BtaINT0140421 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99144133-99144711:+
Coord C1 exon
chr11:99144133-99144288
Coord A exon
chr11:99144289-99144506
Coord C2 exon
chr11:99144507-99144711
Length
218 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGA
5' ss Score
6.91
3' ss Seq
GAGAACCTCTTTCTTGGCAGGAC
3' ss Score
6.98
Exon sequences
Seq C1 exon
CTGCTGAGCCGTCGCAATGCCCTGCATGAGAGAGCCATGTACCGCCGTGCCCAGCTTGCAGATTCCTTCCACTTGCAGCAGTTTTTCCGTGACTCTGATGAGCTCAAGAGTTGGGTCAACGAGAAGATGAAAACAGCCACGGATGAAGCTTATAAA
Seq A exon
GTAAGATCCTGTCGGCAGTGTCATGTAGCCCTTGGTCTGTAAGCCAGACACCATGCTTACAAATAGATGTAGCTAAAGAAAAAGAGATTGGAAGTTTCAAAAACACACTACTAAATGTAAGCTGGCGGTTTCATACGTCCCCTATGAAGATAACGTGCGAGTGCAGTGCAGCGTAACTTGCTGTCCTGTGGTTCGAGAGAGAACCTCTTTCTTGGCAG
Seq C2 exon
GACCCATCCAACCTACAAGGGAAAGTGCAGAAGCACCAGGCCTTTGAGGCCGAGCTCTCGGCAAACCAGAGCCGCATCGACGCCCTGGAGAAAGCCGGGCAGAAGCTGATCGATGTCGACCACTATGCCAAGGACGAGGTGGCGGCTCGGATGAATGAGGTCATCAGTCTGTGGAAGAAGCTGCTGGAGGCCACAGAGCTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.115 A=NA C2=0.159
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(19.0=38.5),PF0043516=Spectrin=PU(27.9=55.8)
A:
NA
C2:
PF0043516=Spectrin=FE(65.4=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:
CCCAGCTTGCAGATTCCTTCC
R:
CTCCAGCAGCTTCTTCCACAG
Band lengths:
296-514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development