HsaINT0031228 @ hg19
Intron Retention
Gene
ENSG00000013725 | CD6
Description
CD6 molecule [Source:HGNC Symbol;Acc:1691]
Coordinates
chr11:60784951-60785485:+
Coord C1 exon
chr11:60784951-60785022
Coord A exon
chr11:60785023-60785230
Coord C2 exon
chr11:60785231-60785485
Length
208 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTCTCCCTTTCCTGCCTTAGGAC
3' ss Score
10.86
Exon sequences
Seq C1 exon
ATTCCCAGCGGCATCGGGTCACAGATGAGGAGGTCCAGCAAAGCAGGTTCCAGATGCCACCCTTGGAGGAAG
Seq A exon
GTGAGTCAGGATGGGAAGGGGTGTGAATGGCAGTCCCACCTCCAGAGAGTAGCTCAGCTCAGCTTGAGACCTTCCAGCAGGAACCTCCCTCAATGAGTCTTTCCTGACTTTCACAAATCCTATAGGCAGTAAGTGCTTTCTGAAGTCTGACTTAAAGCCCTCTTGCTGCACTGCTTCTTTCGTCACCATTCTCCCTTTCCTGCCTTAG
Seq C2 exon
GACTTGAAGAGTTGCATGCCTCCCACATCCCAACTGCCAACCCTGGACACTGCATTACAGACCCGCCATCCCTGGGCCCTCAGTATCACCCGAGGAGCAACAGTGAGTCGAGCACCTCTTCAGGGGAGGATTACTGCAATAGTCCCAAAAGCAAGCTGCCTCCATGGAACCCCCAGGTGTTTTCTTCAGAGAGGAGTTCCTTCCTGGAGCAGCCCCCAAACTTGGAGCTGGCCGGCACCCAGCCAGCCTTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000013725-CD6:NM_006725:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.913 A=NA C2=0.998
Domain overlap (PFAM):
C1:
PF151021=TMEM154=FE(20.9=100)
A:
NA
C2:
PF151021=TMEM154=PD(2.6=3.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GATGAGGAGGTCCAGCAAAGC
R:
CTGAAAAGGCTGGCTGGGTG
Band lengths:
304-512
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)