HsaINT0024070 @ hg19
Intron Retention
Gene
ENSG00000138658 | C4orf21
Description
chromosome 4 open reading frame 21 [Source:HGNC Symbol;Acc:25654]
Coordinates
chr4:113530535-113533744:-
Coord C1 exon
chr4:113533680-113533744
Coord A exon
chr4:113530586-113533679
Coord C2 exon
chr4:113530535-113530585
Length
3094 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
ATTAATATTCTATTCCTAAGATA
3' ss Score
3.7
Exon sequences
Seq C1 exon
TGAGGAAACCATTTATTACAGTAGTTTCACCAAAGTCTCCTCATCTGCACAAGGATTCTCAACAG
Seq A exon
GTACAGGTTTTTTTTCTAAGAGTATGTTTTTTTTATTTTGATAAGAATGTTCTATAATTTGTAATAGAATTATAGTAATACAGTCCCAAGCTATCTTGGTTCATGACTCCTGCTGTATCTCAGTAATTTTTCATTGCCTTCCTCAGCCAAAAGAAATGCCTAACAGTTTCATTTATTATGTAGTTAATAGTATTAAGCAACTCAAGTATTTCCTAGTAACTTTGTAAGCATTTTGTTTGTTAAAAAACACAGTTACATGGCTGGACGTGGAGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCTGAGGCAGGCAGATCACTTGAGGTCAGGAATTCGAGACCAGCCTGGCTGATGTGGTGAAACCCCATCTCTACTAAAAACACAAAAATTAGCCAGGCATGGTGGCATGCACCTGTAATCTCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCCAGGAGGCGGAGGTTGCAGTGAGCCGAGATCATGCCATTGCACTCCAGCCTGGGCAACAAGAGTGAGACTCCATCTCAAAAAAAAAAAACAAAACCCCACAGTTACTAATGGAATGTGTACCTCTGTTGGGCACTATACAACTTCTCAAACCTTGGAATAGATTAGGTAACACCACCTTATTTCTTGTTACACGTTGATTTTCTCATGATAATTGCTTTTTATCACAGCAGTTTCTCAGAACCCAGCTTCACAAAGGTGCAATGTCATTGAAAGAAATGTAGCAAGATCTGATGTAGAAACAGACCTGGAGTTAGTAGTTCATTAGGTGTCAGACAGATGTCAGGTGACACTGTTACCCTACATATAAAACACCTTATGGAGCTCCTGTGAGTTCATTGTGCCACCTCAGGGTACCTTGTTGCACAGTTTGGGAACCATGGTAGTTATATAAAAAATAATAGTTCTAATTAGGATGAATTGAAATTCTAGGATAAATCATCTAGATGAGTGTTTCTCACTCAATGGGGATGCTGTTAGCACTTTTGGAGGGTCAGTTCTTTCATTATATGGCACTGGTCTTTCTACAGACATGTTTGGAACAAAAGAAAGTAGAATGTTTCACTTGCCTCCATTTTATTTTTGTTTTTATTTATTTTGAGATGGAGTCTCTCTCTTTCGCCCAGGCTGGAGTGCAGTGGCACGATCTTGGCTCACTGCAGCCTCCATCTCCCAGGTTCAAGTGATTCTCCTGCCCCAGCCTCCCAAGTAGCTGGGATTACAGGTGCGTGCCACCACACCCAGCTAATTTTTGTATTTTTAGTAGAGATGGAGTTTCACCATGTTGGCCAGGCTGGTCTCCAACTCCTGACCTCAAGTGATCCACCCGCCTCAGGCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCAGGCCCGGCCTCACTTGCCTCCATTTTATATCTTACTTTATTCTTTATGTTACTGGTCCTTTTTTTCCCCTTTTAATAATGTTGATTTTTTTTTCTTTTTTCTAAATACAGAAAACAGTGAAGAAAAAAATAAAACCTACCCTGCCTCTCAGAATATTTATTAATGTTTCCAGATTTTTTTGTGTCCAGTTAAAAAAAATGGTTAGATTGATGTATATAAATAGTTTTATATCCTTTCCCCTTAATATCGTTGTATTATCTTACATTATTAATAATTCTTCTTAAACATACTTTTTAAAAGTTATTTACCATCCATCCTATGGCTATCTTGTGCTTTGGACAAATAGTTCTCTGTTTTGGTCATTTAAATAATTTCCAGCATTTTGCTATTATAAGTAACACTTTAATAAATGTTTTTACACATAAATCATTGTTTGCATTTTAAGTTTTTTCCTTAGATTTGATTCCAGAAGTAGAAGTAATTATTTGGAAGGCTAGGAACAACTTTCTTTCTTGGGTTCTTGATATTTTCTTTTTTTTTTCTTTTCTTTCTTTTTTTTGAGACGGAGTCTTGCTCTATTGCCCAGGCTGGAGAGCAGTGGCATGATCTCGGCTTACTGCAGCCTCTGCCTCCTGGGTTCAAGCAATTCTCCTGCCTTAGCCTCCTGGGTAGCTGGGACCACAGGCTCACGCCACCATGTGTGGATAATTTTTGTATTTTTAGTAGAGATGGGGTTTCGCCATGTTTGCCAGGCTGGTCTCGAACTCCTGTCCTCAGGTAATCTGCCCACCTCGGCCTCCCAAAGTGCTGCGATTATAGGCATGAGCCTCCGTGCTTGGCCATGATATTTTCAAATATAAAAATTTTAATGTTTTACAATTAGAATATTTATTTTACTTCATTTTTACTAGTACCGTTGTAAGCTTTTTAAATTCTTGCTAAATGACAATACTGTTTTATCAGGATTTTACTTTTTATGTATGTATTTTTTTCTGAGACAGGTTATTGCTCTGTTGCCCAGGCTGGACTGCAGTAGCGTGATTGGCTCCTGCAGCCTTGACCTCCTGGGCTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCATGCCACCATACCTAACTAACTGTTACATTTTTTGTAGAGATGGGGTTTCACTATGTTCCCCAGCTGGTCTCAAACTCATGGGCTCAAGCAGTCTTCCAGCCCCAGCCTCTAAAGTGTTGGAATTACAGGTGTGAGCCACAATGCCTGGCCAGTTTTTATTTCATATTAGTGATGGTGTTCTAGTATTTCTTTTTTTTTTTTCTTCGTTTTGAGATGGAGTCTTGCTCTTGTCGCCCAGACTGGAGTGCAGTGGCGCAATCTTGGCCCACTGCAACCTCCTCCTCCCGGGTTCAAGTGATTCTCCTGCCTAAGCCTCCTGAGTAGCTGGGGTGTGCCACCACACCCGGCTAGTTTTTGTATTTTTTAGTAGAGACAGGGTTTCACCATGTTGGCCAGGGTGGTCTCGAACTCCTTACCTCAGGTGATCCGCCCACCTTGGCCTCCCAGAGTGCTGGGATTACAGGTGTGAGCCACCATGCCCAGCCCTAGTATTTCTTAAGTCTAATAGAAATTTATATTTTTGTTTTCTAAATTATTATTGCCTATTAGTTTATCTAAAATTAATATTCTATTCCTAAG
Seq C2 exon
ATACTAAAAGAAGATGAAGTTGAACTAAGTGAACCACTTCAGTCTGTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000138658-C4orf21:NM_018392:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.841 A=NA C2=0.790
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)