BtaINT0130867 @ 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
chr26:21684083-21684396:+
Coord C1 exon
chr26:21684083-21684181
Coord A exon
chr26:21684182-21684302
Coord C2 exon
chr26:21684303-21684396
Length
121 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
TTGGGCCCTTCCTCCCCCAGGAT
3' ss Score
11.35
Exon sequences
Seq C1 exon
ACCGAGTGCTTCAACCATGTGCGATTCCTGCAGCGGCTCAATGCCACCCACCTCTACACATGTGGGACTCATGCCTTCCAGCCTCTCTGTGCAGCCATT
Seq A exon
GTGAGTGTGTTTGCCCCTGCCCTGACTGCCGCCCCTGCTCCCTGACCCTGGACCCGTCTGACCTTCGGCGACAACCCCTGTTGTCCTCAGGATCACTGACTTTGGGCCCTTCCTCCCCCAG
Seq C2 exon
GATGCTGAGGCCTTCACCTTGCCAACCAGCTTCGAGGAGGGGAAAGAGAAGTGTCCTTACGACCCAGCCCGCGGCTTCACTGGCCTCATCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018604:ENSBTAT00000024759:5
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=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(7.4=100)
A:
NA
C2:
PF0140314=Sema=FE(7.1=100)
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:
AGTGCTTCAACCATGTGCGAT
R:
CAATGATGAGGCCAGTGAAGC
Band lengths:
189-310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]