BtaINT0130813 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021273 | SEMA4B
Description
sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4B [Source:HGNC Symbol;Acc:HGNC:10730]
Coordinates
chr21:22033642-22034089:+
Coord C1 exon
chr21:22033642-22033753
Coord A exon
chr21:22033754-22033975
Coord C2 exon
chr21:22033976-22034089
Length
222 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
GGGAAATGTTCTCTTGGCAGATG
3' ss Score
7.36
Exon sequences
Seq C1 exon
GACGTGGAGAACTTCACGCTCGCACAGGACAAGCAGGGCAACATCCTCCTGGAAGATGGCAAGGGCCGTTGTCCTTTTGACCCTAATTTCAAGTCCACGGCCCTAGTGATTG
Seq A exon
GTGAGTGAGGGGCGGGGCAGGCAGGGGGGCCCGGGTCGTTGGTGCCGTGCTGGTTCCCAGGGGTGCGGCGACCCCAGGCGGCTTTCAGTTTGGCTCTTCTTAGTTCTTATTCCCTCCTCTGTTCTCCTCAAGCAAGAAGGGCCGCACTCAGGTCACTGTGGGCCCTGAGCGGGAAGGGGCTGTGCCCAGGGCCCATTCCCATGGGAAATGTTCTCTTGGCAG
Seq C2 exon
ATGGCGAGCTGTACACGGGAACAGTCAGCAGCTTCCAGGGGAGTGACCCGACCATCTCCAGGAGCCAAAGCCTCCGCCCCATCAAGACTGAGACCTCCCTCAACTGGCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021273:ENSBTAT00000028346:5
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=0.077
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(16.8=100)
A:
NA
C2:
PF0140314=Sema=FE(17.3=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:
GACGTGGAGAACTTCACGCTC
R:
CTTGCAGCCAGTTGAGGGAG
Band lengths:
226-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]