GgaINT0048539 @ galGal3
Intron Retention
Gene
ENSGALG00000012574 | WSDU1_CHICK
Description
NA
Coordinates
chr7:38172732-38173728:-
Coord C1 exon
chr7:38173622-38173728
Coord A exon
chr7:38172915-38173621
Coord C2 exon
chr7:38172732-38172914
Length
707 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
TTTATCTTTCCTTTCCCAAGGAA
3' ss Score
9.23
Exon sequences
Seq C1 exon
ATATGTCACAACTTGTGCCTTTGCTCCATGTAGTCTCTTCCTTGCCACGGGTTCAATGGATAAAACTGTGCACATATGGAAACTGGACAATAAGCAACCCTGTGCAG
Seq A exon
GTCAGCGTTTGAAGTATTTTTAGCCTATTCTTTGTGCAACAAGTAATTCTCTATTTAAAAACAACAACAACAACAACAAACAACTTGGATATTAGAAGAACATTAATTTCATTCATTTCATGTTTTCCATTTCTTACTTTATGTGTAGCATTTAAGATGTGAGTGTTAATTCCCAGAGCACTGAAAGACTTTTCGAAGATGTATATTTGGCAGTAATTTAAAGAGAAAATATGCTAATTGAAAGCCTAATTGTCAACAGGAAATATAACTTGCCAGTTGCTATAGAAGTAAAAACATAAAGTTACAAAATGCGGGAGTACCTGAAGTATGTGGAGTAAAAATAAATGGATCTTTGCTCAAAGCACAAGAATTAAGTCTGGAATTTGGTCTGCTTTTATAAGGAGATATGGTACTTGGTTTTACTGTCTGCTGACACTTTTCTGTCTCTTGTTGAATTCTGACAGATGTCAGCACCTGAGAGATTAAATTCCTCTAAACTGTGAAAATCAGTCAATAAAGACAAACCCAAATGAGTGTCCCCTATGAAGGAATGTTTAATGAGTATTGCTTTTATCAGATGTTAGGGAATGTGGAATAGTGAGAGCATTTGGAAAATGCTCGTTACTTCCATACTTCTTACTGGTTGGGTTTGTTTTTCTTGTTTTTCATTGTTTTGTTTACTTTACTTTTATCTTTCCTTTCCCAAG
Seq C2 exon
GAAACACTATAGAAAATGACTCTAAGATTAGAACTGCTGAGAACTGGTCAGAGGATGATGTTTCAGCCTGGCTTTGTGCACAAGGCTTCGCAGAACTTGTTGGGCTTTTCAAAGCAAATAACATCGATGGCAAAGAACTCGTGAATCTTACAAGAGAAAGCCTGATTCATGAATTAAAAATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012574:ENSGALT00000020533:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.004
Domain overlap (PFAM):
C1:
PF0040027=WD40=PD(69.2=73.0)
A:
NA
C2:
PF0053625=SAM_1=WD(100=75.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAACTTGTGCCTTTGCTCCA
R:
TTTAATTCATGAATCAGGCTTTCTCT
Band lengths:
278-985
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]