BtaINT0130786 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046924 | SEMA3G
Description
sema domain, immunoglobulin domain (Ig), short basic domain, secreted, (semaphorin) 3G [Source:HGNC Symbol;Acc:HGNC:30400]
Coordinates
chr22:49002030-49002502:+
Coord C1 exon
chr22:49002030-49002149
Coord A exon
chr22:49002150-49002411
Coord C2 exon
chr22:49002412-49002502
Length
262 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
GTCTCCCTCCCTCTCCCCAGCAT
3' ss Score
9.56
Exon sequences
Seq C1 exon
GTGGAGTGCGCCAACTTTGTGCGGGTGCTGCACCCCCACAACCGGACCCACCTGCTGGCGTGTGGCACTGGCGCCTTCCAGCCCACCTGTGCCCTCCTTGCTGTTGGGCATCGTGGAGAG
Seq A exon
GTGAGCTGCCGCGGCCCCACAAAGGGCTGGGAAGCTGTGACATTTCCTCCTACTGTCTGAATTCTACCCATTGAGCCTGGGTCGGGGCAGAGGGGTCAGAGCCTGAAAGGCGCCTTTGTGCCAGGGAGCCGCCCCTACTGGCAAGGTCCTGAATGAGGGCGCCTTCCACCCACCCCACTGTCTAGCCGCACGCAATGGCCACTGCCCGGGTAGGGGGCTGGCACTGCTTTCCCAGGTAACTCGTCTCCCTCCCTCTCCCCAG
Seq C2 exon
CATGTGCTCCATCTGGAGCCCCGAAGCATGGAAAGTGGGAGGGGGAGATGCCCACACGAGCCCAGTCGTCCCTTCGCCAGCACCTTTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046924:ENSBTAT00000065486:4
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=0.645
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(8.7=100)
A:
NA
C2:
PF0140314=Sema=FE(6.7=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:
TGGAGTGCGCCAACTTTGTG
R:
CTACAAAGGTGCTGGCGAAGG
Band lengths:
210-472
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]