HsaINT0031234 @ hg19
Intron Retention
Gene
ENSG00000013725 | CD6
Description
CD6 molecule [Source:HGNC Symbol;Acc:1691]
Coordinates
chr11:60777044-60778607:+
Coord C1 exon
chr11:60777044-60777346
Coord A exon
chr11:60777347-60778541
Coord C2 exon
chr11:60778542-60778607
Length
1195 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCC
5' ss Score
8.63
3' ss Seq
TGGGCGGTGCTTTCTGACAGCTT
3' ss Score
6.35
Exon sequences
Seq C1 exon
AGCACCAGTCCTGGCGCCTGACAGGGGGCGCTGACCGCTGCGAGGGGCAGGTGGAGGTACACTTCCGAGGGGTCTGGAACACAGTGTGTGACAGTGAGTGGTACCCATCGGAGGCCAAGGTGCTCTGCCAGTCCTTGGGCTGTGGAACTGCGGTTGAGAGGCCCAAGGGGCTGCCCCACTCCTTGTCCGGCAGGATGTACTACTCATGCAATGGGGAGGAGCTCACCCTCTCCAACTGCTCCTGGCGGTTCAACAACTCCAACCTCTGCAGCCAGTCGCTGGCAGCCAGGGTCCTCTGCTCAG
Seq A exon
GTACCCCATCCTACTCCACCCCCCCAGATTTGAGCCAGAATTCTACCTGAATCCATGTCCTAAAAACTTACAGTCCAAGGACCACAATAGGCACCAGATCGGCAATGGCACATATGGCATAAGAAGGACTGTTGTCCTTACGGTGCCCAGGCAGACAGTGCTAATTCATCGAGGTATTTTCAGATGCTCCACTCAGCCCCAGAATGATGAATCATATATGAAGACATTATATGCTAAGCAATGGTTCCTCTTGACTGGGATTGACTCAAGAGTTGACACCAATTTGCCATCCCAGGCCTGGTGATGATAGTAAAAATAATATTAGCAGGCCCTAGTAATAATATCGGTGACAGCTTCTGGAACCCTGATCATATGCTAGGCATTGTTAAGCACTAAGTAGCTCTTATTTCAGCTGAGCCTCATACCCACTCTATGAGTTGGGTTCCACCATATCTCGCCAAATCTAAGATGGCATTGTTTATGTCACACCATTATTATTTTATGTACCATAAAGAAGAACGAACACTGCCAAAATAAACCACCAAACGTAATGACTGAGGCCATTATCCCAATTTCAGACGTGTTAAAGTTTGAAAAAACGTGAGTGTTAGATAGATCTGAAGAAACATGGTATTTGCATTCTTACGGCATTCAGACACCAGATTACAAATTCCAGCTCTGCCATTTACGAGCAAGGAGGCTTCCGACAGTCCCTTAACCTCCATGTGTGGATGCTGATACTAGGCACTTCGCAGGATAGCTGGGAAACCTGATAGTATCTGCTGAGGGACTTCTAAGCTCATTTCTTTGTGAGCCTACCTGCCCAACGGGAATGCCGATTATGATAATGAAGATAATGTCCGCTCTTCATCTCCCTAGGCTGATTAAGAACAAACTGAAACTGAATGGAAAACGGATTTGTGGTCTGTAGCAGCTTACACAGAAAGAAGGGATAATTCTATTAGCCCTTTATTTTAACCAAAGAGCCTTCCCAGCATTTAATCCATGAGTTCCTCCTTACTGTGGGGGGTGGGGTAGGGGAGGGAGGTAAGTTTCCTTAGCCACGTGTCCCTGATGGGAGCACAACCCTAGTTCTGGGTCACTTGTCTGTCCCATTCAGTTTCTAACCCAAGGCCTGGCACACAGTAGGTGCTCAGTAACATGCATTGAGTGACTGGGCGGTGCTTTCTGACAG
Seq C2 exon
CTTCCCGGAGTTTGCACAATCTGTCCACTCCCGAAGTCCCTGCAAGTGTTCAGACAGTCACTATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000013725-CD6:NM_006725:5
Average complexity
IR-S
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:
PF0053013=SRCR=WD(100=92.2),PF151021=TMEM154=PU(19.4=17.6)
A:
NA
C2:
PF151021=TMEM154=FE(23.7=100)
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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTCCTGGCGCCTGACA
R:
TGAACACTTGCAGGGACTTCG
Band lengths:
350-1545
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)