GgaINT0129723 @ galGal3
Intron Retention
Description
NA
Coordinates
chr18:7950207-7950966:-
Coord C1 exon
chr18:7950829-7950966
Coord A exon
chr18:7950321-7950828
Coord C2 exon
chr18:7950207-7950320
Length
508 bp
Sequences
Splice sites
5' ss Seq
AGAGTGAGC
5' ss Score
4.22
3' ss Seq
TCTGAATTTCTCTTCCACAGGCA
3' ss Score
10.17
Exon sequences
Seq C1 exon
CACCGCCGCTACACGCTCATGTGCGGTGCAGAGCCCATCAACTGTTTCCCTGTGCTCATCAACACCCTCAGCAACACCTTCCTGAGGCTCTTCAGCTCCACCGCACGGATCCGCATCTGGAGCCATCCCTTCTCCAGA
Seq A exon
GTGAGCATCCTGCCAAATTAATGTTGGAAATCACTTCAGATGGCCAAAGTGATGAGGGTTGCAGGGGGAAAGATTGGCTGGACCACAGCATCTCCAGGGATTGGTTGGGGTCAGTGCTGCACTCAATGGGCATGTTAAATACTGGGGCCATTTGCTGAAAATTTCTACCACCGTGTTACTTAATAAGGTTTTGGTGCTATATGACATTCAAGCATGTCATAAGCATGTGTCCATAAGGTAGGAATACAGCAGCAGTATTTACAAGTTGCTTCAGCATCAAAAATGTGTTGCCTGTCCTCAGCAGTTTACAGCAATTCCAATACCTCCTGCAAATTTTAAGATGGTAAATGCTTTGTTTATTGTTTTGTGTTCGTCAGCATGAAGGGATTACTGTAACTGCATACTTGTCCTATGGCTCACCTGTATATTTAGCCATGCTATGATCATCAAGCTTGCTAATTTTCTCTGGACAGCTATTGATTATGATTTCTGAATTTCTCTTCCACAG
Seq C2 exon
GCAGAAGACCCAGAACTAGGCCGTGGTATTTTTTTTTTCTGTCTCACTTACATGCTGATCTTGGCTGCTGGTTTGCCTCCTCAATTTGCAGTGAGCAGCGTGGAGGATTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021393:ENSGALT00000006911:6
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:
PF126982=ABC2_membrane_3=FE(23.3=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGCTACACGCTCATGTG
R:
TGTAATCCTCCACGCTGCTCA
Band lengths:
246-754
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]