GgaINT0126387 @ galGal3
Intron Retention
Gene
ENSGALG00000001565 | C5
Description
NA
Coordinates
chr17:9025303-9025707:-
Coord C1 exon
chr17:9025605-9025707
Coord A exon
chr17:9025378-9025604
Coord C2 exon
chr17:9025303-9025377
Length
227 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGC
5' ss Score
4.95
3' ss Seq
TTTGTTTTTCTTCCCTACAGCTT
3' ss Score
11.7
Exon sequences
Seq C1 exon
GTACAGGCCGAGCAGAAGGGAGCCACAGTCAGGATCTGCTCATGTGGTGATGGACATAAGTTTGGTTAGTGGATTGGAAGCAAATTCAGAAGACTTATCTACT
Seq A exon
GTAAGCATTAAAGGACATCTTCCTTTTGCTGGAGACTTTTCTGACAGAACTGTGATACTTACTGTTCTTCTCTCTCTGTTAGACTAGTAGTACAGATTTGTATCATTGCATTCTCATTGCTGCAAAGTACTTCTAATGCTGATGAGAATAAATCCTACTGATTAAAAAATCTTCAAGATCATCCAGAAAACTTTCTTTATCAATTTTTTTGTTTTTCTTCCCTACAG
Seq C2 exon
CTTGCAAGTGGAGTTGATCAGTTGATAGCTGACTATGAGATAAAAGATGGGCACGTTATTCTGCAGATAGATTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001565:ENSGALT00000002379:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF076779=A2M_recep=PU(24.2=62.9)
A:
NA
C2:
PF076779=A2M_recep=FE(26.4=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
TACAGGCCGAGCAGAAGGG
R:
CTATCTGCAGAATAACGTGCCCA
Band lengths:
172-399
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]