GgaINT0120547 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:81611682-81612237:-
Coord C1 exon
chr1:81612125-81612237
Coord A exon
chr1:81611803-81612124
Coord C2 exon
chr1:81611682-81611802
Length
322 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGA
5' ss Score
8.85
3' ss Seq
CCTGTCTTTTAATTTTTTAGGAC
3' ss Score
12.25
Exon sequences
Seq C1 exon
GTCTCTCTGCCATATGATTCACAGTTTTATTGGGTTGGATTATCATACATATCTGAAAGGAATGGCTGGTTCTGGGAGGATGGAACAGCTCTTTCAACTGAAGCCAAAACTTG
Seq A exon
GTAAGACTTCATAACCAGTGTTGTTCTGTCTTACGGGCCCCAGTAACATGCAAGAAACTTACAATTACTCTTACTTTCCCATGTTTGCCACAAGTGCAGTCATGAAGGAGCATGGAGATGATCATATCTGCTATAGGGCTATCAACAGTGAGTAGCAAACAACAGCTCAGTCACTGGCTCTGGACCCAAAAGGCACTAATAAAATAGCTTCAGGGGGGAAATAACTCTACATTCCAGTGGCAAATCAGTATGATAACAAATTCAAACACAGAGCACATAATATCACTGGGATGTTATTAATTCCTGTCTTTTAATTTTTTAG
Seq C2 exon
GACTGTATTACGTGAGCACACCTTCTGTGCCTCCTTATATGGACAGATTATTTATGCCAGTAACTCCTGTTCGACAAAGCAATCCTGGATCTGTGAGAAAGGAGCTGTCCAATTTGCCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014722:ENSGALT00000023744:5
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:
PF0005916=Lectin_C=FE(37.4=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(33.3=80.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GTCTCTCTGCCATATGATTCACAGT
R:
CAGGCAAATTGGACAGCTCCT
Band lengths:
233-555
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]