GgaINT0044464 @ galGal3
Intron Retention
Gene
ENSGALG00000008905 | F1NEB3_CHICK
Description
NA
Coordinates
chr6:28908015-28908692:+
Coord C1 exon
chr6:28908015-28908186
Coord A exon
chr6:28908187-28908597
Coord C2 exon
chr6:28908598-28908692
Length
411 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
TTCTCAACCATTCCTTTCAGAAA
3' ss Score
8.03
Exon sequences
Seq C1 exon
AACCAGATGATTGTTATGAAGAGGACTCCTTTTATTACAGAGGAAGAGTGAACCAAGCACAGAGTGGCAGGACTTGCCTGCACTGGAATTCCCACTTGCTCTTGCGCTTCTCTATTAATGCATTTATGGAGGATGCTGAGTCTTATGGGATTGGGGAACATAACTTCTGCAG
Seq A exon
GTAACGTTTTGAAGAGCCAGTTGTATCAAATAGATCTTCGAATACAAATTGCTCCTGTGAATTTGCTAAAATCATGGTATTAAAATCTGGTATCTTTCTTGACAACGCATCTCTCTAAAATGTGGAAATGTTGAAGATGCCACTGTTACTGAAGTGAAGATTCCAGAAACGGGCCTAATTTCCTTTGATTTTTTTAGGTTTAAGATGGGTGTGGGGACAGGAGAATGGCAGCAGTTACAACTCCATTATTTTAGGTGTTTTCTTTATCAAATCTTATGAAGAGTATCTCCTGAAGTGTGGCTTTCCTATGGAAGCACAAGTGTGCCCTCATAAGCATTCTTGGCTCTTTTACACAGTTTCCAGGAGATTTCTCCACTTTGGTTGGCTGATGTTCTCAACCATTCCTTTCAG
Seq C2 exon
AAATCCTGATGAGGATCAAAAGCCCTGGTGTTTCATTAGAAACAATGGCAAAGTGCAATGGGACTTCTGTGATGTTTCACCATGCTCTGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008905:ENSGALT00000033102:7
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:
PF0005113=Kringle=PU(64.6=91.4)
A:
NA
C2:
PF0005113=Kringle=PD(34.1=84.8)
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:
AACCAGATGATTGTTATGAAGAGGAC
R:
CCAGAGCATGGTGAAACATCAC
Band lengths:
262-673
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]