GgaINT0140912 @ galGal3
Intron Retention
Gene
ENSGALG00000001175 | C4BPA
Description
NA
Coordinates
chr26:2500680-2501326:+
Coord C1 exon
chr26:2500680-2500765
Coord A exon
chr26:2500766-2501119
Coord C2 exon
chr26:2501120-2501326
Length
354 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
ACTTTATGACTTTGTCCTAGGAG
3' ss Score
7.2
Exon sequences
Seq C1 exon
GTACAGGTTACATGGAAATCGTCAGATTTCCTGTGTAATTCAAGGTAAAGTTGTTGACTGGAATGGACCTCTTCCTTTATGTGATA
Seq A exon
GTAAGTAAAACACTGTTGTATTTATGCTTTCTACTCGGACTGTGGTGGCTTATTTTATCATCTAGCTGTGTGCTGTACATTCACTAGTGAAGGAAATGATGGTAAAATAGGGCAGCTCTTAAAATCTTTATCTTGAGCTATTGGGGATGTGCCTGAGGAATCAGCTATTGTGGTAATAAGTTAATAGCTGTTAAAGTCTACCTATTCTTGTTACAAATGACTGCAGGTCTTCCTCAGTTATAGTTAAGACAAGTTACAGCTCTGTGTCAGATTTTAAGTGCGGTGGCTTGAAAATCAAAGCTCTTTGCTTAGGGGAACAAAATTCTGTTAGCTAACTTTATGACTTTGTCCTAG
Seq C2 exon
GAGTTCCTTGTAAGCCACCTCCAAGTATAGCCAATGGGCGCTACACTGAAGCAGACAACTATGTTTATCAAACAACAGTAACCTATAGTTGTGACAATGTGCGCGCAGGAGAAAATCCCTTCTCGCTGGTTGGTTCACCTTCTATTTTCTGCACAGTTGATGAAAACTCAAATGGTGTTTGGAGTGGACCGCCTCCACAGTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001175:ENSGALT00000001781:4
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=PD(47.4=90.0)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.9)
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:
ACAGGTTACATGGAAATCGTCAGA
R:
CTTTACACTGTGGAGGCGGTC
Band lengths:
291-645
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]