HsaINT0031209 @ hg38
Intron Retention
Gene
ENSG00000196352 | CD55
Description
CD55 molecule (Cromer blood group) [Source:HGNC Symbol;Acc:HGNC:2665]
Coordinates
chr1:207336693-207337409:+
Coord C1 exon
chr1:207336693-207336818
Coord A exon
chr1:207336819-207337328
Coord C2 exon
chr1:207337329-207337409
Length
510 bp
Sequences
Splice sites
5' ss Seq
AAGGTACAG
5' ss Score
8.04
3' ss Seq
CCCTTCTGCTCATATTACAGCAA
3' ss Score
7.67
Exon sequences
Seq C1 exon
GAAAATCTCTAACTTCCAAGGTCCCACCAACAGTTCAGAAACCTACCACAGTAAATGTTCCAACTACAGAAGTCTCACCAACTTCTCAGAAAACCACCACAAAAACCACCACACCAAATGCTCAAG
Seq A exon
GTACAGAGACTCCATCAGTTCTTCAAAAACACACCACAGAAAATGTTTCAGCTACAAGAACCCCACCAACTCCTCAGAAACCCACCACAGTAAATGTCCCAGCTACAATAGTCACACCAACACCTTAGAAACCCACCACAATAAATGTTCCAGCTACAGGAGTCTCATCAACACCTCAAAGACACACCATAGTAAATGTTTCAGCTACAGGAACCCTACCAACTCTTCAGAAACCCACCAGAGCAAATGATTCAGCCACCAAATCCCCAGCAGCAGCTCAGACATCTTTCATATCAAAAACCCTATCTACAAAGACCCCTTCTGCAGCTCAGAATCCCATGATGACAAATGCTTCTGCTACACAGGCCACACTAACAGCCCAAAAATTCACCACAGCAAAAGTTGCATTTACGCAGAGTCCTTCAGCAGCACGTAAGTCCACTAATGTACATTCCCCAGTGACTAATGGTCTCAAGAGTACACAAAGATTCCCTTCTGCTCATATTACAG
Seq C2 exon
CAACACGGAGTACACCTGTTTCCAGGACAACCAAGCATTTTCATGAAACAACCCCAAATAAAGGAAGTGGAACCACTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000196352:ENST00000367064:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.999 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCTAACTTCCAAGGTCCCACC
R:
AGTGGTTCCACTTCCTTTATTTGGG
Band lengths:
198-708
Functional annotations
There are 1 annotated functions for this event
PMID: 16503113
Transfection of isoform vDAF1, 2, and 3 cDNAs into CHO cells showed that these molecules are soluble forms secreted after glycosylation. Isoform vDAF4 and vDAF5 cDNAs included a part of and the entire intron 7 (HsaINT0031209) sequence, respectively, and the transfection of vDAF4 cDNA produced a large, glycosylated, membrane-bound form. vDAF4 has an Alt5 extending exon 7 nearly the entirety of intron 7 and/or it's an exitron of intron 7 retention.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development