DreINT0025698 @ danRer10
Intron Retention
Gene
ENSDARG00000071090 | actn2b
Description
actinin, alpha 2b [Source:ZFIN;Acc:ZDB-GENE-051127-39]
Coordinates
chr17:20110390-20112107:-
Coord C1 exon
chr17:20111957-20112107
Coord A exon
chr17:20110499-20111956
Coord C2 exon
chr17:20110390-20110498
Length
1458 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGA
5' ss Score
4.72
3' ss Seq
TCTGTTTTGATTTCCTGAAGTGA
3' ss Score
4.74
Exon sequences
Seq C1 exon
GTAAGGAAGAGATGTTGACCCGGAAGGACTACGAGTCAGCGTCTCTAATGGAAGTGCGAGCTTTGCTGCGGAAACACGAAGCGTTTGAGAGTGACCTTTCTGCACACCAGGACAGAGTTGAGCAGATCGCTGCTATTGCTCAGGAGCTCAA
Seq A exon
GTATGACATTTACACATTTCAAAAATACGTTCCCTTTTTTCCAAACTTCAGCTACTGTTCAAACGTCTGTGATTAGCATGAAATTAATACATTCAGCAAAAATGTGTAAAACATTTTATAGGTAAAGTCCCATTTCGTCGAAACGATGTACTTTTCAGCTTTTTTCCTTGTGTTTGCAATATTTACTATATTATTGAATTTACTGTATTTTTGATGCAATAAATACAGGTATGTTAGGTATAAGGGACTTACAAAAAAATCTTGCTTCAAACTCTTAAATGGTAGGCGTACTTGGTCTTTGTAAGTAACTTGTCACGTTCACTTTCTCATCACCTTAGGCTCTGTACAGCTTTTTATCTCTCACTCTGCTTATCCATAACTTGACACACACACACACACACACACACACACACACACACACACACACACACACACACATACACACACACATTCACATGCACACACCAGACTTACAGCATACTTTGACGTTTGAATGACTGGATTCCTATTTTAGTATTCATTATCTCCCTGCAGGCCTGGTTAATGTGTGTGAGTGTGCGTGCATGTTTGTTGTAAGTGACTGACAGCATTTGACCTTTTCGTTGTCTCAGTAAGTACAGTGTGATATTACTGATAACCTATAAAGCGTACTTAAGATGATTAGCATGCTAAAGTCTATTTGAAAACAAAAGGCAAACAGAAAGAACAACTTTTTAAAGTTTAATTTGACAAATGTAACAGTAGTTTTTTTAGGTATAGTTCAAGCATAATCCTGTTAAATTACTCGCTCTCAGGCCATCCAAGATTAAAGTGACTTATTTCTTCCATCGAAAATAAAGAAGAGCTTTTTTTAAAGCTGAAATTGATCATTTGTGGCAATAAAATCCCAGTCAAGGGTTAATGCATAAGTTATACTAAAAACCTTTTTTAATGTTCTACTGAAGAAATAAAGTTGCAGACATCATAATAGCTGGTATTTTTGTGAACTATCATAGTCACACAAAGTAAAAATACCAAAAAACTAAATTCATAATATTTATTAAAAATCTTTTTTTATTTAAAAATAATGCCACCATTACAGAAAAAAATCAAAATCAATCATGCTTTAATAAGTGTAAGCATCTAAATACAGAAATAACAAAGCTACAGTGTGTACTTAATAATAAACAGATCCTATGGATGATATTATCTTAATTTTAAAATGTATAACTAAGTAAAATGTATTACTTTATTTCTAAACAGAGCTTTAGATGCACAGTTTTAAAATACTTTAAAATTTAAACTGATTTTCATCAAAGAACCTTGACTAACATCAAGTAGGGAAAGAAAATGTGTGGAATATTGCATGAACACAATGTTTATGACTACTACACCTAATAACCGCTAGAGGGAGACAGACTCAACAGCAAATGCGAGAATGTGGCCTGACGTTTCTTTCTCTGTTTTGATTTCCTGAAG
Seq C2 exon
TGAGCTGGACTATCATGATGTTGCATCCGTGAATCAAAGGTGTCAAAGTATTTGTGACCTCTGGGACCATCTGGGCACGCTCACCCAGAAACGCAGAGAGGCTTTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000071090:ENSDART00000138911:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(47.2=100)
A:
NA
C2:
PF0043516=Spectrin=FE(34.0=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:
AGGAAGAGATGTTGACCCGGA
R:
CCAAAGCCTCTCTGCGTTTCT
Band lengths:
255-1713
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]