GgaINT0045279 @ galGal3
Intron Retention
Description
NA
Coordinates
chr7:6874027-6874388:+
Coord C1 exon
chr7:6874027-6874122
Coord A exon
chr7:6874123-6874320
Coord C2 exon
chr7:6874321-6874388
Length
198 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CATTGCTATCCTGCCTATAGGTG
3' ss Score
9.5
Exon sequences
Seq C1 exon
ACTCCAGGAGAAATGAGGAGTCCTTCCCCGAGGTTGTGTATGAGGAGATCAGATGCAGCTATGCATGGGAGAAGCAGACAATGTTTGTTCACTCAG
Seq A exon
GTGAGTGCAGGCCCTTTGAGGGTACATCTGCATGGACCTTTCCCTTGCCCCTGGCCCAGGGCTGGCCCCAGCTGCCCCTGCCAACACCAGTCTTCCAGCCCCACCACCTGCACATTCCCCATCTTGCACATCGTGGGATGTTACTTCTCACTGTCACCAGATCCCTTCTCCTTCCAGACATTGCTATCCTGCCTATAG
Seq C2 exon
GTGATCCAGAAGATGGCTATGATGATGCTAAGGAGGTTTCTGAACCTGAGAATGATCCTGTCTCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002213:ENSGALT00000003467:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF118373=DUF3357=PD(29.4=60.6)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
TCCAGGAGAAATGAGGAGTCCT
R:
CCCAGAGACAGGATCATTCTCA
Band lengths:
162-360
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]