BtaINT0140466 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99178529-99179460:+
Coord C1 exon
chr11:99178529-99178676
Coord A exon
chr11:99178677-99178982
Coord C2 exon
chr11:99178983-99179460
Length
306 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
ACGTGCACCTTTCCCTCCAGAAC
3' ss Score
9.52
Exon sequences
Seq C1 exon
GGACGGCCACGTCTCCCTGCAAGAGTACATGGCCTTTATGATCAGCCGTGAGACCGAGAACGTCAAGTCCAGCGAGGAGATTGAGAGCGCCTTCCGGGCCCTGAGCTCTGAAGGGAAGCCTTATGTGACCAAGGAGGAGCTGTACCAG
Seq A exon
GTCTGGAGCTGCTTCTGGGGCCAGGGGGTGGGTGTGTCCTTTGAAAGGCAAAAGCCCAGGCAAGGCTGGCCCTGAGCTTGGGGGCAGAGCTGTCTAGAGTCGCAGCCCCCACCCAGTCTTGAGCCTCAGCTGCTTTGTGCAGACCCTCTTACCCATTTTCAAGTGAAACTCAGCCCAGGCCAAAGGCTGTTAATGGCAGAGATCCAGAAGCTCGGGCACGAATGTTTCTGAAGTCGGGCCCACTGCCCCCACAGCACAGTTGGTGTGGCTGGTCGGGGCTCGGCTGACGTGCACCTTTCCCTCCAG
Seq C2 exon
AACCTGACTCGGGAACAAGCCGACTACTGCGTCTCCCACATGAAGCCCTACGTGGACGGCAAGGGCCGCGAACTCCCCACTGCTTTTGACTACGTCGAGTTCACCCGCTCGCTCTTCGTGAACTGATCCTCTGCTCCTAGGTTAGCCTGGCCCACGCTGCTTGCCCTACCGTCGCCTTGCTGCATGTCAACTCCTCTCTGTGCTCTTAAGAAAAATACTCCAGACAGTGTTGCTTTCCAGTGTAACCTTAACTTGCTTAGCTTGGTTTAAGATTTAGTAGAAAACGGTGCTTCAGTAACCGGCTTTAGGTCCAGTCGCCATTGCCACGTTGCTGCGGGGACCCAATTTCTGTCTCAAGGCCGGCTGCCCCATTCCGACTACAGAAAAATCTGAGCAGCCAGCTAGTTCTCCTCTTGTTCACCCTCCCTCAATTTTGTTTTCATGTAAAAGACAAATAAATGACTTGACTCCCCCAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:54
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(17.3=26.0),PF087265=EFhand_Ca_insen=PU(41.4=58.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(55.7=92.9)
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:
ATGTGACCAAGGAGGAGCTGT
R:
GCAATGGCGACTGGACCTAAA
Band lengths:
350-656
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development