GgaINT0029101 @ galGal3
Intron Retention
Gene
ENSGALG00000004844 | SEMA6D
Description
NA
Coordinates
chr10:11371849-11372856:+
Coord C1 exon
chr10:11371849-11371926
Coord A exon
chr10:11371927-11372788
Coord C2 exon
chr10:11372789-11372856
Length
862 bp
Sequences
Splice sites
5' ss Seq
GCCGTAAGT
5' ss Score
10.11
3' ss Seq
TCTTTGTTTGTTTCATACAACCA
3' ss Score
-0.75
Exon sequences
Seq C1 exon
GGCATGTATTGCTTCTCGGGATCCATACTGTGGCTGGTTAGACCACGAGGAGTGTGGGAGAGTGACGCCAGGCATGCC
Seq A exon
GTAAGTACTACTTTTCAAATTAGGCCAACATCTCTACTATGTATTTATAGACTACACGGGGCTGTATCCTGTGCCTGTTCCCTTGCACTTTATTAATAAATCTCCATTTTTCCTAGAGCTGTTTTTCCTAGGTACTGTACATGTAAAGAGAACAGAATGCTTAAGTCTGACCTAATTAAGCAATCTTTAGGTAAAGACTTCTTTTCAGTGAGAGTTTTACGTGTGTGTGTGTATGTGTGTGTGAGGACAAGCAGACTTGTGGGATGAGGTGTTGGAAGCAGGAAGTCAACAAATGACTGCCTGTAAACCAGTGCAGTTTCAGACAAGGCAGTACACACCATCTCCTCCCAGGCATGCTTACAGTCAATTGCAAATAGGAAAACGCAGGTTTCAGACTTGGAAAAAAAGTAAGATTTTGCCTCCACACTGAAGCTAGGGTGATATATACACATATCAAAGGCTTTTTGTACAAATCAAGTCAGTAATATAGAGTGCATTAGCAGCTGTATCTTAAAAGGAAGCCTTTGTAGCAGGGCAGCAAACTTCAGCCAGTATAATTGCATAGTTGTACCCAAAACCAAGAGTACGCCCAACGTAGAAGATCCACTGAGGTTGCTATGAAGAAAATATAATCTTTTCAGTTTCCTGACATAAGCATGTATATATACAGTGTTAAAGCCTAGATATAATTAACTTGTATGTTTTGTAAAACATGGTTTTTGGTCATACACTATAGCTCTTGCCTCTCTAAGGTGACAGAACAAGTATGATTCAATTTCTTGCTTCCAGGAAAAAAAAAAATCACCATTTGTTTCCCTATTAATACTGTTAATTGCAGGTTCTCTTTGTTTGTTTCATACAA
Seq C2 exon
CCACAGCACTGGAGGATATGTACAAGATGTAGAATATGGCAACACAGCGCAGCTTGGGGACTGCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004844:ENSGALT00000007734:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.111 A=NA C2=0.250
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(42.6=100)
A:
NA
C2:
PF0143720=PSI=FE(37.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]