BtaINT0130789 @ 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
chr22:49002966-49003427:+
Coord C1 exon
chr22:49002966-49003111
Coord A exon
chr22:49003112-49003312
Coord C2 exon
chr22:49003313-49003427
Length
201 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGA
5' ss Score
5.46
3' ss Seq
GACCGGCCCCCACCCCCCAGAAT
3' ss Score
7.59
Exon sequences
Seq C1 exon
ACCCCAGGTTTGTGCTGGCCGCCCGGATCCCTGACAATTCTGACCCGGACGACGACAAGGTGTACTTCTTCTTCTCGGAGACAGTCCCCTCGCCTGACGGAGGCCCGGGCCGTGTCACCATCAGCCGAGTGGGCCGCGTCTGTGTG
Seq A exon
GTGAGAGCTGTGGAAGGGACAGTGAGGTTGGAATCCTGGCCATACACGTCTTCCCAGCCCTGTCCCCACCTGAAACTGTAGGCAAACTGAAGCAAGGGTGTGGAGCTGACATCCATGCCTCCCTCCAAGGGTGAGGGTGGAGGAGCAGGAAAGGGGGGGCCTGTCCTCGGGCCCCAAGGCTGACCGGCCCCCACCCCCCAG
Seq C2 exon
AATGATGCGGGCGGCCAGCGGGTGCTGGTGAACAAATGGAGCACCTTCCTCAAGGCCAGGCTGCTCTGCTCCGTGCCTGGCCCTGGCAGTGCCGAGACCCACTTCGACCAGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046924:ENSBTAT00000065486:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(10.8=100)
A:
NA
C2:
PF0140314=Sema=FE(8.5=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:
ACCCCAGGTTTGTGCTGG
R:
CAGCTGGTCGAAGTGGGTCTC
Band lengths:
260-461
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]