GgaINT0141187 @ galGal3
Intron Retention
Gene
ENSGALG00000023953 | C4BPA
Description
NA
Coordinates
chr26:2446262-2447044:+
Coord C1 exon
chr26:2446262-2446403
Coord A exon
chr26:2446404-2446855
Coord C2 exon
chr26:2446856-2447044
Length
452 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGC
5' ss Score
9.04
3' ss Seq
GATGGTGTTTCTGTCGGTAGGTG
3' ss Score
8.13
Exon sequences
Seq C1 exon
TTTGGTGTAGAAAAAGCATGCTGTGACATCTGCAACGTGGTCAGGATGAGGATGGTGTCAGCTCTGGGGTCAGCGAGACCAAGGGGCCGTGCTGCTGTCCTGGTGCTGCTCCTCACTGCTGCCCTGGTGGTGGGCACCCAGG
Seq A exon
GTAAGCAAACATGAAGGGAGTGAGCTGAGCTGGGGTCCCCCCAAGGGGAAACTCCTTCCTGAGCTTCACAAAACCTTGATCCTGTTTTCCTCTTTGTATTTGAAGAGCCTTGTGAATCTGGTCACAACCACCTTCCTTTGCCTTTTTGCTTTCTGTGCAGAATGGCTTTGAAATTATTCTAGGTAAAAAAGGTGCACTGACTTGTGTGCTACTTGAGGATAAGGAAGCTGTTGGTCTAGGCTGTGTCACCACCCTTAGAAAGTGCTGGATATGAGGTGTGAGGAGTGAAGAGTGATACATGGGGTGATGCCCATCCCCACCACATGCTGCAGTCTGCCCTTCTCCCCTTTGCTTCCCTCTTCATTGAGCTTTACGGACTGGACTTTCAGAGCAAGCCACCCTCAAACCTGCAGTTTTCCCCAGCATTGTCCTGATGGTGTTTCTGTCGGTAG
Seq C2 exon
GTGCCTGCAGTGCTCCGCCACGGTTCTCATTTGCAGAACTGAAGGAGGGCTACCTTCACAACAGGACGTTTTCCACCTCTGATGTGGTGGAATACAACTGTCGGCCGGGCTACATGAGAAATACCATGGCCCGGAACACTTTCATTTGTGAAAAGAACAGGTGGAAAGGATCGAGCAACTTCTGCTTAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023953:ENSGALT00000040338:1
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008415=Sushi=WD(100=93.8)
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
Mouse
(mm10)
No conservation detected
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:
TTTGGTGTAGAAAAAGCATGCTGTG
R:
CAGAAGTTGCTCGATCCTTTCCA
Band lengths:
326-778
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]