GgaINT0048000 @ galGal3
Intron Retention
Gene
ENSGALG00000009250 | HNRNPA3
Description
NA
Coordinates
chr7:16935324-16935875:-
Coord C1 exon
chr7:16935665-16935875
Coord A exon
chr7:16935414-16935664
Coord C2 exon
chr7:16935324-16935413
Length
251 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGT
5' ss Score
7.12
3' ss Seq
TGCTTCACGTTTTTCTCTAGTTC
3' ss Score
7.52
Exon sequences
Seq C1 exon
GATTCTGTAAAGCCTGGGGCGCATCTCACAGTAAAGAAAATATTTGTTGGTGGCATTAAAGAAGATACAGAAGAATATAATTTAAGGGAGTACTTTGAAAAATATGGCAAGATCGAAACGATAGAAGTCATGGAAGACAGACAAAGTGGAAAGAAAAGAGGCTTCGCTTTTGTAACTTTTGATGATCACGATACAGTTGATAAAATTGTTG
Seq A exon
GTATGTAATTGCTTAGTGGGAAGGGACTTAGAGAATAAAAGTGCAGCTTAACCTTCAAAAAAAAACTGTTCATGGAGTATAAGATATTGGCATGATTAACTACTCGAACTGTAGTAAGAGATGAGGTAGATTTAATGTTCCTGTGAAAAGTGTGGCCGTGTCTTACAGTAGCTACTTAAGAGTTGTACAGCTCACTGCTTTCAGTTGTTTGAAATTATTCTAACTCTATCCTGCTTCACGTTTTTCTCTAG
Seq C2 exon
TTCAGAAATACCATACTATAAATGGTCATAACTGCGAAGTGAAAAAAGCACTCTCAAAACAAGAGATGCAGACTGCCAGCTCTCAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009250:ENSGALT00000038715:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.113 A=NA C2=0.614
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(81.4=80.3),PF072928=NID=PU(34.1=21.1)
A:
NA
C2:
PF0007617=RRM_1=PD(17.1=38.7),PF072928=NID=PD(63.6=90.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGCGCATCTCACAGTAAAG
R:
CTCTCTGAGAGCTGGCAGTCT
Band lengths:
286-537
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]