GgaINT1024591 @ galGal4
Intron Retention
Gene
ENSGALG00000011945 | SCRN2
Description
secernin 2 [Source:HGNC Symbol;Acc:HGNC:30381]
Coordinates
chr27:3895545-3895962:+
Coord C1 exon
chr27:3895545-3895710
Coord A exon
chr27:3895711-3895784
Coord C2 exon
chr27:3895785-3895962
Length
74 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCCCTGCTGCTCTCCGCCAGGTC
3' ss Score
10.4
Exon sequences
Seq C1 exon
GACGCATCACAGCAGAGACGTTCATGGCCATCCTGCGGGATAAGGACAGCGGCATCTGCGTGGACTCGGAGGGTTTCCGCACAGCAGGCAGCATGGTGTCCGTGCTGCCCCAGGACCCTGCCTTGCCCTGCGTCCACTTCTTCACGGCCACCCCGGACCCCTCCAG
Seq A exon
GTGAGGATGCCGGGGGTGATGAAGATGAGACAGAGCCGTGCCCTGGGCTGAGCGTCCCTGCTGCTCTCCGCCAG
Seq C2 exon
GTCTGTCTTCAAGCCCTTCGTCTTCGTGCCTGGCCTTAAGCCTGCGCCACAGGTGAGTTCTCCCACCTTCAGCGACGACCCCGCCAAGAAGGTGCCACGCTTCCAGAGCACGGTCGATCGGAGGCACGAGCTCTACCGCCGGCACCAGGCAGCGCTGGAGCTGATGGAGAAGGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011945:ENSGALT00000019483:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.317
Domain overlap (PFAM):
C1:
PF0357710=Peptidase_C69=PD(9.8=37.5)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGACGTTCATGGCCATCCTG
R:
CACGAAGACGAAGGGCTTGAA
Band lengths:
180-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]