GgaINT0141192 @ galGal4
Intron Retention
Gene
ENSGALG00000023953 | CR2
Description
complement component (3d/Epstein Barr virus) receptor 2 [Source:HGNC Symbol;Acc:HGNC:2336]
Coordinates
chr26:2579593-2580495:+
Coord C1 exon
chr26:2579593-2579775
Coord A exon
chr26:2579776-2580306
Coord C2 exon
chr26:2580307-2580495
Length
531 bp
Sequences
Splice sites
5' ss Seq
GCAGTGAGT
5' ss Score
7.39
3' ss Seq
AGTGTTGATTTTACCCGCAGGCA
3' ss Score
8.75
Exon sequences
Seq C1 exon
AGGTGAGCTGCAGGGAGCCCCATGTGGAGCACGGCAGGCTGCAGAGCAGGTACAGAGCTGAGTACACCTACGGCGACACCATCATCTTCGACTGTGAATTCCGCTACGCGCTGCTGGGCAGCGACACGGCCACGTGCCAGGAGGATGGCAGCTGGGATCCACCACCACCACAATGCCAGCGCA
Seq A exon
GTGAGTGCCCGCAGGGACACAATCCGAGCCGTGGCTGCGGGGCTCATGGGCTGTATTCTGTTGTTTTTGCCTCTTGCACCACTGTGGCCTGCGCTTTTGTTTCCCAGCAGCTTGCTGGGGATGATGTAGGTGTGGGACTTGATGACTTCGGGCCTCGTAGCTGAAGTCTTGTTCCAAGACCCAAACTTGATGAGCATTTATTGATGGAATTCAGAGGGACTAAACTGACCTTTCTATGCTCAGTACTTTTAAAGGTCATTGGTAGATTAGGACAGAGAGTATTGACTTGGTTAGTAATTGCATGTCATTGCAACGAGTTAGTGTAAATCACCGTACACTGTAATAATAGATAATGCATTTCCTTTTATTTCCATTGCATTTACTCTTCAGTATCACTGAACTCAGACAATTGCCTTAAGTGAACCTCAGGAAGAATCACACGAGCCCATGTTTTCCCCTCACGTTGCGTGCTGTCCTGCACCTCACTGCTTTCTCATTGGCCATGTCATGGAGTGTTGATTTTACCCGCAG
Seq C2 exon
GCAGCTGTGATGACCCTCCTGACGTGCAGAATGCTGTTAAAGCAAGACTTGCGGGCAATTTATTTCCTATTGAGACTGTCATCACTTATGAGTGCAAGACGGGCTATGAGTTCAGCCCTGGAGTAGTGATGGAACACATCAGTTGTCAGCCAGACTATACATGGACTGAAGTTCCACCGCCCTGTAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023953:ENSGALT00000040338:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.177 A=NA C2=0.062
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=90.3)
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:
CATGTGGAGCACGGCAGG
R:
TTTACAGGGCGGTGGAACTTC
Band lengths:
351-882
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]