GgaINT0124851 @ galGal3
Intron Retention
Gene
ENSGALG00000021274 | F1NJE7_CHICK
Description
NA
Coordinates
chr17:1330906-1331973:-
Coord C1 exon
chr17:1331857-1331973
Coord A exon
chr17:1331024-1331856
Coord C2 exon
chr17:1330906-1331023
Length
833 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GTCTTGGTTGTTCCTTCCAGTAC
3' ss Score
7.33
Exon sequences
Seq C1 exon
GTTAACAAGAAGCTCTTCACCACCGCCCTCCTCGGGCTGCTGGTCACACTGTCCATCATCGCCCTCATCCTCAGCCTGGTGAGGGTTGAAGATGTCACTCTGCCACCCACAGTCCAG
Seq A exon
GTGAGCCAAAGGAGGGTCCCTGAGCAGCACTGGGGAGATGAGAGCCAATGGCTTTGGGGGTTAGGGCTGACAGTGTTGCTGGGACCTGCCATGTAGCAGGTGGGTGGGTGGGTTTTTCACTTCCATTCCCATTAATACAGCCTGGGCAGCGGAGAAAAGCCATCTCTGAAACCCACTGCACACTCACACGTGGGTAGGGCAGAGTTCTGCCCGCTCCCTCTGCCCCGCAGCGCAGCGCTGCAGTGCGACGCACCTCCACGTGGCCTTTGTCCCCGCAGCTCCCCGGGCTCCATCCCAGCTGCTCACACAGCAGCACCGCGCTGCAGCTCCTCCCGTGCAGCCTGGCACCCCACCTGGCCGCTGGGTGCAGCAGGGGCCGGGTTCCCCTGTGAGTGGAGATGGAGGACTTCTGGGGGCTGGTGGTGCAGCTGGCTGCTCACGGGCTGCATGGGGCTCTGCCAGGCTGGGGAGCAGGGAGCGCTGAGACGGGGAGCTGCTGGCCCAGGGGTGGGGCTGGAGAATACACGAGAGGTATTCAATCAATAAAGAAAATAAGAAAACATGAGGAAACCACCAAGCAAATGCTTGTGTGAGCTGGCACTACTGAACGGACCTCAGCAGAGGGAACTGAAAGTCTCTCAGCTGCCGTGATAAGTGCCTGTGCTGAGGCCGTGCATGGATGGGATATGTCCTATTACCACTGCGCTCTGCCTGGTGCACACAGCCCTACCTCACAGAGCTGCTTCTGAGGCATGCCTTGGGCTGATGAACCTGGCAGGACCAGGGCTGGGCTGCTCCTCCCACCAGCGTGATGTCTTGGTTGTTCCTTCCAG
Seq C2 exon
TACGGGATGGTGTTTGATGCAGGCTCATCCCACACCTCTCTGTTTGTCTACGAGTGGGACTCGGACAAGCAGAACAACACCGGTGTGGTCAGCCAGACCTTGTCCTGTGATGTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021274:ENSGALT00000014517:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0115012=GDA1_CD39=PU(1.6=17.9)
A:
NA
C2:
PF0115012=GDA1_CD39=FE(9.1=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:
ACAAGAAGCTCTTCACCACCG
R:
CCTGGACATCACAGGACAAGG
Band lengths:
231-1064
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]