HsaINT0117819 @ hg19
Intron Retention
Gene
ENSG00000136811 | ODF2
Description
outer dense fiber of sperm tails 2 [Source:HGNC Symbol;Acc:8114]
Coordinates
chr9:131261280-131263239:+
Coord C1 exon
chr9:131261280-131261405
Coord A exon
chr9:131261406-131262345
Coord C2 exon
chr9:131262346-131263239
Length
940 bp
Sequences
Splice sites
5' ss Seq
GATGTGAGT
5' ss Score
7.77
3' ss Seq
GCTCTGTTTCTCCTCGTTAGGCG
3' ss Score
6.86
Exon sequences
Seq C1 exon
GTGGAACAAACCAAGGAGCACGCACTCTCCAAGGAGCGAGCAGCCCAGAACAAAATCCTGGACCTTGAGACCCAGCTGAGCAGAACCAAAACGGAATTGAGCCAGCTGCGGCGGAGCCGTGATGAT
Seq A exon
GTGAGTCAGGCTGGTGGGCCGGGCTAGGAGAGTGGGCAGCAGACCTAGCTTCTGTGGGGCCTGTGGGCCAAGGTGTTTTGTTGTTACTGTTTTTGTGAATATGACATGGTTTTATTTTTCTCCAATCACTTTCTATCCCTTAAGGATATCCTGGGTAGATATTTATTTATTTATTTAGAGACGGAGTCTCCCTGTGTCACCCAGGCTGGAATGCAGTGGTACGATCTCAGCTCACTGCAACCTCTGCCTCCTGGTTTCATATGATCCCCACCCCACCCTCAGCCTCCCAAGTAGCTGGGATTACAAGTATGTGCCACCATCCCTGGCTACTTTTTTGTGTGTATTTTTAGTAGAGATGGGGTTTCGCCATGTTGGCCAGGCTGGTCTTCAACTCGTGATCTCAAATGATCTGCCCATCATGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACTGCACCCAGACTCACGTTTTGTTTTGTTTTGTTTTGTTTTGTTTTAGACAGAGTTTCATTCTGTCACCCAGGCTACAGTGCAGTGGTGCTGTCATAGCTCACTGCAGCTTCAAACTCCTGGGGTCAAGTAGTCCTCCCACCCCAGCCTCCTGAGCAGCTAGGACTACAGGCGCACACCATCACACCCAGCTAATTTTTGTATTTTTTGTAGAGATAGAGTCTCACTATGTTGCCCATGCTGGTCTTGAACTCCTAGGCTCCAGTGATCATTCCGTCCTGACCTCCCGAAGTGTTGGGATTATAGGCATGAGCCACTGTGCCTGGTCTTAGAATATTTTCAGAAAGAAACCCCATACCCATTAGAAGTCACTCCACACTCGCCTCCCCAAACCTCCTGGCAACTCCTAAGAAAGTCCCTATGTCTCTATGGATTTCTATTTTGGACACTGCACAGCGGGCCCATGCTCTGTTTCTCCTCGTTAG
Seq C2 exon
GCGGACCGCCGCTACCAGAGCCGGCTGCAAGACCTGAAAGATCGCCTGGAGCAGTCCGAGAGCACCAACCGCAGCATGCAGAACTACGTCCAGTTCCTCAAATCATCATACGCCAACGTGTTTGGGGATGGTCCCTATTCCACCTTCCTGACTAGCTCTCCCATCCGCTCCCGATCTCCTCCTGCCTGAGGCCACTTATCAGGGCCTGGAGCCCTGATGGAAGCCATAGGAACTCCAGAGTTGCCAAGCCATAGCTGAGAAGCCTGGTGGTTTTCCTCTCCCAGTGAAAAAATGGGTTCAGGGTCTTGTCCTTAGCTACTAGCTCTAGAAAAGTCCCAAAAGCAGCAGAAGGTGAAGCAGGAAGCACTTGGTTTTCTCCTTCCTGATATAGTCACCTGTTGGAAGTGTTAAAATTTCCTCGACAGGCCTTAAATTTACTACTACATTAGGGTACCACATTTTAACTTACCATGACTTTGCTCCTTCCTTTCCTGAGAAAATATTTCCACTGGATTTTTTCCACCAGTCCCCTTACAGCCCTCATTGTTTTAGGAATCTCTCTCAGGTTTTTTCTGACCTAAACCAGCAGGAAGTCGTCCTGGGCTGTAAGCACCATCACTTGCTTTTTTTTTTTTTCTGATTTCACAAGTGTGGTGTTTTCCCAAGGCTCCCTTCCCAAGCTCAGTGCAAACCTCTCACTCCCAAGTTTCTTTGAGGCCACTTGCCCCCAAGCACTTCACAATAGACCCTCGAGGGCTTGTGTCCATTTGGCCTTTTACAAGTGTAATGCCAATTTCATTGATTTTTGTTTCTTTTGGCCTGATTTGTATCTCTGGAATGCATTTATTCTTGAAATATTTGTGTGATTTTACAAAAAGCTTTTGTAATCAGTTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136811-ODF2:NM_002540:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.740 A=NA C2=0.694
Domain overlap (PFAM):
C1:
PF047688=DUF619=PU(34.6=66.7)
A:
NA
C2:
PF047688=DUF619=PD(63.0=81.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATCCTGGACCTTGAGACCCAG
R:
ACTGGGAGAGGAAAACCACCA
Band lengths:
357-1297
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)