GgaINT0048001 @ galGal3
Intron Retention
Gene
ENSGALG00000009250 | HNRNPA3
Description
NA
Coordinates
chr7:16935155-16935413:-
Coord C1 exon
chr7:16935324-16935413
Coord A exon
chr7:16935248-16935323
Coord C2 exon
chr7:16935155-16935247
Length
76 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
TAAAGTAAAATACTTTTCAGGTC
3' ss Score
4.15
Exon sequences
Seq C1 exon
TTCAGAAATACCATACTATAAATGGTCATAACTGCGAAGTGAAAAAAGCACTCTCAAAACAAGAGATGCAGACTGCCAGCTCTCAGAGAG
Seq A exon
GTAAGTATATAGTTATGCAGAGTTATTGTACATAACTGGTTTTCAATTAATGTAATTAAAGTAAAATACTTTTCAG
Seq C2 exon
GTCGTGGGGGTGGTTCAGGCAACTTCATGGGTCGTGGAAATTTTGGAGGTGGTGGAGGAAACTTTGGCCGAGGAGGAAACTTTGGTGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009250:ENSGALT00000038715:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.614 A=NA C2=0.484
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(17.1=38.7),PF072928=NID=PD(63.6=90.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCATACTATAAATGGTCATAACTGCG
R:
CCACCAAAGTTTCCTCCTCGG
Band lengths:
168-244
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]