BtaINT0130918 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020489 | SEMA6A
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6A [Source:HGNC Symbol;Acc:HGNC:10738]
Coordinates
chr7:38739733-38740827:+
Coord C1 exon
chr7:38739733-38739793
Coord A exon
chr7:38739794-38740764
Coord C2 exon
chr7:38740765-38740827
Length
971 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTCTTTCTTGATCCCTGCAGAAA
3' ss Score
9.54
Exon sequences
Seq C1 exon
GGACCATATTTATACTGTTGATATAGACACCTCACACACAGAAGAAATTTATTGTAGCAAA
Seq A exon
GTAAGTAGTTTTAAAACATTCTTTCAGAAATGAAGATCTTAGGATGGGTCTTGGAGAGAATATGTATTGTAAATGCATTGATTGAGATGACATGGCTTAGAATAATTGGGAACATTTTATGAAATTCTAATTTGGGGATGAGTTACGGCTTAATATGAAATGGTTGTGTACTTCATATTTTATTCATCAATTACATGCACATAAACACACTGGAATTTTAGGTAATTCCTAAATTCTTTGGATAAAATATTGGATGTTTGTCCAGGAAAAGATCAGTTTCCATACGTAAACTTTTGTCCCACAAGTGTTTCACTGTTTCCATATCTTGCAATATTACGTTTGACTCAACTGTTGTGGTTCAGGAATTTGATCATTATCCATTTCAGGCAGATATAAAATATAACCTATGCTTTCTTATAACTCCACATGGAGGTATTTTAAGTTAATAAAGTCTGCCCCAGAGGTAGATGATCCCTTCAACACATGAATTTATGTGAAGGAGTATAACCTGAATTAAATCTTTGTCCACCTAAAGTGAATGTCCCCTTTATGTTTAAGAAAATGACTTCCATATTTTAAGGAAAAGGCCTGCTTTATGGAAACTGATTTATCAAGTGAAAGGAAAGGGCAAGGACATGTATTTTATCAAAATGAGCATAATTTAGCAAGTTAATGTGGATATTTTATGTGAAATTTCCACACTGTTGTTTATTCTTCTTTCCTTTCTCCTTCATCTTTTTCTCAAAGAGAAGATCGTTTTGTAGTCTAATGAATAGATAGGGGTTCAAAATTAAATGAACATTTCCATTTCTAATCTTTTGTTGTTATGGTGAATTAATCATGGAGAAAGGGTGTGGAAAGCTTTTAATAAATATATGTTTAGCTTCTAGTCTCCCCCAGGGAACTCTTATTTCTAAAATCAAATGCAACAACCTCTGGGCTCTAATTGATTTCTTTCTTGATCCCTGCAG
Seq C2 exon
AAACTGACATGGAAATCTAGACAGGCTGATGTAGACACATGCAGAATGAAGGGAAAACATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020489:ENSBTAT00000043906:3
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=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(4.6=100)
A:
NA
C2:
PF0140314=Sema=FE(4.6=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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]