GgaINT0095055 @ galGal3
Intron Retention
Gene
ENSGALG00000007145 | F1N8N7_CHICK
Description
NA
Coordinates
chr2:13986201-13986665:+
Coord C1 exon
chr2:13986201-13986341
Coord A exon
chr2:13986342-13986462
Coord C2 exon
chr2:13986463-13986665
Length
121 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
CCATTTATTTTTGTTTGCAGGTT
3' ss Score
10.64
Exon sequences
Seq C1 exon
TCCCTTTCTTCAGAGGTGATCCTGGAAAACAGTAAGCTACCAAAAGAAGTGACAATCAGTTACAAATCATACTGCAAGAATGGAGTGAATGACACGCAGGAAGATGGAAGAAAATGTTCCAACATTTCAATAGGAGATGAG
Seq A exon
GTAACTACCAATGCACGTGCTGCTCTCAAATTTCATTTAATATCTCTGGTGCTTAGTGCTTTCTTCCTTTAGTACAAAGTTCTTTTTAATAATGTGACACTCCATTTATTTTTGTTTGCAG
Seq C2 exon
GTTAGGTTTGAGATTAACGTAACAGCAAATGAATGTCCAAAGAAAGGGCAAAATGAAACAATTAAAATTAAACCACTGGGGTTCACTGAAGAAGTGGAAATTCATCTCCAGTTCATCTGTGACTGTCTGTGTCAAAGCGAAGGAGAACCTAACAGCCCTGCCTGCCACGACGGAAATGGGACATTTGAATGTGGTGCATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007145:ENSGALT00000011573:10
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:
PF0036213=Integrin_beta=FE(10.6=100)
A:
NA
C2:
PF0036213=Integrin_beta=PD(9.5=60.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACACGCAGGAAGATGGAAG
R:
TGCACCACATTCAAATGTCCCA
Band lengths:
250-371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]