BtaINT0130865 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018604 | SEMA4G
Description
Bos taurus sema domain, immunoglobulin domain (Ig), transmembrane domain (TM) and short cytoplasmic domain, (semaphorin) 4G (SEMA4G), mRNA. [Source:RefSeq mRNA;Acc:NM_001101117]
Coordinates
chr26:21680729-21681207:+
Coord C1 exon
chr26:21680729-21680877
Coord A exon
chr26:21680878-21681144
Coord C2 exon
chr26:21681145-21681207
Length
267 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
TCCTTTACCACCCCCTCCAGATT
3' ss Score
7.84
Exon sequences
Seq C1 exon
AGCTCTCTGGGACCCGGCACTTCAAGGGCCAAGCCCAGAACTACTCAACACTGCTGCTGGAGGAGGCCTCTGCAAGGCTGCTGGTGGGAGCCCGAGGTGCCCTGTTCTCTCTCAATGCGCAAGACATAGGAGATGGGACTCACAAAGAG
Seq A exon
GTCAGCCCCTGGAGCCTAGACCGCCCAGAGGGTATCCAGCTTCATTCAGCATCGTAGGACCTCAACTTCCTGGAAACCCTGTCAGTCCTCTGTTAACCCCCTGGTCAGACAGCACTGCCTTTCCTGGCCCAGGTCTCCTTTACATCCAATGCTCCTTCTGACACTTTCCTCACCCTGGGGCCCTATCACCTTGTCCCACAGGTAATGGGGAGAGGCAAAGGCATTGGGTTCTATGCATCAGCCTATTTCCTTTACCACCCCCTCCAG
Seq C2 exon
ATTCGCTGGGAGGCCTCTCCAGAGATGCAAAGCAAATGTCATCAAAAAGGGAAAAACAACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018604:ENSBTAT00000024759:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.040 A=NA C2=0.762
Domain overlap (PFAM):
C1:
PF0140314=Sema=PU(8.1=70.0)
A:
NA
C2:
PF0140314=Sema=FE(4.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGACCCGGCACTTCAA
R:
TGGTTGTTTTTCCCTTTTTGATGACA
Band lengths:
204-471
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]