BtaINT0140464 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99178157-99178441:+
Coord C1 exon
chr11:99178157-99178210
Coord A exon
chr11:99178211-99178294
Coord C2 exon
chr11:99178295-99178441
Length
84 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
GCCTCGGCTTTCTGCCACAGACA
3' ss Score
8.48
Exon sequences
Seq C1 exon
GAACACGACCGGAGTGACCGAGGAGGCCCTCAAAGAATTCAGCATGATGTTCAA
Seq A exon
GTGAGTATCCCCGCGCCCTCCCAGGTGGGGGAGGTGGGCTCAGCAGCAGGGCCTCTGAGCTGAGGCCTCGGCTTTCTGCCACAG
Seq C2 exon
ACACTTCGACAAGGACAAGTCTGGCCGGCTGAACCACCAGGAGTTCAAATCCTGTCTGCGCTCCCTGGGCTATGACCTGCCCATGGTGGAGGAAGGGGAGCCCGACCCTGAGTTCGAGGCCATCCTGGACACTGTGGATCCTAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:52
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.263 A=NA C2=0.340
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PU(16.0=63.2)
A:
NA
C2:
PF134991=EF-hand_7=FE(65.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCCCTCAAAGAATTCAGCA
R:
AGGATCCACAGTGTCCAGGAT
Band lengths:
173-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development