GgaINT1000565 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E1C245]
Coordinates
chr23:5348449-5349945:+
Coord C1 exon
chr23:5348449-5348639
Coord A exon
chr23:5348640-5349916
Coord C2 exon
chr23:5349917-5349945
Length
1277 bp
Sequences
Splice sites
5' ss Seq
TCTGTCTCC
5' ss Score
-18.97
3' ss Seq
AATGTGAGAGGGGGAGAGAGCCC
3' ss Score
-28.84
Exon sequences
Seq C1 exon
TGAGCCCCTTGCTGACACCAAGTCTCAGCTCGACACCACCGCCTTCGACATTCAGCTCCTTATCTCGGAGCACGCCCAGGACCTGAGCCCCCAGCAGAGCAGGCAGCTGCTGCGGCTGCTCAATGAGCTGCAGAAGGCTTTCCGGGAGCTGGCGGGGCGCGTGACGGCGCAGGTGGAGGTGCTGCAGGTCT
Seq A exon
GTCTCCAGCAAGCGGAGCAGACGGATCAGGTGAAGGTTGTGAGACTTCGGCTTCCTGCCTGCACTTTGCTCGCTGAAGCACTTTCCGGCCACAGGAGTGTGCGCTGAGCCCCTCGTCTGGGGTGCCCCCTGCATGCCACTCACGGTTTATGACTTCTTACTGCACATCATGAGCTTCCTCTAAAGTCTGTCTTCTTCCTGTCACGTAGCTCCCAGGTGGGAAGTTGCTTTCTGTGCAGAAGGCCGAGCCTTCCCGAGCTGTGGGTAGCACAGTCCTGTGCTGCCATTCTATCTTGGGCCGGGTGGGACACGCCCTGGTCTCTGGCCCACCAGGAAAACCCTGTGTGTAGCTGGCACCACAGCTGGGTCCTCGTGTCCTATTGTTGGTGCACAAGCAAGGTTTTGCTGACCTTGAGAAACAGCTGATGATGCACCAAGGCAGCCAGCAGCTGCAAAAGCAAGTCCCCAGGTCCTGCTGCATTCCAGCAGTGCCCATCACTGCATGGATCCTCTTGTTCAAGACAGTATTAATGTGGTTTTATTAACAGTTGCTCTCTGTAACTCTTGCCTGTCCCATCTGGAGTGTGTGTGTGTGTATTAACCAGTTTGCTTTGCTTTTTCAGATTGAGTGTGCGCCCATCCTAACCCAGGAAGAACTCGCTTTGCAGCGGAAGAGCTCTTAAGAAGGCTCTTTCAGTTTGCTTCTGTTGTTTATCTTATGACTGTGAGACACAAGCACAGTGTTTTGCGCAAGTTTGTACATCACGTTGCTGAAATGCCCATTGAAACACAAACCTTCACCTCCCCTGGCGAAGGGAAGAGGAACGGTGCAGGGACTCTCAGGCCACATCATGCTCAATTGCTCAAACAGGCGCTTCTGTTGTTCTCTGGCAGCAAAATGTGGGAGCTGGGTCAGCTGCAGAAATGCTTCCTCTCCCCTGAGCTCCCTCTCCAACCGCACGTCCAAAAGCCAGCCCTGGGTCAGCTGGAGCTCCACAGCAATGCTACCCACTGCCAGGCGGTTACTTCTCCTCAGCTGAGTTTCTGGTGCAGTTTTCCTGTTCAGAACATTGAATGGAAGAGGCACAGAAACTTCTGATGGTGCTCTCCCAAGAGAGGGCTGCGTAATCTGGAGCTGGATGGGGGTTCTTAAAAAGCAGAACGAGAGACACCTGCTTGAGTGGTGGCAGATGTACACTGCAGTCCCCCAGCACTGTGCTGGGCTTTGGACCTCAGCCCCATTCCTGCTGTGTGTGTGAATGTGAGAGGGGGAGAGAG
Seq C2 exon
CCCAGGGAGAGCTGCAGAAGCCAATTTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003693:ENSGALT00000005857:49
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.046 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCCCTTGCTGACACCAAG
R:
CTTCTGCAGCTCTCCCTGGG
Band lengths:
208-1485
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]