BtaINT0130708 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010138 | SEMA3B
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3B [Source:HGNC Symbol;Acc:HGNC:10724]
Coordinates
chr22:50658374-50658658:-
Coord C1 exon
chr22:50658547-50658658
Coord A exon
chr22:50658444-50658546
Coord C2 exon
chr22:50658374-50658443
Length
103 bp
Sequences
Splice sites
5' ss Seq
TCCGTAAGC
5' ss Score
5.75
3' ss Seq
ATGTGGTCCCTTCCCTACAGAGG
3' ss Score
9.37
Exon sequences
Seq C1 exon
AACGACGTGGGTGGCCAGCGCAGCCTGGTCAACAAGTGGACAACGTTCCTGAAGGCGCGGCTGGTGTGCTCGGTGCCCGGTGCCGAGGGCGATACGAACTTTGACCAGCTCC
Seq A exon
GTAAGCGGCAGGAGTGGAGGGTGGGGTGTGGGCAGTGAACACAGGGGCACAGACCCTGGAGCCTGGCTCTGCACCCTCCCCCAATGTGGTCCCTTCCCTACAG
Seq C2 exon
AGGACGTGTTCCTGTTGTCCTCGAGAGATCGCTGGACCCCACTGCTCTATGCTGTCTTCTCCACATCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010138:ENSBTAT00000013382:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.036 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(8.4=100)
A:
NA
C2:
PF0140314=Sema=FE(5.2=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:
AACGACGTGGGTGGCCAG
R:
CTGGATGTGGAGAAGACAGCA
Band lengths:
182-285
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]