GgaINT0123623 @ galGal3
Intron Retention
Description
NA
Coordinates
chr16:375632-376261:+
Coord C1 exon
chr16:375632-375875
Coord A exon
chr16:375876-375979
Coord C2 exon
chr16:375980-376261
Length
104 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
TCCCCTCTCTCCCCCCCCGGCAG
3' ss Score
2.95
Exon sequences
Seq C1 exon
GAGTGCCACTTCCTCAACGGCACCGAGCGGGTGAGGTTTCTGGTGAGGCACGTCTACAACCGGCAGCAGTACGTGCACTTCGACAGCGATGTTGGTCTCTTTGTGGCCGATACAGTCCTGGGAGAGCCTTCTGCTAACCTCTTCAACAGCCAGCCGGACGTGCTGGAGAAGAACAGGGCTGCAGTGGAAATGCTCTGCAACTACAACTACGAGATAGTGGCCCCTTTGACGCTGCAGAGGAGAG
Seq A exon
GTGAGTTCACGCGTCCCCAGAGCTTGTGACAGGCACAGCGCTGATGAGCGCACGCGGTGCTCTCACAGCCTGTCCCCAACGCTGTCCCCTCTCTCCCCCCCCGG
Seq C2 exon
CAGAGCCCAAGGTGAGGATCTCTGCGCTGCAGTCGGGCTCCCTGCCCCAAACCGACCGGCTGGCTTGCTACGTGACGGGCTTCTACCCGCCGGAGATCGAGGTGAAGTGGTTCCAGAACGGGCAGGAGGAGACAGAGCGCGTGGTGTCCACGGACGTGATCCAGAACGGGGACTGGACGTACCAGGTGCTGGTGGTGCTGGAGACCAGCCCACGGCACGGGGACAGCTATGTGTGCCAGGTGGAGCACACCAGCCTGCAGCAGCCCATCACCCAGCGCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000199:ENSGALT00000008925:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.053
Domain overlap (PFAM):
C1:
PF0096914=MHC_II_beta=WD(100=90.2)
A:
NA
C2:
PF0765410=C1-set=WD(100=87.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACAGTCCTGGGAGAGCCTTC
R:
CCGTTCTGGAACCACTTCACC
Band lengths:
255-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]