTGAGGGCCCAAGGGGCTGGGCAGCTGCAGGCTGCAGGCTTGGTGGTGGAGATGGCTTTCTTCAGATTAGACTGCAGCTCTGTAGACGAAGGCCTCCTCTGTCGCTCCCCACAGCGGATCCCAATGAAAAGAGGCGGTCTGTAATTTTAAGGCATTTATTGTCATGGTGGAAAGTAGATGATTAAAACTGAGAACCCCACTTCTCAGAGTGGGCCTGAGATTAAATAACCTTTTGCCGGGAGGAGTGTCTGGGAAGGACAGGTTATTGACTAAACCTCCAGGCCTTTAGGTACCTCATTATAACGGAGATCTGTCTTGAACCTACGTGACCTGTGGGGCTTGGAGCATTGCCCTTATGTGACTGGTGGTCACAAATCTATGGAGGGCTGAATGCTAGTGACCGACTTGTTTTCCTGAGAGTCAGGCAAAACGCCTACCGTCCCTTTCAAGGTCACAGGGGTTTCACACCTCCTCAACCAGGAACCAGGGAGCCTTTTATGGTCCCACAGGCAATAAGGTGCAATGTAGTGTCCTGTCGTGGGCTCAGAGCTGCCACTGCCCTATGGGTGTACAGGCAGCCTCTGCAACTAAAATATCATCTTCCTCCAAAAACGCCCCAGGAGAAGAAACCCACCATAGGATACTTTCATTGGGGTGAGACATGCTTTTGATGTGCTGCCCAGGCTGGTCCTAAACTCCTCAGCTCAGACAGTCCTCCAACCTGAACCTCCCAAGTATCTTTGAAATTAGCCATGTGACAGATAAGCCAATCAGTCTTGCCTTGTGCATGAAAAGACACACTTTCTGTCGTGCTTATGCGCCATGTCCCGTAGGTGTTACATGTTTTAAATACGGAAATTAAAGCAGACTCACAGCCAAGTGTGTTCAAATATTTTGAAATGTACGTCCTAATGAACAAATTAATACTATGATATGCAAAACCCTGGATGGCAACTTATTTTAAAATGCATGAATAAGTACAATAAGTAAAAAGATATAGTGTGCTGTCAAAACTCAAGAGTGCATCTAGTCAGTGTCCTGGAAATCCACAGCTGTCTGAATGTATGATAGGATAAGGTCACTAGGAAACGTGGGGAGATGGGGTATGTAGGAGTAGTCAATGCTCCTGGTGCCTGCCTTCCCGGTGAATGGGCTTGCACCCTCTCCAGCTACCAATAGATAGATTCCAGAGGGTTGAGAGAGCTATCTGGGGTTTGGAGAGCATTTTCCTATTAAAAACAAGCTCCCCAGGGACCTGGCTGGATCCTCATGGTAGTGAAACGATATACTCACTCTTAGTTCTGGAGGGAGCAGTGAAGGTGAGAGGTGAGCCAGACTCTTCCCATCCTGCCCCTCTCCCTCCATGCACACAGCCACCAGGCGCTGGTGCTCCTTGTGCCTATGACAGGCTCAAGCCAAAGCCTCTGCTGTCTTCTTCTGTCTACACCAGAGCCAGAGAAGAGCATAAGGGAGAAAGCTGTTTTCAGGTAAAGAGCAGAACCGAAGGGTAGGACTTAGAATATTGTTTGTGGGTTTGAAGCACAGCAGAGATGAGGAATGGTTAAGGGTTCACGTTTCTGTTTGCAGAGATACTGTGGGGCTTTGTTAAAGACAGAGTCTAACCATGTGCCCAAGATGGCCTCAGCCTCCCAACGGCCAAGATAGCAGATGTGTGCCACCATACCCAGATGTTAATCTGTTCTTAAGGTGGAGAACGGAAGATTCCAACACAGGGAAAACACCTGTTAGCAGCCACATGTTAGGTGTCTCAGTATAAATCTTTGGAGGTTATTAAAATTATTTTTCATTAAAACATGTGCATTCACCCCACCCCACGCCCCGTTGTGGCTTTCCCAGCTGTGGTGGGATGATCCTCTTGAACTGTGGGCCAGCATACGTTGCTTGGGTTGCTTTTGTCGTGTTACTTTATCCCAGTAACGGATAAAGTGACAAATGCTCATAGCCTGACATAGAAGCCCACAAATGCCGAGAATTAATTTGGAAAGATATGGAAGGCACACGGGGGAAAAGGAAGGCGCATGTTTGTATTATCTAGGGTTCCTTAGAGAAGCAGCACCAGTGGGAGGAATGTGTCTATGTTAAGGAATTCATTAAGTCAGCTTACACTGCAACGGCAACAGTAGCTGAATCACACCTGAGGCTGGGGACCTGGAAGTTGCTCTGTCCTTGAGGCTGGGGCTCCCTGCCTCCCATGGTAGCTGTCACTCACTAGGAAGGGGAGAAAAAGGAAAAAAAATGTGCAATTAAAACACATGTATTACCGTACGCCAGTGAATAGCTTTTCCCAGAAAGACAGAGGTAGTGAACGCTGGCCTAAGTGTAGACAAAGGCGTTGCTTACATTGGTGAGAACCATCCTGGAAAGCAGTGTGGAGGTTGTTTCTTTAAAGAAAGTAAAGGAACTTCCTATGAGCCAGCAGATACATCAGCTAAGGAAGTGAAAGTTGCAAGAGATTCCCACACCTCCATGTTTATTAATTACAGCGTTTCTGGAAACAACCTAAGCGTCAGCTGACGGATAAAGACAATGTGCGTATGCACAGTGGGGACGCAGTTCAGCTATTAAAACGAAGTCCTCGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGGAAGCGCAAGGCCCTGGTCGGTCCCCAGCTCCGAAAAAAAGAACCAAAAAAAGAAGTCCTGTCATCCTATGGTGTGATGGGGTTAGACACTGTGTTAAGTGAAACAAGCCAGGCACGGAAAGACAGTGTCACATGATCTCACTCACGGGTGCAATCTAAAATCCCTGAACAACAGTTCGGCTGGGTGTGGGAGCTGGGAGGGAGAGGAGGGGAGGTGGATTGGTACGTATCGAGTTGCAGACAGGGTCTCACTGACTGGCCTTGAACTTGTATAGTTCAAGAAGTCTTCACATTTACAGTCCTGCCTCAAGTTGCTGGAATTGCAAACTTGTGCCATTATGCCTGGCTCTTTTGTATACGTTTATATATGTGTGTATCCGTTTTTGGAAACTAAATAAAACAAAGTAATTTGTTTATCTATGTAGTGAGGCAGATTCTTGTTAGCTGGCCTGGAACTCCATATATAGGCTAGACTAGCCTGGAGTTTATAACATCCTTCCAGCCTCTGCTTCCTGAGGCTTTGAACACACATGTTCGTGGAAGCTCTGCTGCTGGGGATTTATCCATAAGTAAACTCAAGTGTAAACGGATTTCTGTACAGTGTTGTTAGCATGGCTACTGGTGATGATTGATTACATAGAGGCCATTACATTGTCGTAGTTAAGCATCACAACAGGTAATGAATCATATTTATATGTTAGGACGAGTTCCCTCCCCCAGATGTTAATGAATGAGACATACTTCCACAAAGAACAGTTAACATTAAAAAAAAAAAAAAGCTCCTATTTGAGAATATATTTTTATATTTGACAGTAGGCGGTTTTCGTAACAGAAACAGATAACATGTCTGAAAAGAACTTGCACGATCACTGGGGTGAGAGTGTGTTTAATGGAAAAGTATTTGCTTGAAGACATTGCATGCATTAGTATGGTTTTTAAATATAGTACAGTCTTAGTACTATAATATTGTTTATACCCATTAGTTGATTGGTTCCCATAGTAGGGGAAGAAGTCAAACCTACACACATCTTTCTTCTGTGGTTTTAAAGAGGCAGGGCTGTTGCAAATACTGCCTGATGTGTGAATGACTCAAAAGATAACAAAAGGCCTTGGTGGGTTTTCACTCTTGTTTACAG
Seq C2 exon
ATCCCGGCCAGTGATTAACATTCTGAAAACCATCACAGTGACTCCTAGCAGAATTGACCTCCGCCAGAAATCCATGTGTGGGTCACCTAGCGGGATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:9
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:
NO
A:
NA
C2:
PF084417=Integrin_alpha2=PU(6.7=94.1)
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]