BtaINT0140431 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99150987-99152352:+
Coord C1 exon
chr11:99150987-99151046
Coord A exon
chr11:99151047-99152153
Coord C2 exon
chr11:99152154-99152352
Length
1107 bp
Sequences
Splice sites
5' ss Seq
ACTGTGAGT
5' ss Score
7.94
3' ss Seq
ACCCTCTTGAATTACTTCAGGTA
3' ss Score
8.16
Exon sequences
Seq C1 exon
GACGCGCGTAACTAAGGAGGCTGGCAGCGTGTCTCTGCGTATGAAACAGGTGGAAGAACT
Seq A exon
GTGAGTAGGCCGGAAGCCCTGCCGAGCACCACCCGCCGCCCCTGTCCATCCTCCCTTCCCTGCTTCTCTTGAAGGCGCTCACTGGTCAAGGAAGGCGAGGTGGCGGGAGGGCCCGTCTCTGGCAGCAGCTTTGGCTCACGAGGGAAGGGGTTCGGGTGAAGCCGTGTCAGCTGTGGCCGCTTCTCTCGTTGGTGCTTCTGTGCAGCCGTGCGTTCAGAGCCTGGTCGGTTCGCCTGCTGTTAGCTTTCTTACTGGACTAGCCACTGTCAGCAGACTGGGCGGCCGGTACCCTAGTGCTCCTCTCTTGGCAGGAAACCAAATGCCTCTTAAAGTCTCTGATTCTTGGTAACACGTTCCTGTTTTATTTCGCTTTTGGAGACTTAGATTCTATTTTAGATCTTTTTTTAACTTTCAACTCAGTTGTATTAAGTTTGCTATTTTCACATCTGCAAGGATACCAGGAGTTCAGCCTGTTGTATTTTGGTTCCCAAGGGTTCAAGTGTTGTTGGATTCTTCATAAGAAATCCTCAGCTAATGAAATGTGCTTTACGTGATTTCTCCTTCCAAAGTGGCCAAAACTTCCTGAGAAATAAGTATATTAACGTTAGAAACAGTAGGAATTCCCTACTGTTCCAGAGATACTAACACCCTGAATGAGGCTGTTGTAAAGCTCAGCGTGCCTTTCCCCACCACCTGGGGGCTGCTGGCAGAATCATACGACAGGAGAACAGGCCCTCTGCATACACCATGCCCAGCAAGTCCATCTCATCGGGCAGCTGTGGTCGCATGGAGCCTGTGTTGTGCTGAACGCTTGGTTTTGGTCATTTGTGGTTGTGGTGTTGTCAGTGCACACGCGGCCCCGGGGCTGAGTGTGCCGGGCTGTCCCCGCCACCCCATTGTGAATGGTGCAGTGTGTGCTTGTCCCAGAGGCTGTCCGTGGGTCCTCGGGGCCTGTGTCTTCACCTGCTGTCTGATACTCTGCCGCCACGGCGTCATCCTTATCAACACACAGCCTTGGACCGCCTCTCGAAGACACAGGTGGTCTGCTTCCATAGGAAGTTAACCCACCTCCCCTCCGTCCCTCGTCACCCTCTTGAATTACTTCAG
Seq C2 exon
GTACCATTCTCTGCTGGAACTGGGAGAGAAGCGTAAAGGCATGTTGGAGAAGAGCTGTAAGAAGTTCATGTTGTTCCGTGAAGCGAACGAGCTACAGCAGTGGATCAATGAGAAAGAAGCGGCCCTGACAAGTGAGGAGGTTGGCGCGGACTTGGAGCAGGTTGAAGTGCTGCAGAAGAAGTTTGACGACTTCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.238 A=NA C2=0.030
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043516=Spectrin=PU(54.1=68.7)
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:
GACGCGCGTAACTAAGGAGG
R:
TCGTCAAACTTCTTCTGCAGCA
Band lengths:
249-1356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development