GgaINT0001429 @ galGal3
Intron Retention
Gene
ENSGALG00000011945 | SCRN2
Description
NA
Coordinates
chrUn_random:36688012-36688433:-
Coord C1 exon
chrUn_random:36688264-36688433
Coord A exon
chrUn_random:36688190-36688263
Coord C2 exon
chrUn_random:36688012-36688189
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
GCAGGACGCATCACAGCAGAGACGTTCATGGCCATCCTGCGGGATAAGGACAGCGGCATCTGCGTGGACTCGGAGGGTTTCCGCACAGCAGGCAGCATGGTGTCCGTGCTGCCCCAGGACCCTGCCTTGCCCTGCGTCCACTTCTTCACGGCCACCCCGGACCCCTCCAG
Seq A exon
GTGAGGATGCCGGGGGTGATGAAGATGAGACAGAGCCGTGCCCTGGGCTGAGCGTCCCTGCTGCTCTCCGCCAG
Seq C2 exon
GTCTGTCTTCAAGCCCTTCGTCTTCGTGCCTGGCCTTAAGCCTGCGCCACAGGTGAGTTCTCCCACCTTCAGCGACGACCCCGCCAAGAAGGTGCCACGCTTCCAGAGCACGGTCGATCGGAGGCACGAGCTCTACCGCCGGCACCAGGCAGCGCTGGAGCTGATGGAGAAGGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011945:ENSGALT00000019483:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.317
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF123253=TMF_TATA_bd=PU(58.1=60.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
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]