GgaINT0124854 @ galGal3
Intron Retention
Gene
ENSGALG00000021274 | F1NJE7_CHICK
Description
NA
Coordinates
chr17:1328270-1329188:-
Coord C1 exon
chr17:1329029-1329188
Coord A exon
chr17:1328509-1329028
Coord C2 exon
chr17:1328270-1328508
Length
520 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGA
5' ss Score
6.03
3' ss Seq
CTCCTGTTTTGTCTTGGCAGTAC
3' ss Score
7.68
Exon sequences
Seq C1 exon
GGAACAGAACAGCTCAGCTGCAGACCGAGTCCTGGCCGAAATTGCTAAAACCATACAAGAGTATCCTGTGGCTTTCTGTGGGGCACAGATCATTACAGGAGAAGAGGAGGGAGCTTATGGTTGGATCACCATCAACTACCTGCTGGAGTCCTTCACCAAG
Seq A exon
GTGGGAGGGGTGAAACACCCGCTGCTTTGCCAGCACAGAAGGAAGGGTCTCTCAGCAGTGATCTGGGGGAAGCAGCCAATTATCCTCTGACTTGTTTACAGTGAAAGACAGGGGAGAAATCAGGAATGGGGATGTTCCTGCTAAAAAATGGAGGCACATCTTTGCTCCACGTGGACATGAGAGTCTCTTAGGGACCATGCAGCCCAATGAGGACAGTCTGCTCCTGCTGGCTTTGCCTCACTGCCAAGGGAAAGTCTGTGTCCACGTCCATGTCCATGCCCACATGGTGCTGGGAGGCCTTAGTTTGGGTTCCACATGTCACTCTGAAGGAAGCTGGAGCCAAACACCCTGCTCCCTTGCTCCCAGTGGGACAGTGGGACCTCATGTACAGGAAGAGGCAGCTAAGATCCTAAATCCACCAGATTTAATAACATCGACTTACATGGGGTGAAAATTTTGCTGAGGGCAAGTAACCCCATCCATCTCATACGCCTCTTCCTCTCCTGTTTTGTCTTGGCAG
Seq C2 exon
TACTCCCCAAAAGCACACATGTGGGTCCATCCAGAGGCAGCCAACAGTTTTGGGGCGCTGGATCTTGGAGGAGCATCAACTCAGATCAGCTTTGCCCCCAAAGGTTCATTTATAAACTGGAACAAAACCTCCAGGTTCATGCTGTATGGATACAACTACAACATCTACACTCACAGCTACATCTGCTATGGGCAGAATGAGATGTGGAAGCGCCTGGCAAAGGAGTTAATTGTGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021274:ENSGALT00000014517:4
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:
PF0115012=GDA1_CD39=FE(12.4=100)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(18.4=100)
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:
GAGTCCTGGCCGAAATTGCTA
R:
CAGGCGCTTCCACATCTCATT
Band lengths:
350-870
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]