BtaINT0140442 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99159322-99159769:+
Coord C1 exon
chr11:99159322-99159519
Coord A exon
chr11:99159520-99159622
Coord C2 exon
chr11:99159623-99159769
Length
103 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCT
5' ss Score
8.16
3' ss Seq
ATCCCTCTCCCCTTCTTTAGCTG
3' ss Score
9.6
Exon sequences
Seq C1 exon
GAACACCGGACAGAAATTGATGCCAGAGCTGGCACTTTCCAGGCATTCGAGCAGTTTGGGCAGCAGCTGTTGGCTCATGGGCACTACGCCAGCCCCGAGATCAAGGAGAAGCTCGATGTTCTAGACCAGGAGCGTGCAGACCTTGAGAAGGCCTGGGTCCAGCGCAGGATGATGCTGGATCAGTGCCTTGAATTGCAG
Seq A exon
GTACCTGCTCTGGATGGTAGCTTCCTGTTTGCCACAGGATTTCAGACCAGGTGTTTTGTGCCAGAGGCTCCTTGTCTCCTCACATCCCTCTCCCCTTCTTTAG
Seq C2 exon
CTGTTCCATCGGGATTGCGAGCAGGCCGAGAACTGGATGGCTGCCCGAGAGGCCTTTCTGAACACAGAAGACAAAGGGGACTCGCTAGACAGTGTGGAGGCTCTGATCAAAAAACACGAGGACTTTGATAAAGCAATTAATGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(57.1=90.9),PF0043516=Spectrin=PU(2.9=4.5)
A:
NA
C2:
PF0043516=Spectrin=FE(45.7=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:
CTTTCCAGGCATTCGAGCAGT
R:
GCGAGTCCCCTTTGTCTTCTG
Band lengths:
249-352
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development