GgaINT0140916 @ galGal4
Intron Retention
Gene
ENSGALG00000001175 | C4BPA
Description
complement component 4 binding protein, alpha chain precursor [Source:RefSeq peptide;Acc:NP_989995]
Coordinates
chr26:2634205-2634743:+
Coord C1 exon
chr26:2634205-2634396
Coord A exon
chr26:2634397-2634716
Coord C2 exon
chr26:2634717-2634743
Length
320 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
CTCATTTACTCTGTTTTTAGGTG
3' ss Score
10.34
Exon sequences
Seq C1 exon
GTGATTCTGAACCTTCTGATTTCTCTCCAGTCATTAGCCATGGTAGAATAATTGAAGGAAAAAAATCTGTATATTCCGAAGGGGATTCGATTACAATTGAATGTTATGCAGGCTACACATTACATGGTGCAGCTCGTATTGAGTATATTGGAGGAGGCAGATGGACTCCAGAAGTGCCAGTTTGCAAGTTAA
Seq A exon
GTAAGTATGAACTGCAAGAATTTCCAATAGAATAAGAATACATATAGATATTTGCTTCCTGGGGACATACTTTTATATTCAGAAGTCATTTATTGCAAACTTCTATCTTTATTTTGGCATAAGAAAGATAGATTTGGGTAAACATCCTTTTAAGAATTGGCATACTTAAGTTAACTAAAAGTTGCCATGCAAAACTGACGTGCTGCAAGGCTCATCTTGACAAGTGTTTGATTCATTTGAAACACCCTCACGAGTACTTGTATAGTATGTTTGAATTAGAAGCATGCATTCCTCATAATACTCATTTACTCTGTTTTTAG
Seq C2 exon
GTGCTTATATTATTGCCATCATCTGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001175:ENSGALT00000046167:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=95.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
TTCTGAACCTTCTGATTTCTCTCCA
R:
ACAGATGATGGCAATAATATAAGCAC
Band lengths:
214-534
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]