BtaINT0130777 @ 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
chr22:49003864-49004538:+
Coord C1 exon
chr22:49003864-49004008
Coord A exon
chr22:49004009-49004306
Coord C2 exon
chr22:49004307-49004538
Length
298 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
CCCTTTGCCATGGCCTACAGTGT
3' ss Score
5.6
Exon sequences
Seq C1 exon
TGCTGTGTTCCAGGGCTATGCCATCTGTGTGTACCACATGGCTGATATCTGGGAGGTCTTCAAGGGGCCCTTTGCCCACCAAGATGGTCCCCAGCACCAATGGGGCCCCTATGGGGGCAAGGTGCCCTTTCCACGTCCTGGCATG
Seq A exon
GTGAGTATCTACCTGGGACCAGGGCAGGGAAGAGGGCTGAGTAGATGCTGGGAGGGGCTCTAGATGCCAAGGACAGGCTTGGGTCTGCGCAAAGCCCCAGGGCAGCAGCTGGGCTGGGTGGGGTGAGGAGGGGAGCGGAGCCCTGACTACACTGAGGAGTCTCTCATACAGCACTAAGGGTCCACGAGCTGTCCCTCAGAGGCTGGTGTGAACAGCCAGTGGAGTCTAGACACAGACTGGGGGTGGGGAATGTGACAACCCAGGAGGCTTCAGGCACTCCCTTTGCCATGGCCTACAG
Seq C2 exon
TGTCCCAGTAAGATGACTGCACAGCCAGGACGACCCTTTGGCAGCACCAAGGACTACCCGGATGAGGTGCTGCAGTTTGCCCGAGCCCACCCACTCATGTTCCGGCCCGTGCGTCCCCGGCGGGGTCGCCCTGTCCTTGTCAAAACCCATCTGGCCCAGCAGCTACGTCAGATCGTGGTGGACCGTGTGGAGGCAGAGGACGGGACCTACGACGTCATCTTTCTGGGGACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046924:ENSBTAT00000065486:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.122 A=NA C2=0.154
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(10.8=100)
A:
NA
C2:
PF0140314=Sema=FE(17.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGATGGTCCCCAGCACCAAT
R:
TCCCCAGAAAGATGACGTCGT
Band lengths:
294-592
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]