GgaINT0006816 @ galGal3
Intron Retention
Gene
ENSGALG00000005577 | SEZ6L
Description
NA
Coordinates
chr15:7343025-7343880:+
Coord C1 exon
chr15:7343025-7343484
Coord A exon
chr15:7343485-7343746
Coord C2 exon
chr15:7343747-7343880
Length
262 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
CACTGATGTGCATCCCCCAGTGC
3' ss Score
5.16
Exon sequences
Seq C1 exon
GCTGACACCAGGCAGACTTTCCCTGCTAAGAAAAAGCCACCTGCCCTAAAGCACAGCAACACAGCGAGGAAGCAGCTGAAGGCCAAGCCCACACTGCCAGGGCTCTCCAGGGCTGTGAGCACACAGGGCTCCGTGCTCCCCGTGTCCTCCCAAGAGCCATCCATGCCAACGGAGACAGCGGATGGGCAGCGGCAGAGCCCCCCTGAGCTGCCCGGATGGGGTCCCACCAGCCGCCCTCTGCTGCAGATCTCCCCTTTCACCCCAGTGCCATCAACTGCTCAGCCCTTCCCTGGTGGCCCTGGTGACGTGGGCACGGGTCCCACAGCAGCTCCCAGTGGTGCCATTAACCAGATGGACAGCGCTGAAAGTGAGATGAACGGCTCTGCCTCGGAGGAGAGCCAAGAAACCACCACCTCCACCATCATCACCACCACTGTCATCACCACGGAGCCCACCCCGG
Seq A exon
GTAAGGGAACATGGGGACAGGGTGCCACCAGGGAGTGGGATATGGGGTGGGGATATGGCAGCGGTGGGGTGCAGCTCTGCCTTCTGGAGCTGCCAAAATCCTTAGTGATTGCGGTGAGGGGTGCTCGAGGAGGGTGTCACCACCCCAGGGACCTCTGGTGAGGAGGGTCGCTCCCTTAGCCACAGTTTTCCACCCCAAACTGGAAGTGTGCTGCTGGGGGGGTGAGCTGTGCCCTGGGCAGCCACTGATGTGCATCCCCCAG
Seq C2 exon
TGCGCTGCAGTGTGAGCTTCTACGACCCCGAGGGCTACATTGACTCCACGGATTACCCCCCGCTGCCCCGGCACAGCTTCTTGGAGTGCACCTACAACGTCACTGTTTACACGGGCTATGGCGTGGAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005577:ENSGALT00000008952:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.955 A=NA C2=0.089
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043115=CUB=PU(39.6=93.3)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CATCAACTGCTCAGCCCTTCC
R:
ACAGTGACGTTGTAGGTGCAC
Band lengths:
298-560
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]