GgaINT0129160 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7923294-7923949:-
Coord C1 exon
chr18:7923832-7923949
Coord A exon
chr18:7923386-7923831
Coord C2 exon
chr18:7923294-7923385
Length
446 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ATGTTGTGTACTGATTTCAGGAG
3' ss Score
6.08
Exon sequences
Seq C1 exon
AAATCAGTTATTATTGTCAGTAATGTCTACAAGGAGTATAAAATTAAGAAAGCTGGTTCCGTTTTTAGGAAGAAGAAGAAAGTGGCCACCAAAAATATTTCCTTCTGTGTTAAAAAAG
Seq A exon
GTGAGGACTGGAACTGTTTTATTCTGACCATACCCAGAGAGCTAATCCTCTGCAGGGTCTGTTATCTGAGCCGTGACACCAAGGTGGAATCCATTTTCTCCATGCATAAGGCACATCCAGTATATGGCTGGTGAGATAATGAACACCACAGACACATCCAATCAGTTACCTTTGACTCTCCACTATCCAAAATTGCGTTACACCCTCTACAGCAGACACTTCAGCAGTGGTTTCTGGGTGCGATGCTCAGACTCACGTCACTGCATCAGCCGTAACGTTGAAAAGTCATTTATGGCCTCTCTGAGCATATAGTCATACATCTATATAATTGTACATGATCTTTGATATTAGCATACTCTCTTTTAAGCTTTTTTTTTTTTATGAGACTGCCTAATATATCCTCTGAATGGTGGGCCTTACTAAGAAATGTTGTGTACTGATTTCAG
Seq C2 exon
GAGAAGTATTAGGGCTTCTGGGGCCCAACGGAGCTGGTAAGAGCACAGTCATCAAGATGATAGCTGGGGAGACAGCGCTGACAGCTGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:29
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:
PF0000522=ABC_tran=PU(6.8=25.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(20.4=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:
TTGTCAGTAATGTCTACAAGGAGT
R:
GCTGTCAGCGCTGTCTCC
Band lengths:
190-636
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]