BtaINT0140420 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015327 | SPTAN1
Description
spectrin, alpha, non-erythrocytic 1 [Source:HGNC Symbol;Acc:HGNC:11273]
Coordinates
chr11:99143947-99144288:+
Coord C1 exon
chr11:99143947-99144024
Coord A exon
chr11:99144025-99144132
Coord C2 exon
chr11:99144133-99144288
Length
108 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
CAGGGGGCCTTGCCTTCCAGCTG
3' ss Score
5.94
Exon sequences
Seq C1 exon
GCCTTAGATGAGTTTGCCACCAAGCTGATTCAGAACAACCACTACGCAATGGAAGATGTGGCCACCCGGCGAGACGCA
Seq A exon
GTGAGTGCACAACTTCCTCACTAGCCTCCTTTCCATCCATGGGTGTCCCTCCCAAGGCAGGTCAGTTAGGGGTGAGAGTGGAGACTCACAGGGGGCCTTGCCTTCCAG
Seq C2 exon
CTGCTGAGCCGTCGCAATGCCCTGCATGAGAGAGCCATGTACCGCCGTGCCCAGCTTGCAGATTCCTTCCACTTGCAGCAGTTTTTCCGTGACTCTGATGAGCTCAAGAGTTGGGTCAACGAGAAGATGAAAACAGCCACGGATGAAGCTTATAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015327:ENSBTAT00000020395:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.115
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=FE(23.8=100)
A:
NA
C2:
PF0043516=Spectrin=PD(19.0=38.5),PF0043516=Spectrin=PU(27.9=55.8)
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:
GCCTTAGATGAGTTTGCCACCA
R:
TTTATAAGCTTCATCCGTGGCTGT
Band lengths:
234-342
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development