BtaINT0140461 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99138360-99138804:+
Coord C1 exon
chr11:99138360-99138493
Coord A exon
chr11:99138494-99138659
Coord C2 exon
chr11:99138660-99138804
Length
166 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
CGGGTGCCTCTGTGTTGTAGGGA
3' ss Score
8.8
Exon sequences
Seq C1 exon
GAGCAGCACCCTGAGGAGGAGCTGATCAAGACAAAGCAGGACGAGGTGAATGCAGCCTGGCAGCGGCTGAAGGGCCTGGCCCTCCAGCGGCAGGGGAAGCTGTTCGGGGCAGCTGAGGTCCAACGCTTTAACAG
Seq A exon
GTACCAAGCTGAGGGGGCTTGCAGGAATGGGATCTCCCGGCCAGGTGTGGTGAAGCCTACGGGGAGTTGAAGAAAGTGTGGGGCTGACTGGATCTCTGCCCTGTGTGGCATCCCAGTCCCGGATGGACGATGTAGCTACAGACAAACGGGTGCCTCTGTGTTGTAG
Seq C2 exon
GGATGTGGACGAGACCATCAGCTGGATTAAGGAGAAGGAACAGTTAATGGCCTCTGATGACTTTGGCCGGGACCTGGCCAGCGTCCAGGCTTTACTACGGAAACACGAGGGTTTGGAGAGAGATCTTGCTGCCTTGGAGGACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.133 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(32.7=75.6),PF0043516=Spectrin=PU(6.7=15.6)
A:
NA
C2:
PF0043516=Spectrin=FE(45.7=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:
AAAGCAGGACGAGGTGAATGC
R:
GTCCTCCAAGGCAGCAAGATC
Band lengths:
244-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development