BtaINT0130870 @ 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
chr26:21684860-21685283:+
Coord C1 exon
chr26:21684860-21685029
Coord A exon
chr26:21685030-21685113
Coord C2 exon
chr26:21685114-21685283
Length
84 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
CCTGCCCCCTGCCCCCCCAGGGA
3' ss Score
11.51
Exon sequences
Seq C1 exon
ATGCTGAGTTTGTGTTCTCCGTCCTGGTGCGGGAGAGCCAGGCCAGTGCCGTGGGTGACGACGACAAAGTTTACTACTTCTTCACGGAGCGTGCTGCTGAGGAGGGTGCAGGCAGCTTTGCTCAGAGCCGCAGCAGTCACCGCGTGGCCCGTGTGGCCCGGGTGTGCAAG
Seq A exon
GTGAGGAGGACTGAGGTCAGGGCAAGGGTGTAGAGGCTGAATCTCTGACCCTGGCCACTGACCCCCTGCCCCCTGCCCCCCCAG
Seq C2 exon
GGAGACCTGGGAGGGAAGAAGATCCTGCAGAAGAAGTGGACCTCCTTCTTGAAGGCACGCCTCATCTGCCACATCCCACAGTATGAGATGCTGCGCAGTGTCTGCAGCCTGCAAGCTGACACCTCAGCACACACACACTTCTATGCGGCCTTCACGCTGACCACACAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018604:ENSBTAT00000024759:8
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(12.9=100)
A:
NA
C2:
PF0140314=Sema=FE(12.9=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:
TTTGTGTTCTCCGTCCTGGTG
R:
CTTCTTCCCTCCCAGGTCTCC
Band lengths:
183-267
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]