RnoINT0107698 @ rn6
Intron Retention
Gene
ENSRNOG00000004410 | Pax6
Description
paired box 6 [Source:RGD Symbol;Acc:3258]
Coordinates
chr3:95707386-95711253:+
Coord C1 exon
chr3:95707386-95707413
Coord A exon
chr3:95707414-95711172
Coord C2 exon
chr3:95711173-95711253
Length
3759 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
CTCCCTCTGTTTTGTCTTAGGCA
3' ss Score
10.74
Exon sequences
Seq C1 exon
GCGACGAAAGAGAGGATGCCTCTTAAAG
Seq A exon
GTGAGTCCCACTTCTTTCTTCTCGATTTCTTTATATTTCAATATCCTAGCAGGTCTCTCCCTCTCTTCTTTCCTCCCCACTCGCCGGTCCCCTCCCCCACTACCACGCCGGGAGAATTGGGCCGGAGAAGTTTCCACGCAGGAGCCCAAACTTTCTACTTCCAGCGAAAGCCCGCGTCGGAGGGCGACGGTTCGCGAGCCGCAGCAGCGCGGAGCTCGGGGCAGCCGGCTGGCTCTGCACCAGCGCAAGTGCGGCTGAACCTCTCCGAGAGCAGCTAGGCTGCAGGGCGCCCCCGCAAACCGCAGCTCTCGGCTTCAGCGCCTCCAAAAGCTCACGGTCAGCCGAAAAGGACGAAGAGGCTCCTCCGTGCCCCAGGCCGCGGAGAGCAGCCACCGGCGATGCTTTTGTCCAGCCCCGGCCGAGCCAGCGCGCAGAGAGCGCCCAACCAGCCGACTCTCCGCGCCGCCTCCCGCCAGTCCGCGCTCCGGCTTTGTGCAAGATCCTCCGGGGCCCAGAACTGCCCGCAGCGCCAAAGGGTCATCGCGCCCTCCGCTAGCCGGAGCCGACTGGATGGGCATCACGGCCGGCCGTGCGCCCGAGGCCACGAGGAACTGGGAGCGAGCGCGGGCGGTGAAGGAAGCCGCTAGGCCGAGGCGGTCGGACCCGCTCTCCGAGGGAGTTCCGAGCCAATCCCAAGGACTGCCAGCTTCTATCCACCCCCCAGGGCCTTCGCCTCCAGCCTCAGCCGAGCGCTGAGCTCCGATTTGGAAACAAACGCCCTAGCTCTCCCGGCTTCCCACAACTCTTATCTTGCGAAAGTTGGTGTGTTCCTTGTCCTGTGGACTCCCACCTCCAGCTCTTGGTGGGTATTTTCCCGTGTCTCCATAGACCAAACTGTGCCCCGTGTTGCCATCTCAACAAGTTTCGAGCTGGAAAGGCGGCTTGCTCCCCTCTTTCGAATGTACTGATATTTTTCTTTGTGTGGCCTAAAGGGGGAAAAACATCTATATGAAAGCACTGGCTTTCCCTCTCCTCGGATCACGTCCTCTCCCAGCTAATTAGTCTGAGTAATTCGAGAGCTTTTGGATTCTAAGACCCCAGGAGGAAAAGTGGCTTTTCAAAGTTCAGAAAGTTGTTGCCTCTTTCCCGGGGCAGATCTCCTCTGTCTCCCTGAGTCATAATAGCCTCGAATTTTAGCAAGTGTAATTGAGGGAAATGGAGTTGAATTTCAAGTGGAAATGCTTTCTTTTTCAAGTGCTAAAAATCCTGGCCTTTCATTAATGAGCTTTCTAAAAAGTTTAAAAACAAAGTGAATGTTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCGCCATTTTGGATGTCAAACTCGAACTTGGGAAGGGTTGAGGAGATAGGATCAGAAAAACAAATGAAAAGATAAAATCCTTGAAAGCTTAGCAAGTTTATCCAAGAGAAAGTAGTTGTTGCGACTGGCAGAGGGAGGAGGGCGGCTGGTGATCTTTTGCATATGTTTGAAGGCGATTGATGAGTTATTATCATTTGGCCCTGGAGGGTAAACTTTGTCGCCCTAATTGCTAATTTCTAGGAGGGGGTTCAGGAGGAGAGAAACCAAGTTTCTCCTAACGCTTCAGCTGAAGAATGTAGGAGTGGATTTTGAAATTTAAATAATTAAAACAATAGCGTAGTGTGAAAGCTCTGGTTTGGGTTTGGGTCAGGGCGTGGGGACAGAGGTCCAGTGGACTTGTGGACTCAGACCTTGTGGCCTTGGAGATTTCTGAAGACTCCTTCATTCCTGATGCAGGTCTATGACCCTTCCAAGGCAATACAAAGACCTAGCCTAGGCTAGGGGTTTGGACTGAGGCAGAGGGGGTCTAGCTTCTTTAAGAACAGGACTGCTTCCGGGTGCAGGGTGTGCCCTGCTTCCCAGGGTGCTTTTGCACTGAGTGTTAACGATTACTTAGGTAATTAGATAGCTTCTTAGAGGAGAGGAGGGTGGGAACCAAGCAAAACCGGAACCTGAAGTGCTATCACCTTCCCACTAGCTTGGGAAACTAATCAGCTAGCTCTTGAGGGGATCTACTAGACAATTTTCTAAAATGGTATCACCGAGGTCAGAGCCTGGATGGAGACTTGAGGCTGTGTAAAAAATGTGGTTAGAGAAGAGCTTAGGAGGTTTCTGTTCCAAACAGAATTCCACCCTCCCCCCATACACACCTGCTGCCCTTTGAGTACTCTGTATAAGATGGACATTTTGTTCTGGGTGAGGTTTCTGTTCGTTACATGATAAAGATTCAGGAGCCAGCCTAAAGACAGGAGGGGACTTCAGGAGATAACCGCAATGGCGGTCTAGTCCTTTGCTATGTCCAGTCATAGCCAGACACTGAGAAAAATCTTCATCGTAGACTTGTTTTATGGATTTAAGCTGCCTCTCAGTTACTTAAAAGTTAAATCATAAAAGATCTTGAAGTGGAAACTATAATCCCTGGAATTCTTTGCAGGGCGGCAAAATTAATCATCATAGCCAAAAATGGGGGGGGGTGATTTCTTAAAAATAAAACAAAAATGAGATGCTGTGACTATTTCATTATTTTACCCCCGCCCTCTTCCCTGGGCAATCCTCTTGAATGGGCTCTTTATTGTAACTCTCCCTTTCCAATTGAGCTCCCCACGGCGCCCTTGTATCTTTTTACAACCCCTAACAACTCACACCAGTAACACAATTACCTCCAGATATTTATAACAAGAAATTACTTTACTATTTTCTCCACTTCTCTCCCAAGAATCCTCTTTTTGAGAGAAAGCCGGGAGGGTGGGTGGACTGGCAGCCTTGAGGGGCGCTGTCAGGACTTCCGTGAGTGGAGTTAGAGTTGTTGGTCCCTTTACTTGGACCTGGTGTTGTTGGGTTGAGAGTCTGGGATTTACTCTTTCGGTTTGGGGAAAGCCACAGAAGCCATTGTTTGGTGTCTGTAGACTTTGTGGACCGAGTTCACCTCTTCCCGTTTGTACTTTTTAAAGCAGTGAGGCGAGGTAGACAGGAGGTGTCACAGTACGGGAAAAGAGAAAGATCTAAACACCAAAACCGAAGTTAGCTACAATAAATGAGATTTAGGATAAAAAGTTGGGCTTACCACTTGCTCAGTCCGGAAGGAGCTGAGACACAGATTGTGGGGTCTGATTGGAAAGCCTTCTGGGGGTGTATGTATTGGGGAGGTTGGTTAAGGATAAAGCAGTAACCAAAGAAATTAGTTCTAGGGGTCTAGGGACAATAGTGGTGCTGAAATGCCTCAGGAAAGGAGGGAGCTTGGTCTGAGGCTCACCCAGACGTCCTAACCTGAACAGCAAGGCGTCACCAAGCCCTTCCATTCTCTTCCTTGGCAGATTTCAGGTACTCCTCACCGTCCCTTCCCAGCTCTGTTTCTTTTCCTCTCTCTGCTGTCTTGGTTTCTTAGTGCTGTCTAAGCCCTAAGTCCCCTTCCCCTGCTACTTGTTAGTTTTGCAAAGTGAGATCCATAACTCAAGATTCCCCATTTGCCGAAGCCTAGCCAACGCAACCTTTTCCAGAAGATGTGAATTTCTGTGGGAGAGGCCACTGGAAGCTTGGAGTAGGTTTGGTGTTTCAGGGCAGAAGGATCTAGCCCTAGATTCACTTTGGGTTGAGAGTGGGCCGCAGACAGTCAGTCAACCTATGCGCTGGGCCAATTTGACACACCTTTCTCTCCCTCTGTTTTGTCTTAG
Seq C2 exon
GCAGAAGACTTTAACTAGGGGCGGGCGAGCAGATGTGTGAGATCTTCTATTCAAAGAGTGGACATATAGCCCAGTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004410:ENSRNOT00000005882:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
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]