GgaINT0117854 @ galGal3
Intron Retention
Description
NA
Coordinates
chr1:79270216-79271031:+
Coord C1 exon
chr1:79270216-79270418
Coord A exon
chr1:79270419-79270815
Coord C2 exon
chr1:79270816-79271031
Length
397 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACA
5' ss Score
8.88
3' ss Seq
GACTTTCTCTTTACCTTCAGGAT
3' ss Score
11.41
Exon sequences
Seq C1 exon
TTTTTTTTCTCTATGCATCAGCAGAGCATCTGACATCAGATTCCAGTAGTGAAGAATCTTCTTCTATGATTGAGATAGTAGCCTATATCCTTCTGGCTCATGTTTCCAAACCAGACTTTGCTGTCAATGACAGTGCAGTCAGCAAGCTTGTGCACTGGCTCAGTAAACAAAGAAATGCTCTCGGGGGATTTGCTTCCACACAG
Seq A exon
GTAACAATCGGGGGGAAGTTATGGGGGAAGAAGAGATATACTGTACATAGAGTGATATGTGTGTCATTTGTGTGCATGTCATTCCAGATCTATCCTTTGCAGAGAGGCATACATGAGCCCTGCTTGGGAAGGGGAATGCCATGGGAAAGTTTTTTTGTTTTTTGTGGGTTTCTTTTTTTTTGGTGGTGTAATTGGGGTCACCCAGGACTCAGAAGCCATGCTTGCCAACATGCAGAATACATCCAGAAGCCTGTGAACTTACTGGCATGTACCCTAGTTGTATCAGAGCATAAGTCAGGGCCATTAGATGTGTATTTTTCCCTGTCATGCCTGATTTAGAGTGACGGATCTTGTACTGCTTTACTGCATAGGAAAGTGACTTTCTCTTTACCTTCAG
Seq C2 exon
GATACAGTCGTTAGCCTGCAGGCCCTGGCTCAGTATGCAGCCCTGATTCCTCATGAGGTCAGAGATGTGAAGGTGACAGTGAAAGGCAAAGAGGCTTCTCCGCTAGAGTTCCATGTGCACAAAAATAATAAGCTAGTCTTGCATCAAGCATCTCTCCTTGAAGTCCCAGGGATGTACACAGTAGAGGCAACTGGCAGTGGCTGTGTCTACATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014252:ENSGALT00000023051:33
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:
PF076789=A2M_comp=FE(28.0=100)
A:
NA
C2:
PF076789=A2M_comp=PD(5.4=18.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
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:
AGTAGCCTATATCCTTCTGGCTCA
R:
TGTATGTAGACACAGCCACTGC
Band lengths:
342-739
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]