BtaINT0140455 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99171729-99172579:+
Coord C1 exon
chr11:99171729-99171888
Coord A exon
chr11:99171889-99172502
Coord C2 exon
chr11:99172503-99172579
Length
614 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGC
5' ss Score
9.86
3' ss Seq
ACTCTTGCTTGGTTTTCCAGGTG
3' ss Score
10.13
Exon sequences
Seq C1 exon
AACAATCACCATGAGGAGAACATCTCTTCCAAGATGAAGGGCTTGAACGGGAAAGTGTCAGACTTGGAGAAGGCTGCCTCCCAGAGGAAGGCCAAGCTCGACGAGAACTCGGCCTTCCTCCAGTTCAACTGGAAAGCCGATGTGGTGGAGTCCTGGATCG
Seq A exon
GTAAGCGTAGCCTCGGTGCTGCTGGAATCTCGTTCCCTCCTGAGCAAATGATCTTCTTCTGTGGAGAGGAAACCGGCGGGATGTGGGCATACCAGAGACCCTCTCCCCTGGGAAGACCACTAGTAACAGCAGGAGACAGGGTCCTGAGGCAGAGAGCCGGGCCTCAGCGATGCCCCGGGCCAGTGTGGGGGTTAACAAAACGAAGGTCCTGAGCGTCACAGCACAAGGGCCACACCAGCAGGACCAGCCTGCATCAGCACTGCCCCCTGAGCTACACGGGTCCAGAGTGTTTGTGGTCCACCCCCCTGGCAAAGGGACCTGCGCTGATTTCAGGACCCACGTGACCCTGGTAATTGCTGTCTCATAAGTAGCAACTGAACCACATCCAGCACAGGCTGGAAGAGGGACCTCTTCATCAGGGACGTAGAGGAGGGGCCTGGATGCGGGAAGGAGCCAGCTCAGGTGTGTTCAGAGACTGCTGTCAGGAGTACTGGAATTTAAATGTAAGCAAGACAGTAGATGCCTGGGTGTTCTTGTCTTTTGGTTTGTTGTTGTTTTTAATTTATTTCTTAAATTGAGACAGGGTGGTTGATTACTCTTGCTTGGTTTTCCAG
Seq C2 exon
GTGAAAAGGAGAACAGCTTGAAGACAGATGATTATGGTCGAGATCTGTCTTCTGTCCAAACTCTCCTCACCAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:44
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.315 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(32.4=63.0),PF0043516=Spectrin=PU(16.0=31.5)
A:
NA
C2:
PF0043516=Spectrin=FE(23.6=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:
ACAATCACCATGAGGAGAACATCT
R:
TGGTGAGGAGAGTTTGGACAGA
Band lengths:
231-845
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development