GgaINT0031299 @ galGal3
Intron Retention
Description
NA
Coordinates
chr9:21896827-21897972:-
Coord C1 exon
chr9:21897838-21897972
Coord A exon
chr9:21896962-21897837
Coord C2 exon
chr9:21896827-21896961
Length
876 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
CCTTTGCTTGCATTTTCCAGCAT
3' ss Score
7.23
Exon sequences
Seq C1 exon
CCTGTCCCAGGTGGGCTTTTGGTGTGGGCTGCTCACAGGAGTGTCAGTGTGTGAAGGAGCACACACTGGGATGCAGCGCTCGGAACGGGACCTGCAGCTGCAAGCCTGGATATCACGGCAAGAAGTGCCAGAAAG
Seq A exon
GTACAGCAGGAAGGGATGTTCCCCCTGTCTGTTTATTCCTTTGTCCTCTCTGCATGCCTCATTCCTCCTCCCACATGCTTTATTGTGCTGCTGCTAACGGTAAATTCATATTCTGCTAATTATTTTGTCTCTGATTGTTCATATTGTGGACTCTGTGAGTGCCAGATATCACAGAGCCTGCAGGGACACCGCTGGGAATGCAGTGCAACAGTGCTGTTTTTTAGCCTGATGAAATGACAACAGAAATCTAGAAACCTAGCGCTATTACAACCCTAAATAATGCAGATTATGGGAGTTTTCACTTTTGTTCTTCTTTTTTTTTTTTTCATGAAGACAGTGAATAAGTGGCAAAAACTGTGTTTTATGTGAGCAGGATCATTTGTAAATGGTTTCTGTAATGCTGCTTCTCCTTTAGCTTTCCAGGTCTTTGAATTCAGCTCATTCTGTGTAGTTTTGGGCATAGTTCAGAGAGAATTGTGTTCTGCATTCCTGTTTGTACGTCTCTGTAGGCAGCGCTGGAGTAAAGCAATATTCTCCCTCACAATTCCTCCCTGGGCACACAGTAACACATCAGATTCATGGCACCGCTTCTGGGAGTTTGGTGAAGAGAGGGAGTGATGATATTTCATATCCTAGTAGTCTAATATAGCCCCAAGTACTCTCATTCTGTTTCTGGGTTGCATTTGAGCAGCAACTTCTTTGTAATATGTGTGCATGTGTTTAGTTTTTGCTTCCACTTCATTATCAACACCTCTGAAGTACATGTTAAAGACGATTTTTCTATCGAGTTCTGCTAATTATTGTTCTGACTTCTCTTAAGTTTCTTTGCCTCTTCCATTTCCTCACGCACGCCGTGCCTTTGCTTGCATTTTCCAG
Seq C2 exon
CATGCACACCTGGCTTTTATGGGGCTGGTTGCAAACTGAGGTGCAACTGTTCCACCGACGTTTTGTGTGACCACGAGACGGGAGCCTGCAAGCGTCCGTGCCCGCCTGGTTTCCATGGAGAAAAGTGCCATTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009458:ENSGALT00000015394:17
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:
PF0005319=Laminin_EGF=PU(67.3=76.1)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(30.8=34.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGGTGGGCTTTTGGTGTGG
R:
GGAATGGCACTTTTCTCCATGGA
Band lengths:
262-1138
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]