RnoINT0076062 @ rn6
Intron Retention
Gene
ENSRNOG00000001518 | Itga6
Description
integrin subunit alpha 6 [Source:RGD Symbol;Acc:621633]
Coordinates
chr3:58506492-58510352:+
Coord C1 exon
chr3:58506492-58506617
Coord A exon
chr3:58506618-58510222
Coord C2 exon
chr3:58510223-58510352
Length
3605 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
AATGCCTTGCTTCCTTGTAGTGT
3' ss Score
7.86
Exon sequences
Seq C1 exon
GTTCGAGTGACGGTGTTTCCCTCAAAGACGGTAGCTCAGTATTCAGGGATAGCGTGGTGGATCATCCTCCTGGCTGTGCTTGCCGGGATTTTGATGCTGGCTCTATTAGTGTTTTTACTGTGGAAG
Seq A exon
GTAAGTCATGTTTGTCACTTTTGAGTTTGGGATATAAATTTCATGTTTTTTATAGACGAGGATTCATATTGACATGCTTGTAGTTCCTTTTTTCATTATTTCTCTTTTCCCCAACATTTTAAAAAATATTTATTTATTTACTTATTTATTTATTTAATGTATGGGAGTATACTGCTCTCTTCATGCACACCAGAAGGGGGAATCAGATCCCATTACAGATGGTTGCGAGCCACCATGTGGTTGCTGGGAATTGAACCTAGGACCTCTGGAAGAACAGTCAGTGCTCTTAACCGCTGAGCCATCTCTCCAGCCCCCTTTCTCAACATTTTATCATAAAATTATGGCAAATCTGGGAGACTTTTTACAGGAATTACCCACACATCTACATAATAATTTACATTTAAAGATTACTTGTGTGTAAAAAGTTTCTTAAAATACATTTAATGTCTTATATATAATTCAGCTTGTTTGATAAGTGACAGTTTGAATTTTACTACTTTATTTAGCATTCTCTGTATCTAAGATCAAACCCTAAATCTAAGCCAAAGTGACAGATAACAGTTCGATCCGAATATAAATTCCTGCTAATTCCCCCTTCCGTAAAAGCCTTCATGTCAGCCACGGGGAATCACCACCCGCACCTCTAGATTAGTAGTAGGAAAAGATGGCAGAGTAATACTCCATCTCACGGTTTTTCGCATGTAACAAACATGGAGAACATCCAGGCTCCATGTGGTGTTCCTCATTAGACCCCGATCTTCTGACTGCACAGCGCGCGATAATCTCTCCCTGCTTCCTCCCCATGAAGAGTCTATGCCATCAAAAGAGTATGTAGGAAATAGTTATGAGCATTGGTCAATAGATTACAGCCTCTGTAGGTCTCATGTGAGTCCCAGGGAGTAATGGAGGTCTATTGTCCTTATGGGCAGTGCCGGATTACAGAAATGTCTGGGAACTGACATCTTGATGACTGACTTGGTAGAACCTGATACGATGTGAGGGGACGATATTTACAGCCTTACGATTTGGCTTCATGAATTGCAGTGCCATTACGTGTAGAGTGCTTCCCGGTGTGTCTGTCTATTCCAGAAGGTTTGTTTGGGGTGAAGTAAGAATGTGATAGGGTCAAACCACCTTTTTCCTCCCATCGTGTCCTAGAGTATGGCAGATAAAGGATACTCCTGAGTTCTGTTTTGAGTGAGTCTACCCCTGCCCCGCACCATTCTTCCAAACAACTTCCCCTTTGCCAGGCTGAGATACTCTGAGGCTTGGCATCCGTCCATACCAGTAGCCTTCCTGATACACAGATTCTTTAATGTTTTGTTCAGCTATATCTCAAGCAGTAGGTTTCTTCGTCAAATACAGCCAATGAGTATTAGGGCTCTTGGTATAATTATTTGGTCTTAAAAATTAATTGGGGGTTTTGATACTTGTGGGTGTTCTTGTATTCTCTGGAAGAGGCTACAAGGCCAGTCTTTTCCCAGAGCAGATCTTATTAGTGGTCTTGAATCCTTGGGTAGTCATGACAGTAGACGCAGAGTTAAGATACTTGAGCTGTGTACAATTTTGGGCAAATCCTTTCGTTCCCCTGGATCTCAGCTGTTTAATAATTGGATCCGACTAAGTGATCTCATTGGCTTCTTTGATGTTCTAATTTCCAGACCCTGAAGTAGATTCTAAAATGATCAGATACCTTCCTCAACCTCCACATGGAAATCAGTCTTACTGCTTCATATTCTTCTCTATAAAAATTATTCATATTTAAAACAAGGAATTTAAGGATCAGAAAGGGTTCTAGGGTTTAAGGATGTAGCTTATCAGTAAAGCTTTACACTCTGTGCTAGGCTCTGGCTTCAGTCCCCGCCACTGTGGAGGGATGCTGGGTAAGCTATACAGTTCAGCAGTCTTTAACCTGAGCTTGTCCATCTACATCAATGTCAAAGGCTACTGGGGAGCTCCACTCTAACCAGAGGAATCCTGGCTTTATCTCTTTCATAAATGCTGCCTTTTGCACAGGAGTCCCTTTAGAAGTAAAGGACAAAAGTCCTCAGGGATCTTAGGACTGTTCATTTTGCCTGGCACTGGTGGCACATGCCTTTAATCCCTGCACTGGGGAGACAGGCAGTTGGATCTCTGAGTTCAAGGCCCACTGGTCTACAGAGAGTTCCAGGACTGCCAGGGCTACACAGAGAAACCCTGTCAAACAAAAAACAAAAGAAACAAATCTTCGTTCTGGTTTACTTTTCTTCTGCCCTATTTACTAGTTCTTGTGACTACAACTTGGCTGTGTTCGCTATGTATCACCCTGACAGCCACAGCCACAAGTACACACGAGATAGGCTAAGTCACTGTATCCCAGTACAGCGATCTGTAATATGAAACTGTCCTAGAGCGGCAGCATCCCCTGATCACCAGGAGTCACCTTTGCCTGGTACAGTGGAAGAGTTGCATTTTCAATTTAAATTTGTCTCAGCTTGAGTAACCATGTACAGTCGGTGGCTCCCACCCTGCAATAGGCAGATGTAGATTTTTTTTTTTTCCTTTATGAGTTGCTAGACTGGGAGGCACAATTTCGCCAGGAGATTTATTTAGCTATTAGTTAGGATTTTGCTGCTGTGAAGAGACACCACAATCAAGGCAGCTCTTTTAAGGATAGCATTTAATTGGGGCTGGCTTACGAGGTCAGAGGTTCAGTCCATTATCATCAAGGGTGGAGCATGTTAGCATCCAGGCAGGCATGGTGCAGGAGGAGCTGAGAGTTATTCATCTGTTCTGAAGGCTGCTAGAGGAAGACTGGCTTCCAGGCAGCTAGGAAGAGGGTCTTAAAGCCCATGTCCACAACAACACACCTCCTCCAACAAGGCCACACCTCCCAATACTGCCACTCCCTGGGACAAGCGTATTCAAACCACCACACTGACCGAGTTGTATTTCAAATGTTAGCTCCACAGCCTGTGAGCCCGATGAAAGTGAATAGGAAAATTCCCCACTGTTGAATGAAGGGAGCAAGAGCAGAGAGTGGAATTACACTTTTATGCTCATCTAGAGTGACCTAAACGGAGGAACATGAGTTCCTCATGCTTAAGGGTTGCATGGTGGTTCAGATTCCAGGGGAAATGACATCAGTTACTCTTCCGTTGGAATTTATTCTGTGATTCACGCTAGCAGTTGGTCCAGAGGTACCCAGCAGACAGTGTTGTTCCAATAAAATTTAACTACAGAAGCAGATAAACACACCGTATTTATGTTTTATTTTGGCTTTACTGAATCTTACGGGCTTTGTTTCCCGTCATTCGTCTCACTAGACTGCAGATGTGACTGTTCTGACGTTTTAGAGTCTATCCTGCTAGGAAAAAAAATCACCTAAGTTCCAGCCAGATGTGCATGTATATTTTCCTTTTGGGATGACCCTAAGATTTCTGCTGTAAATAGAAAGTCAGTTAGTCAGTGCGTGTTGTCCTCATGTAGGGACACTGAGTGGCCGACTCTGTTAAATGCTGGCACAGGGTGACGGCTGTTCCCTTAGGTTAAAGTCTGAGATGCTCTTTTCTTTAGCTTTCAAACCCAAAGCTGTAAAATTGACTAAATGCCTTGCTTCCTTGTAG
Seq C2 exon
TGTGGTTTCTTCAAGAGAAATAAGAAAGATCATTACGATGCCACCTACCACAAGGCTGAGATCCACACTCAGCCGTCTGATAAAGAGAGGCTTACTTCCGATGCATAGTATTGATCTACTTCCCTAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001518:ENSRNOT00000002075:24
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=0.171
Domain overlap (PFAM):
C1:
PF151761=LRR19-TM=PU(51.4=85.7),PF0035715=Integrin_alpha=PU(0.1=0.0)
A:
NA
C2:
PF151761=LRR19-TM=PD(45.7=88.9),PF0035715=Integrin_alpha=PD(86.7=36.1)
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]