GgaINT0144574 @ galGal3
Intron Retention
Gene
ENSGALG00000001171 | SEMA6B
Description
NA
Coordinates
chr28:2059979-2061056:-
Coord C1 exon
chr28:2060907-2061056
Coord A exon
chr28:2060169-2060906
Coord C2 exon
chr28:2059979-2060168
Length
738 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
GCTCTGCTCACGCTATGCAGGTA
3' ss Score
6.53
Exon sequences
Seq C1 exon
ACCCGGGTGCTGTGCGGCCCCGGGGATGCGCTACAACTCCTCCAGCACCTTCCCCGATGAGATCCTCACCTTTGTGAAGACTCACCCACTGATGGATGAAGCGGTGCCATCCCTGGGCAACGCGCCCTGGATTGTCCGCACAATGAGCCG
Seq A exon
GTGAGTGTGGGGGAAGGATGGGACCTGGAGAGGCTGCAGAGGGGCCCCCAGCAAAAAGCAGTGCAGGAGAGTGGCTGCTTTTGGGGTGCACGTGTGTTTGTGCATGCACAACCGCTCACAGCTGTGCCCATCCATGTGCATGGCTTGCGCTGCTGTGCCTCAGCACGTTGCTGCCTCCAGCACTGCCCCTGCATGGGAGAGCGCCGTGAGACCTGATAAATGTCATAAACTTTGCAGCTGAGATTGTCTCATCCTAATTAAATCTGCCTTAATTGCTGTTTGATGGGGAATTAATCAAGCTGCGTGCTCGGGCCACGGCCTCCAGCCAGCAGGACATCATGCAGGGCTGCAGACGGGGCTGTGGGGACAGGGAGGTGGGGAGGGGGACAGGCGTATGGAGCACGGGCTGGGGATCAGCTGGGGTTCCACAGGGGGTCAGGGGGACCAGGGCTGGATCCCAAATAGGGTCAGGGCTGGGGACTACTAGCTGCGACCAGAAGGGAATCCAGGCAGGATCTTAAGTGGGCTCTGGAATGGGTTTGGCTGCATCATGGTTGGGATCCAGGCCAAGTCTGCCTGGGATCTGGACTGGTTTCCATGTGGAATCTTCTGCTTTCCCCCGCATTCTGTGGTGGTCTATGCCCTGGGGTCCAGCTCCCGCCCTGCCTCTGTTTCTCCTCCTGAGGACAACATGGGTTCCTGCTGGCCCCAACACCCTGCTCTGCTCACGCTATGCAG
Seq C2 exon
GTACCAGCTCCGCAAGATTGTGGTAGACAACGCGGCAGGACCATGGGGCAACCACACCGTGGTCTTCCTGGGCTCCAGCACAGGCACCATCCTCAAGTTCCTCATCCATCCCAATGCCACCAGCAGCCCCGCACCTGCACCCCCCGGCAGCCAGAGTGTCTTCCTGGAGGAGTTTGAGACCTACCAGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001171:ENSGALT00000001774:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.156
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(11.9=100)
A:
NA
C2:
PF0140314=Sema=PD(14.7=96.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGATGCGCTACAACTCCTC
R:
GGCTGGTAGGTCTCAAACTCC
Band lengths:
318-1056
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]