GgaINT0141187 @ galGal4
Intron Retention
Gene
ENSGALG00000023953 | CR2
Description
complement component (3d/Epstein Barr virus) receptor 2 [Source:HGNC Symbol;Acc:HGNC:2336]
Coordinates
chr26:2576519-2577293:+
Coord C1 exon
chr26:2576519-2576652
Coord A exon
chr26:2576653-2577104
Coord C2 exon
chr26:2577105-2577293
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
AGAAAAAGCATGCTGTGACATCTGCAACGTGGTCAGGATGAGGATGGTGTCAGCTCTGGGGTCAGCGAGACCAAGGGGCCGTGCTGCTGTCCTGGTGCTGCTCCTCACTGCTGCCCTGGTGGTGGGCACCCAGG
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:
AGAAAAAGCATGCTGTGACATCTG
R:
CAGAAGTTGCTCGATCCTTTCCA
Band lengths:
318-770
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]