BtaINT0013340 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022244 | ACTN3
Description
actinin, alpha 3 (gene/pseudogene) [Source:HGNC Symbol;Acc:HGNC:165]
Coordinates
chr29:45240425-45240829:+
Coord C1 exon
chr29:45240425-45240559
Coord A exon
chr29:45240560-45240649
Coord C2 exon
chr29:45240650-45240829
Length
90 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
CCTGCCCGGTCCCCCTGTAGGAA
3' ss Score
11.4
Exon sequences
Seq C1 exon
GTCCGAAAGCTGGTACCCAGCCGTGACCAGATGCTGCAGGAGGAGCTGACGCGGCAGCAGGTGAACGAGAGGCTCCGGCGGCAGTTTGCAGCCCAGGCCAACGCCATCGGGCCCTGGATCCAGGGGAAGGTGGAG
Seq A exon
GTAAGGCTTGGATAAGGGAGCCAACCTGGGAGACGGGGGCCGGGGGCCACCAGGGGCTGGAAGCCTTCATCCTGCCCGGTCCCCCTGTAG
Seq C2 exon
GAAGTGGGGCGCCTAGCCGCGGGGATGGCCGGCTCTCTGGAGGAGCAGATGGCGGGCCTGCGGCAGCAGGAGCAGAATATCATCAACTACAAGAGCAACATCGACCGGCTGGAGGGAGACCACCAGCTGCTGCAGGAGAGTCTGGTGTTTGACAACAAGCACACGGTCTACAGCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022244:ENSBTAT00000030030:17
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=PD(11.6=28.9),PF0043516=Spectrin=PU(20.2=46.7)
A:
NA
C2:
PF0043516=Spectrin=FE(56.7=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:
GGATCCAGGGGAAGGTGGAG
R:
CAAACACCAGACTCTCCTGCA
Band lengths:
171-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]