GgaINT0009239 @ galGal4
Intron Retention
Gene
ENSGALG00000021136 | VPREB3
Description
pre-B lymphocyte 3 [Source:HGNC Symbol;Acc:HGNC:12710]
Coordinates
chr15:7958244-7959048:-
Coord C1 exon
chr15:7958970-7959048
Coord A exon
chr15:7958753-7958969
Coord C2 exon
chr15:7958244-7958752
Length
217 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CACATCCCTACTGTGCACAGCCT
3' ss Score
4.63
Exon sequences
Seq C1 exon
ACCTCTCTTCCTCTGCTCCTGGATCCTACCATGGTCCTGGGCTTCATGCTCCTGCTGCTGGCTGGGACAGCAGGGTCAG
Seq A exon
GTAAGATCAGCAGCATAGCTGCACCAACACTGGGGATGGTGGGCAGGGCTGAGCTTTGCACTGGGGACTATCAGCCAAGAAGGGCAGTTTGTTCCAAGCGTGGAGTGACCGGCAGGTCTGGGCAATGGGGATGCCCCATGGGGGTAGGGGGATGTTTTGGGGCTGGAGGTGTCAGGACACAGCTCCACATCAGTAACCACATCCCTACTGTGCACAG
Seq C2 exon
CCTGCAGGGCCCAGCCGGTGCTGACCCAGCCAGCTGCTGTTCAGGTGCTGCCTGGGGAGACTGCCCGTCTGTCCTGTGTCCTCAGCCCCCAGTACAACATCAGTGACTTCGGCATCACCTGGTACCAGCAGCGCCCAGGGCAGGCCCTAAGGTACCTGCTCTACTACAACACGGAGCGCGACAAGCACAAGTCCGCCAGGATTCCTGACCGCTTCTCTGCTACCAAAGACCTCGTCCACAACGCCTGCATCCTCATCATTGCAGTCGCCCAGGAGGAAGACAACGGTCGCTATTTCTGCTCACTGCCCCTCACCATCAACTGGCTGTAGAAGCGGGGAGCAAACCCAGCTGGCTCACCCCACGCAAAAATGGCGTGCTGCTCTCAGGAGACGGAATGGCAGCCGTGGAAAGAAGGGACAAGGCCTCCCTGCAGGCCGAGGCTCTGGCATGGTTTAATAATGGTAATAAATGTAATAAGTATAATAAATGTAATAAAGATTTGCCCTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021136:ENSGALT00000034016:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.009
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0768612=V-set=WD(100=94.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
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:
TGCTCCTGGATCCTACCATGG
R:
TGGACGAGGTCTTTGGTAGCA
Band lengths:
304-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]