DreINT0025718 @ danRer10
Intron Retention
Gene
ENSDARG00000001431 | actn3b
Description
actinin alpha 3b [Source:ZFIN;Acc:ZDB-GENE-030131-2040]
Coordinates
chr7:6874039-6875258:+
Coord C1 exon
chr7:6874039-6874189
Coord A exon
chr7:6874190-6875149
Coord C2 exon
chr7:6875150-6875258
Length
960 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAAC
5' ss Score
0.76
3' ss Seq
TTATCTTTCTCTCTGTGTAGTGA
3' ss Score
9.37
Exon sequences
Seq C1 exon
GAAAGGAGCACCTGCTGTCCCAGAAGGACTATGAGACGGCCTCTCTGATGGAGATCCGGGCTCTGATGAGGAAACACGAGGCGTTCGAGAGCGATCTGGCCGCTCATCAGGACCGCGTGGAGCAGATTGCAGCCATCGCTCAAGAGCTGAA
Seq A exon
GTAAACAAAAACAAACAAAAATCAACTCTCAAAATCATTTCCGGGTCACGTTTTAGCTCAAAATCATGACGTGCATGAGAAACAGAAGCATTGCTTTCTTGTTGTTTTCATGATTATTGTTCTCCACTCTAATTCTTATTACTTTAAAGTTATTTAAATAAGTCAGAAAGTAATTTGAATTTATACGAAATGATGAGAATTAGCATTGAAAGTATCTGTCTTTATCAGTAAAAGAAAGAGAATTTTGTTCAAATTAAAACAAGACATTTTAGCACAACATTTGCTGGTTTCACCTGGATGCACAATTAATCTAACGTGGTGCATTCTTGTATTTTGATGTTCGTAAACCAACAGCAGATGATTTGTCATGCTGGTCGCGACGTGCTGCTTGCAACACATCATATATTGCAATAATTACACTTCGCTTTGCCTTTGTTTTTCACTACATGTAGCCCTTTGAGCACGTTGCGGTCCACCTAATGTTTAGATTATAGCTAATTCAAGGTGCCCTAAGTTCCTGCCAGACTTTCAAGTGTAAAAATAAAAATGTGCGCACGTACACTAAACGATAAGAGGAATCGAAATTTTAATTTCATATCAAGTATCTGATTCTTAATCTATTCGATTCCAGAATTGGAATCTATTTTCGATTCCCGACCCTGTTTTACAATAATGAACCAAAAAGTGGGCTAGAAGTAAATGACTTGTAAACTAACAGTAATCATATTTATAATTGCAGAAGAAAAACTGTGTACTCCTGGTTAAATTTCATTATTCATCAATGTAAAAGTATACATTTATAAGCTAAAATAAGCTAACTTTGAATAGAAAGGGAAGTGAAATACATTGATAAAGATTTTAAGTTATTACTTAACGGTAAGATATGCTTTTTTTAATGCTGTTTTCTTTTTGATTTGGGGTGAAATGTGATCAATTCAATTTATCTTTCTCTCTGTGTAG
Seq C2 exon
TGAATTAGACTATCATGATGCTGCTACAGTGAACGCTCGCTGTCAGGGCATCTGTGACCAGTGGGACAATCTGGGGACCCTGACCCAGAAGAGGAGAGATTCTCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000001431:ENSDART00000001649:12
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=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:
GCACCTGCTGTCCCAGAAG
R:
AGAATCTCTCCTCTTCTGGGTCA
Band lengths:
247-1207
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]