BtaINT0130809 @ 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
chr21:22040227-22041311:+
Coord C1 exon
chr21:22040227-22040306
Coord A exon
chr21:22040307-22040580
Coord C2 exon
chr21:22040581-22041311
Length
274 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
TGTGCCTCTTCTGCCTGCAGGTG
3' ss Score
13.05
Exon sequences
Seq C1 exon
GCCATGGATCCAGGACATCGAGGGGGTCAGTGCCAAGAACGCCTGCAGCCCTTCCAAGATCCGGGCGTTTGTACCAAAGG
Seq A exon
GTAAGGTCCCCACCAAAAGGTGGCGGAAAGGCAAGGGCCAAGTCTGCCTGGCAGGCTCCTCCAGCCACTGATGGGCGTAAATGCCTTTCCTCACTTGCTCATCCCTCTGGCCCTGGAAGCAGGGTCCTGGCAAGTGAGACCCACAGTCCCCAAAGTCCCCAAGCTGCCCTTATAGCCACGAGGTGCACAGCCTGGAGGGAGGTGGGTGAGTGAGCCTGGGGCGAGCGGAGACACCAGCCCCCTTGACCGGGAACTGTGCCTCTTCTGCCTGCAG
Seq C2 exon
GTGAGAAGCCCTGTGAGCAGGTTCATTTCCAGCCCCACACGGTGAACACCTTGGCCTGCCCGCTCCTGTCCAACCTGGCGACCCGGTTCTGGCTGCACAATGGGGCCCCCATCAATGCCTCGGCCTCCTTCCGCGTGCTGGCCACCGGGGACCTGCTGCTGGTGGGCAGCCAGCAGGAGCTGGGGCTGTTCCAGTGCTGGTCGCTGGAGGGAGGCATCCAGCAGCTGGAGGCCAGCTACTGCCCGAAGGTGGTGGAGGATGAGGCGGCTGGCAGTGAGGACCGGAGCATCATCATCAACACGTCTCGGGTGAGCGCACCGGCGGGCGGCAAGGCCAGCTGGCGCATGGACAAGTCGTACTGGACGGAGTTCCTGGTGATGTGTGTGCTCTTCGTGTTCGCCGTGGTGCTCCTCATCTTATTCTTCCTCTACCGGCATCGCGGCGGCATGAAGGTCTTCCTGAAGCAGGGGGAGTGTGCCAGTGTGCACCCCAAGACCCGCCCAGTGGTGCTGCCGCCTGAGACCCAGCCGCTCAACGGCGTGGGCCCCCCTAGCACCCCGCTGGACCACCAAGGCTACCAGGCCCTGTTGGACAGCTTCCAGAGGTCCCGCGTCTTCACGGAGTCAGAGAAGAGGCCACTGAGCGTCCAGGACAGCTTTGTGGAGGTGTCCCCGACATGTCCCCGGCCCCGGGTCCGCCTGGGCTCTGAGATCCGGGACTCGGTAGTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021273:ENSBTAT00000028346:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.070
Domain overlap (PFAM):
C1:
PF0143720=PSI=PD(33.9=71.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAAGATCCGGGCGTTTGTA
R:
CCTCATCCTCCACCACCTTCG
Band lengths:
292-566
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]