GgaINT0105032 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79478331-79479019:-
Coord C1 exon
chr1:79478932-79479019
Coord A exon
chr1:79478560-79478931
Coord C2 exon
chr1:79478331-79478559
Length
372 bp
Sequences
Splice sites
5' ss Seq
TGAGTGAGT
5' ss Score
6.51
3' ss Seq
GATTTTCTTGTTTTCCTCAGTTC
3' ss Score
8.75
Exon sequences
Seq C1 exon
AATTTTCAAAGATTACTGCTGCTGGTGTTGTTAACACTGTTCGGAAATACTTCCCTGAGACCTGGATTTGGGATCTGGTTCACACTGA
Seq A exon
GTGAGTATTTTCACCTTCACTTCTTACCTCTTATGTGGATTTTTGAGTTGTTGCTGAGATGAATGCTGGAGGATAGAACATTAATCCAAATATATTGGTTCTAATCTGTATGTTTGGACATAGTGGAATTTAAACAACTGTTATTTCTAAATTTAAAAAGCCAAGTATTCTTCCAAGTGCTTTTTAACATGTAGTTCACCAACATGTTCATCTTTACCTCCAGTTTCATAATATCTTTTTAAATATGGAGGAATATCTTAAAGAAACTGAGGTGGAAACTCTGAAATATTAAGTCTGTCATAGGCCTGTTCTGTAATTTGTTCTGAAAATTCCAAAGATCATTTCTCATTCAGATTTTCTTGTTTTCCTCAG
Seq C2 exon
TTCCACTGGAGAGGCTAATATCTTCTACACCGTCCCTGATACCATCACAGAATGGAAAGCCAGTGCTTTCTGTTTGCAGGATGATGCTGGGTTTGGCATCTCCTCACCTGTTTCACTGACAGCATTCCAACCATTCTTTGTGGATCTTGCCTTGCCATACTCCGTCATTCGAGGAGAAAAAATTAATTTAATAGCCAACATTTTCAATTACCTTGACAAGTGCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011930:ENSGALT00000019460:17
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=0.000
Domain overlap (PFAM):
C1:
PF0020717=A2M=PU(9.9=30.0)
A:
NA
C2:
PF0020717=A2M=FE(83.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAAGATTACTGCTGCTGGTGT
R:
TGAATGCACTTGTCAAGGTAATTGA
Band lengths:
311-683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]