BtaINT0140441 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99159098-99159519:+
Coord C1 exon
chr11:99159098-99159197
Coord A exon
chr11:99159198-99159321
Coord C2 exon
chr11:99159322-99159519
Length
124 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CCCTTCCCTCCTCTTGGCAGGAA
3' ss Score
10.62
Exon sequences
Seq C1 exon
GGACCTCATGTCTTGGATCAATGGAATCCGAGGTCTGGTGTCCTCAGACGAGCTAGCCAAGGATGTCACCGGAGCTGAGGCCCTGCTGGAGCGACACCAG
Seq A exon
GTGGGTCGGCCTGCTGAGCAACGCATACATGGTGACCCTGCCAGGCCAGGAGGACTTTAGTGGTTGATGTGAGAGTGGGCAGCTCCTCCTGCCAGTTACCTAATCCCTTCCCTCCTCTTGGCAG
Seq C2 exon
GAACACCGGACAGAAATTGATGCCAGAGCTGGCACTTTCCAGGCATTCGAGCAGTTTGGGCAGCAGCTGTTGGCTCATGGGCACTACGCCAGCCCCGAGATCAAGGAGAAGCTCGATGTTCTAGACCAGGAGCGTGCAGACCTTGAGAAGGCCTGGGTCCAGCGCAGGATGATGCTGGATCAGTGCCTTGAATTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:31
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.265 A=NA C2=0.061
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(31.4=100)
A:
NA
C2:
PF0043516=Spectrin=PD(57.1=90.9),PF0043516=Spectrin=PU(2.9=4.5)
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:
AGACGAGCTAGCCAAGGATGT
R:
GGCACTGATCCAGCATCATCC
Band lengths:
242-366
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development