GgaINT0038643 @ galGal3
Intron Retention
Gene
ENSGALG00000003399 | SELE
Description
NA
Coordinates
chr8:5315453-5316220:+
Coord C1 exon
chr8:5315453-5315632
Coord A exon
chr8:5315633-5316034
Coord C2 exon
chr8:5316035-5316220
Length
402 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTTCTTTTTCTTTATTTCAGTTG
3' ss Score
10.84
Exon sequences
Seq C1 exon
CTGTGAGGTGTGATGCTGTAACCTGGCCAGAAGAAGGTTCTGTGAGCTGTTCTTATGCAGATCCCACCTATGGCTCACGTTGTGATTTCCGTTGCCGAGAAGGCTATGTTCTGGAGGGCCCATCCAGCACTGAGTGCATGGCACAGGGACAGTGGTCAGAGCCATTCCCAAAATGCAAAG
Seq A exon
GTGAGACTTAGTCGGTTGGAAAATATTTTCTTGTCAGTGTGCAATGCTCTGAAATCCTATCTCTGAGAGTCCAGGTTCAATTCAATCAATATCCAACACTGATTCAGTGTACAAGATAATATCATGGCCTCACCAGAGGTTAGCTCTTGGCAGGATACCTCTTCTTGTCAGCTAAAAGGAGTATATTATGCTGACCTGCTCCAAGCTAATGTCTGTGCTATCTCTTGTGCTTTCAGCTGTGACCTGCCCTGTTTTCAGAATACCTGCTCATGGCTTTCTGAACTCCCCTCACCCCAAGTTCAAATGATTTTGAACATACAGTGTACATTTACCAGTACAAACAGTAGGGTCAAAGACAGGGAAGGTGTTTATGTCTCAACCATTTCTTTTTCTTTATTTCAG
Seq C2 exon
TTGTACAGTGTGAACCGCTGAAATCTCCTGAGAAAGGCTCTATGGATTGCATACATGGTGCTGGGAACTTCACATATAACACGGCCTGCCACTTCAGCTGCCTAGAAGGATGGAATCTCAATGGATCTCGTGTTCTTGAGTGCAGTCATTCAGGAAACTGGAGTGCCAGTCTGCCCACATGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003399:ENSGALT00000005376:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=91.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGATGCTGTAACCTGGCCAG
R:
CTTCACATGTGGGCAGACTGG
Band lengths:
357-759
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]