DreINT0011398 @ danRer10
Intron Retention
Gene
ENSDARG00000101858 | FQ311894.1
Description
NA
Coordinates
chr13:1505837-1507793:+
Coord C1 exon
chr13:1505837-1506163
Coord A exon
chr13:1506164-1507708
Coord C2 exon
chr13:1507709-1507793
Length
1545 bp
Sequences
Splice sites
5' ss Seq
CTGGTACTG
5' ss Score
4.41
3' ss Seq
ATGCATGTTTTAATGTTCAGGCT
3' ss Score
5.67
Exon sequences
Seq C1 exon
GCTTTAGAGGAGGAGGTTTTGGGCCGGGGTAAGGTGTTGTACCAGGCCATGAGCCTGGGTCAGTCTCTGCGGACGCTGGGTTGTGTGGATGATAAAGAGACGGTGCAGGTAAAGCTGGAAAACACACAGCGCAGCTTTCTAGAGCTCCAGGAGCTGTGCAGACAGAAGGATGAGCTACTGAGGCAGGCCCGGGCCAATGCGCAGCTCTTCGGAGAGGATGAAGTGGCTCTGATGACGTGGCTGGATGAAGTGCACGCAAAACTGAGCGACGTCTCGGTTCAGGATTACACCCCGGCGGTGCTGGAAAAACAGCACGCAGAGCAGCTG
Seq A exon
GTACTGCATCAGCTCCTCCTCTTCATGCTTTACTCCACTCTTTTATTTATTTAATTCTCCATCTTCAGTGCAAAAATTTCTACTTTCTAATCCCAAGTGTTTTCTAGACGAGTGAAAAAATATTCTTTATTTTCCAGAAATAATAATTGGAGCAAACTGACATTGCCAAATTTAGATTTTACCAGATATACAGTTAAAGTCAGAATTATTCGCCCTCTTGTGAATTTCCTTTTTCCAATATTTCCCAAATGATGTTGAACAGATTCAGGAATTGTTCACAGTATTTCCTATAATATTTTTTCTTCTGGATAAAGTCTGATTTGTTTTATTTTGGCTAGAATAAAAGCAGTTCTTAATTTATTATAGTAATTTTTAGGTCAATATTATTAGCCCCCTTTAGCAATACTTGTTTTTTTTTTATATTTGGGCATCACAGGACAATGATGGGGGTCTCTTGGTGATTTCCAAAAGTCAAATTGACTTTATTAAACTATTAGAATGACCATATTTTATCTATAACTTACAGAAGAAAAAAAAATAGTAGTTAATAAAAACCATGCAAATAAAAAGCCATCAGCCTTTTGATTTTTTTGCAACCCCTGGGGTGATTACGTTATATTAAAGACACAGCATATTTACTTTATGCCACCAGGTTAAACTTTCTGACACCTTTACGCCACTAACGTACATTAAAAATCAATACAGGCCACAACTGAACATGGAGGATGGTCTCTGAGTGGCGTTCAAAATTAAATAATGAATAGAATTGGGCCTGTTGGTGTGTCTGTGCGCCATTGTGTGTAAGGTTTATATATTTATAACTACCTCAGAAGATATTGGCGGGTCGCTGGCATTGTTATTTTGAGGGTCACAGGCTGAAAAGTTTAGGAACCCCTGGTCTCCAGAACAAACCACTGTTATACAATGACTTGCCTAATTACCCTAACTTTACCCTAATTACCCTAGTGAAGCCTTTACATGTCACTTTAAGCTGAATACTAGTGTCTTGAAGAATATCTAGTCTAATAATATGTGCTGTCATCATGACAAAGAGAAAATAAATCAGTTATTAGAGATGAGTTATTAAATCTATTATGATTAAAAATGTGTTGAACAAAATCTTCTCTTCCTTAAACAGAAATTAGTGAACAAAATAAACAGGGGGGCTAATAAATCTGACTTCAACTGTATGGCGATATCAATACAATTTCACCTTGAATATGACTTGAATAGCTCAATTTCGAAGGAATTCATTAATTTAGATTAATTGAGATGTTTTTATGTGCAATAAATCTGTATAAAATGTCATAAATTACAAACATATAGAAATTGAGCAGAGCAAAGGTAAACGTTAAATAAACAGTGCTTCACTTAGAGAGTTTTGGTCTTGTTGCTTGTCTAAATATCTCAAAATTTAGAAATAATAAGTCTGCACGATATTGGACTCTGACATTGCGATATTTAGTGTTTCTGCGATATGTGTGTTGTGATTTCACGTTTCTCGTTCAGAAGGTGAGGGTCACTTATGCATGTTTTAATGTTCAG
Seq C2 exon
GCTCTTCATGAAGACATTGAGTTGAGGAAACAAAACATCGAACAGGCCATCCTCAACGGCTTAGAACTGCTCAAACAGACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000101858:ENSDART00000165987:21
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:
PF0043516=Spectrin=PD(57.5=56.0),PF0043516=Spectrin=PU(41.1=40.4)
A:
NA
C2:
PF0043516=Spectrin=FE(26.2=100)
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:
ATGAGCCTGGGTCAGTCTCTG
R:
AGCAGTTCTAAGCCGTTGAGG
Band lengths:
350-1895
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]