BtaINT0130781 @ 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
chr22:49006095-49006724:+
Coord C1 exon
chr22:49006095-49006323
Coord A exon
chr22:49006324-49006584
Coord C2 exon
chr22:49006585-49006724
Length
261 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGC
5' ss Score
7.75
3' ss Seq
CACTTCCAAATCTTCCCCAGAGG
3' ss Score
6.48
Exon sequences
Seq C1 exon
CAAATGCTGTACGTGGGCTCAAGGCTGGGCGTGGCCCGGTTGCAGCTGCACCAGTGCGAGACGTATGGCAGTGCCTGTGCGGAGTGCTGCCTGGCTCGGGACCCCTACTGCGCCTGGGACGGTGCCTCCTGCACCCGCTACCGGCCCGGCTCCAACAAGCGGCGGTTCCGCCGCCAGGACATCCGGCATGGCAACCCTGCCCTGCAGTGCCTGGGGCAGAGCCAGGAGG
Seq A exon
GTGAGCGGCGGAGGGCACGGGTTGCCCCTGTGGAGGGTGGCCTCAGGCTGCTCCTGTGGTCACAGGCAGCCCTCAGTTTCTGTGTGTGTGTAGCTCCTGTCAGCTATGGGTGCAGTGTCTTTGGGTAGAGAGAAGGGCTTAGGGATCAGCAGATGCCTAGTCCCTGTCACATTCATGGGGGGTCCTGGGCTGTGGGAGTCAGTTGGTGGTCCTGGGGGCCTTACAGTTCCTGAGCTGAGCCCACTTCCAAATCTTCCCCAG
Seq C2 exon
AGGAGACTGCAGGACTCGTGGCGACCACCACTGTCTACGGCACGGAGCACAACAGCACCTTCCTAGAGTGTCTGCCCAAGTCCCCACAGGCTGCCGCGCATTGGTTCTTGCAGAGGCCCGGGGACGAGAGGCCTGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046924:ENSBTAT00000065486:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.078 A=NA C2=0.340
Domain overlap (PFAM):
C1:
PF0143720=PSI=PU(95.2=76.6)
A:
NA
C2:
PF0143720=PSI=PD(3.2=4.3),PF0004720=ig=PU(48.4=63.8)
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:
AATGCTGTACGTGGGCTCAAG
R:
GGGCAGACACTCTAGGAAGGT
Band lengths:
304-565
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]