BtaINT0130956 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007281 | SEMA6C
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6C [Source:HGNC Symbol;Acc:HGNC:10740]
Coordinates
chr3:19722314-19722730:+
Coord C1 exon
chr3:19722314-19722415
Coord A exon
chr3:19722416-19722639
Coord C2 exon
chr3:19722640-19722730
Length
224 bp
Sequences
Splice sites
5' ss Seq
GGGGTACAA
5' ss Score
-0.67
3' ss Seq
CCTGTTCCTTCTGCCTCCAGATA
3' ss Score
11.82
Exon sequences
Seq C1 exon
GACGAGTGCTACAACTACATTCGCGTTCTCGTGCCCTGGGACTCCCAGACGCTCCTTGCCTGTGGAACGAACTCATTCAGCCCCGTGTGCCGCAGCTATGGG
Seq A exon
GTACAAAGGCGAGGGTGGGGCATCAGGATGGGAGGAGGAGGAGAACTCAAGCTGGGCAATCAGTTTGGTGGGGATGGACAAGCAGGGGGTGGGGGATGGGAGTGCCCTGGGTGGAGGGTCCGGAAGAGGTGGGGCAAGGAGGCAAGGGGACGTGAGGAAGTGGGCTATGGAGCCAGACTTGCAACACCCCGAGGGTTCCAAGAACCTGTTCCTTCTGCCTCCAG
Seq C2 exon
ATAACTTCGCTGCAGCAGGAGGGTGAGGAGCTGAGTGGGCAAGCTCGATGCCCCTTTGATGCCACCCAGTCCAACGTGGCCGTGTTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007281:ENSBTAT00000009575:6
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=0.032
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(7.8=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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGAGTGCTACAACTACATTCGC
R:
GCCACGTTGGACTGGGTG
Band lengths:
181-405
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]