BtaINT0013338 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022244 | ACTN3
Description
actinin, alpha 3 (gene/pseudogene) [Source:HGNC Symbol;Acc:HGNC:165]
Coordinates
chr29:45239392-45239977:+
Coord C1 exon
chr29:45239392-45239532
Coord A exon
chr29:45239533-45239794
Coord C2 exon
chr29:45239795-45239977
Length
262 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
TTCCTGCCTGTCGTCCCCAGAGC
3' ss Score
11.21
Exon sequences
Seq C1 exon
CGGATGGAGAAGCTCCTAGAGACCATCGATCAGCTACAGCTGGAGTTTGCCCGGCGGGCAGCGCCCTTCAACAACTGGCTGGACGGCGCCGTGGAGGACCTGCAGGACGTGTGGCTGGTGCACTCGGTGGAGGAGACCCAG
Seq A exon
GTGGGTGCGGGGGCTCCAGGTGTGCCAGGGTTGGATGGGATGACAAGGAAGTGGCCTGTCTTCTGTCGGCCACCCCTTTGGGCTCCTGGGGAATGGGGGGCCAGAGGAGAAGCCCAGCTCTAGAGTGCCAGGAGTCAGGAGGCCTGGGTTCTCTGGCCAGTGCTGCCCTGGCCCCCGGTGAATGGCCCAGAGCCCCTGGCCATCCTTTGTTGCCTGCGGGAGGTAGGGGCGCTGATTGATGCTTCCTGCCTGTCGTCCCCAG
Seq C2 exon
AGCTTGGTGACAGCACACGACCAGTTCAAGGCAACACTGCCCGAGGCCGACCGAGAGAGGGGTGCCATCCTGGGCATCCAGGGTGAGATCCAGAAGATCTGCCAAACGTACGGACTGCGGCCCAGCTCCACCAACCCCTACATCACCCTCACCCCGCAGGACATCAACACCAAGTGGGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022244:ENSBTAT00000030030:15
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=0.115
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(0.1=0.0),PF0043516=Spectrin=PU(32.1=76.6)
A:
NA
C2:
PF0043516=Spectrin=FE(53.6=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:
AGACCATCGATCAGCTACAGC
R:
ACTTGGTGTTGATGTCCTGCG
Band lengths:
297-559
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]