GgaINT0048003 @ galGal3
Intron Retention
Gene
ENSGALG00000009250 | HNRNPA3
Description
NA
Coordinates
chr7:16933671-16935045:-
Coord C1 exon
chr7:16934965-16935045
Coord A exon
chr7:16933824-16934964
Coord C2 exon
chr7:16933671-16933823
Length
1141 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
TAGTTTGTCTCTTCTTGTATTCA
3' ss Score
-2.58
Exon sequences
Seq C1 exon
GAGGCTATGGGGGTGGTGGTGGCGGTGGTGGGAGCAGAGGAAGCTTTGGGGGTGGTGATGGATACAACGGATTTGGTGATG
Seq A exon
GTGAGTATATTGCTGCATCTCCCCATCTCTCCTCCCCCCACGTTAGGCTGCTTTAAGTCTCAGCTCTCTCTGCCTTGGACGTGAAGTCTGCTTTGGTCATGTTTTGTACGTTGTAGTGCTGTGAAGAGTTGAGATTTGTCTCCCCTTCAAAATAATGGGTGAAAAAAAAAATACTCTCATGTCACGAGCTCAATGCAGTAGCTTGTAGTTCTTGATCAGCCATCACTGTGAACAGTTAAAAGAAGTTTCTGGTGTCACTTGGGATGACTAAAACTAAAAGCGGTGACCATCAGCTTTTTGGTCAACTGTAAGATGTTGATCACTGTCTTTTTCATAATGTGTGAGTATCCAAAATAGATCTGAAGAGAGCTGTGCAAGTTGTCAAACATTTATGGTGATCTCATTTTTATGCGGGAAGAGGGGATGAGAGAAGTAGCACGGAGTTAATCGTGTCTTGATTCTGCAAGCAGAAACAGTACTGACTTCTTTTGGGCCAGTTTCACAGTTCACAATTAACTTCATTGGTATGTCTGAGATCGTTAAGTCTCAGTTACTCTCTTGGTGACTTGAATTATTATTATTATTTTTTTTAAAGTCATCTAGTAACTTTTAACACAAGTCTAAATAAAGCTATGTCTAGATGAAGTGTGTCCAGCCAGTGGCCTGCAGGCTGCACGTGGCCAGGGACAGCTAGGAATTAGCCCTTGCTGCTGTGTTATCATGGCAACGGCCAGAACATCAGCCCTGGGCAATTCCTCATCAGTCAATGCAGCCCAGGCAAGCCAAGTGGTTGGACACTTTTATTATCTAGGTAAAATCTGTAAACTGAATTGTTTTGATGGCTCTGTCTACTGAGTAATCTCAGTTCGGAGGAATAAAGAGTGGCAGCAGTGACAGCCACTTCTGCAAAGAGTGTGATGTGTGGTGGTGAAAGTTATCTGAATTAAAAATAATAATAATAATGATTTTCTTTTGTTTGGATTAAATAGTTTGGTTAAATGATTCAACAATAATGAGCACAGTGTGGGAGAAGCATTGTGGGAGATTTGTGTGTGTGTTTGTGTGCCTTTTTAGCTTTTTTTAGTGGACCTTCTCTTACCGGTATTTTGCTGTGATGTGCTTAGTTTGTCTCTTCTTGTAT
Seq C2 exon
TCAAAGGTGGCAACTATGGAGGTGGTCCTGGCTATGGCAGCAGAGGGGGTTATGGTGGTGGTGGAGGACCAGGATATGGAAACCCAGGTGGTGGATATGGAGGTGGAGGAGGAGGATATGATGGCTACAATGAAGGAGGCAATTTTGGAGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009250:ENSGALT00000038715:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.736 A=NA C2=0.524
Domain overlap (PFAM):
C1:
NO
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:
GAGGCTATGGGGGTGGTGG
R:
ACCTCCAAAATTGCCTCCTTCA
Band lengths:
233-1374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]