GgaINT0078383 @ galGal3
Intron Retention
Gene
ENSGALG00000004293 | F1NWX6_CHICK
Description
NA
Coordinates
chr3:47271698-47272498:+
Coord C1 exon
chr3:47271698-47271837
Coord A exon
chr3:47271838-47272377
Coord C2 exon
chr3:47272378-47272498
Length
540 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TTCTAAACTTGTTCCTACAGTGG
3' ss Score
7.22
Exon sequences
Seq C1 exon
TTACACACCTGAAAAACACCCCAGTGCAGGGCTGGAGGAAAATTACTGCAGAAATCCTGATAATGATGAAAAAGGACCCTGGTGTTACACAACAGATCCCAATACCAGATTTGATTACTGTAACATCCCAGAGTGTGAAG
Seq A exon
GTGAGGATACATATATAATTTGTTCCCCCTGTTCAGAAGATTTGTTCAAAAATGAGTAGTTATTCAGATATTTTTATTTTTGTTCCAAACTTGAGTTTAGTTCAATCTGGAACTTTCCAAAGAGATTTTTACACTGACCACAAATAAATCTCCCAAGTCAGCTGCACAAGAGCAATTTCCCTAGACAAAAGAATGACAAATGTATTCTCAGATCATAATCCTAGAACTGAACCAAATGATGGTTGCTAGTGCAAAAGTCAATAAAACACAATAGAAGCAAGGAACAGATTTTCAATTATAGATCAGCAGTTTAAATTCATCTCTTTTAGAAACTGTGTTCTATAGCATATATTTTAATAGAATACTATAACCAATTAGTTCAAGTCATCAGGAAAAAGAAACTTTGACAAAAATGATTGTCTTTCAGCCTTGTGTTCTGATTAGACCCTTGATCTTCAAGTGAGATGAGTGTGAGTGTTTACAAACAAGTTCCACATGAAATCTCTGTCTCTTGTCTTCATTCTAAACTTGTTCCTACAG
Seq C2 exon
TGGAGTGCATGCACTGCAGTGGAGAAAACTACCATGGAGTAGTTGCAACAACAGCATCTGGGCTTGAGTGCCAACGCTGGGACTCCCAGCTACCTCACTCTCATGGATACCTCCCTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004293:ENSGALT00000006829:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.229 A=NA C2=0.122
Domain overlap (PFAM):
C1:
PF0005113=Kringle=PD(57.0=93.8)
A:
NA
C2:
PF0005113=Kringle=PU(48.7=92.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
TTACACACCTGAAAAACACCCCA
R:
GGAGGTATCCATGAGAGTGAGGT
Band lengths:
254-794
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]