BtaINT0130864 @ 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
chr26:21680163-21680877:+
Coord C1 exon
chr26:21680163-21680629
Coord A exon
chr26:21680630-21680728
Coord C2 exon
chr26:21680729-21680877
Length
99 bp
Sequences
Splice sites
5' ss Seq
AAGGTTTGA
5' ss Score
5.13
3' ss Seq
ACAGATCCCGCTCTCCCCAGAGC
3' ss Score
7.48
Exon sequences
Seq C1 exon
AAAACAGACCTCAGTGAACCAGAACTAGCCCTGCTTTTGGGGCAGGGTGACCCCACCAGTGATCTACAACCCCTGTGTGACCCCACCATGGAATTTGTAACTGATGCCGAGAGGCAGTCTGGAATCCACCCCTCTTCTTGACCTCTTACCTGGGATTCCATGGCTGCACAATCATGTGATTCCATGTCTTCCCGATTCCAGGACCCTCCCTGGCCCCATGACCTCTGACCTTCTAAGCAACCTCCCTGGACCTTAATACCCTGTGACTATTCTTCCCATCATCCCCCAACCTCTGGCCCTGGCTCCCTTTGGGAGTCTTGTTGGTCTGGGCCTCCCCAGGAAGATGTGGGGGAGGCTCTGGCCCTTCCTCCTGAGCTTCCTCACAGCAACTGCAGTCCCTGGACCCTCACTGCGGAGACCATCCAGAGAACTAGATGCCACCCCACGGATGACCATCCCCTACGAAG
Seq A exon
GTTTGACAGCCCCAACCTCGAAAGGCAGCAGGAGCCGGGGGCTGGAGGTGGGGAGGCAGGCAGTCCCAGGGCTGGGCTCACAGATCCCGCTCTCCCCAG
Seq C2 exon
AGCTCTCTGGGACCCGGCACTTCAAGGGCCAAGCCCAGAACTACTCAACACTGCTGCTGGAGGAGGCCTCTGCAAGGCTGCTGGTGGGAGCCCGAGGTGCCCTGTTCTCTCTCAATGCGCAAGACATAGGAGATGGGACTCACAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018604:ENSBTAT00000024759:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.357 A=NA C2=0.040
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0140314=Sema=PU(8.1=70.0)
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:
AGAGAACTAGATGCCACCCCA
R:
CCCATCTCCTATGTCTTGCGC
Band lengths:
180-279
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]