HsaINT0042886 @ hg19
Intron Retention
Gene
ENSG00000198561 | CTNND1
Description
catenin (cadherin-associated protein), delta 1 [Source:HGNC Symbol;Acc:2515]
Coordinates
chr11:57577581-57578958:+
Coord C1 exon
chr11:57577581-57577695
Coord A exon
chr11:57577696-57578870
Coord C2 exon
chr11:57578871-57578958
Length
1175 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAG
5' ss Score
8.73
3' ss Seq
GCATTTGTGTTTGCCTCTAGGTG
3' ss Score
11.91
Exon sequences
Seq C1 exon
GAACCGCTCAGAAAAAGAAGTTCGAGCAGCAGCACTTGTATTACAGACAATCTGGGGATATAAGGAACTGCGGAAGCCACTGGAAAAAGAAGGATGGAAGAAATCAGACTTTCAG
Seq A exon
GTATAGTAACTTTTGAGACCAAGACTTTTACTTTTTTTTTCTTGGTCCCAGGATAATGCTTCTGTTTTCTTTCGTTTCTTCCATTTCACCATCATGCTAAACCTATTTTTTTTTTCTTTTTCGGAGACAGAGTCTCACTCTGTTGCCCAGGCTAGAGTGAAGTGGCGCAATCTCGGCTCACTGCAACCTCTGCCTCCCGGGTTCAAGTGATTCTTGTGCCTCAGCCTCCCCAGTAGCTGGGACTACAGGCACATGCCACCATGCCCAGCTAATTTTTTATATTTTTAGCAGAGATGAGGTTTCACCATGTTGGCCAGGTTAATCTTGAACTCTGAGCTTAGGCAACCTGCCTCGGCCTCCCAAAGTGCTAGGATTACAGGCATGAGCCATCACACCTGGCCTCATGTTAAATCTATTTTTGACCCATATTTCTTAATTAGGAATTATTTGGCCAGGTGTGGTGGCTCACACCTGTAATTCCAACACTTTGGGAGGCTGAGGCAGGTGGATTGCCTGAGCCTAGGAGTGTGAGACCAGCCTGGGAAACATGGCGAAACCCATCTCTACCAAAAATAAAAATAAAAGTAGCCAGGCGTGGTGTTGTTTGCCAGTAGTCCGAGCAACTCAGGAGGCTGAGGTGGGAGGATTGCTTGAGCCCAGGAGGTAGAGGTTGCAGTGAGCCGACATCACACTGCTGCACTCCAGCCTGGGCAACATAGCTAAACCCTGTCTCAAAAAAAAAAGAAAAAAAAAAAGATTTGGTTTACTCCTCAAAAGGATGATGTGTCTACAATTCATTTGTTGCCGACACAGCTCAGGTATCCCTCTATGTCATAACATACTTTAGGTGCAGGTGATGATGAAGGATGATGGCCTTTTTGACTTTTGCCCAAATCTACCGTAGCCCTTTGAGGGAATTTTTACTATTCTCTGAAACTGTATTTTCTTCTGATAGTGTCAATATTTGGATCCTTTGTAATCTCCTGTTCTGGAACACAAATAGAAGCCATAATATCCTAGTTTGTCTCACTGTCTAGGGTATTTATTCAACTCTTATAAGTTGCTTTTTCATGATTCTATTTGGGAATAGGAACCTAGAGGTTTATGCCCATTAGAGCATAAGATAGGGTGAATTCAGTATTCTGTCACATTGTCGCATTTGTGTTTGCCTCTAG
Seq C2 exon
GTGAATCTAAACAATGCTTCCCGAAGCCAGAGCAGTCATTCATATGATGATAGTACTCTCCCTCTCATTGACCGGAACCAAAAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198561-CTNND1:NM_001085462:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.100 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
ENSP00000351527, ENSP00000353902, ENSP00000354785, ENSP00000354823, ENSP00000354907, ENSP00000381996, ENSP00000403518, ENSP00000409930, ENSP00000413586, ENSP00000431208, ENSP00000432041, ENSP00000432075, ENSP00000432243, ENSP00000432623, ENSP00000433158, ENSP00000433276, ENSP00000433334, ENSP00000434017, ENSP00000434672, ENSP00000434808, ENSP00000434900, ENSP00000434949, ENSP00000435266, ENSP00000435379, ENSP00000435494, ENSP00000435789, ENSP00000436323, ENSP00000436543, ENSP00000436744, ENSP00000437051, ENSP00000437156, ENSP00000437327
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACCGCTCAGAAAAAGAAGTTCG
R:
TTTTGGTTCCGGTCAATGAGAGG
Band lengths:
198-1373
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)