GgaINT0123714 @ galGal3
Intron Retention
Gene
ENSGALG00000001620 | CUTA
Description
NA
Coordinates
chr17:8984244-8984521:+
Coord C1 exon
chr17:8984244-8984289
Coord A exon
chr17:8984290-8984471
Coord C2 exon
chr17:8984472-8984521
Length
182 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
TTTCTCTTTACTCTCTGCAGTTA
3' ss Score
9.14
Exon sequences
Seq C1 exon
GTATTTCTGGAAAGGGGAACTGGAAGAATCCACTGAAATCCTGCTG
Seq A exon
GTAAGTGACAATTCCCCAGGGCACAGCAATCCCTGTCCCAGAGCCCAACCCAAATGGGGCTGTAGGGTGGCACCGACCCCAAGTATGCCGAGGGTCATGGCAGTAGAACATGGCTGGGTGCAGCAGAGCTGTGCTTTCAGGATTGTTCCCTCCCTTTACTCTTTTCTCTTTACTCTCTGCAG
Seq C2 exon
TTAGTAAAAACAAGGACGTCCAAAATAAGTGAACTGTCCAACTATGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001620:ENSGALT00000038894:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0309110=CutA1=FE(14.7=100)
A:
NA
C2:
PF0309110=CutA1=FE(15.7=100)
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:
TCTGGAAAGGGGAACTGGAAGA
R:
CTGACATAGTTGGACAGTTCACT
Band lengths:
91-273
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]