HsaINT0117832 @ hg19
Intron Retention
Gene
ENSG00000122417 | ODF2L
Description
outer dense fiber of sperm tails 2-like [Source:HGNC Symbol;Acc:29225]
Coordinates
chr1:86820457-86822285:-
Coord C1 exon
chr1:86822127-86822285
Coord A exon
chr1:86820543-86822126
Coord C2 exon
chr1:86820457-86820542
Length
1584 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTCC
5' ss Score
3.16
3' ss Seq
AACTTTTTTTTTTCTTTTAGGTT
3' ss Score
12.2
Exon sequences
Seq C1 exon
ATGAGAGGCCAGATGGAGTCTCATCTGAAGGAGTTAGAGCGTGTCTGCGATTCCTTGACGGCGGCGGAACGGAGGCTTCACGAGTGTCAGGAGAGTCTGCAGTGCTGCAAGGGGAAGTGTGCAGACCAGGAACACACCATTAGGGAGCTTCAGGGCCAG
Seq A exon
GTGTCCAGCCGTCCTTCTGAGTTTTGCTAGATGCGTTAAAAGAATGCTTTGGAATGATTTCACCAGTTGAGGGCACTCATGTCAGGGCTTGATTTTTAAATTCCCATCTACTTAGTTCGTAAAACATCATTTTCATGCAGATACTATAATACAGTTTTGCAAGCTATTCTTTTAGTATTTTATGGTGAAAAATTGGTAATTAAAATTCTTATTTTAGTTTATTCATGCAAATCTATAGACATTTGAAGACATGGTAATAGAATGAGAGAAGGAGCAAAGTTATACTTACATATATGTTCCTTGATGTAAGGATAAGGTAAATTATTGAAACTTACATTACAAAAATTGAATTTATTTTAATTAGAATTGTACGTCAAGTTTTTTGGGATATTTTTCAGTCTGTTTCTTTTTCCTGTTTTACTTTTTATACCATCAGAATATGGATCATGTGTATCCTGTTAGTAGCCACATAGCCTTCTCCTAGCTCAATGCCTAGCACATAGTAAGCACTCAATATTTTTTTAATTAATGAAATTTTTTTTAAAGGAGCAGTCCAAAGATGGTGACAAGTCTTTTTTCTTTTACTTTCAAGGCAGTTTTAGGAAGCATTCCCTGTCTATCTTCCAAATATGATCTGGATTTTAATTTTGCAAAAAAAAATACTGCATTTTCTCACTTAAAAAGTAGGAGCTAAATGATGAGAACACGTGGACACATGGAGAAGAACAACACACAGTGGGGCCTTTCAGAGGGTGGAGAGTGGGAAGAGGGAGAGGATCAGAAAAAATAACTAACAGGTACTAGGCTTAATACTTGATTGATGAAATAATCTGTACAACAAACCCCCATGACACAAGCTGACCTGTGTAACAAACCTGCATTTGTACCCCTGAACTTAAAAGTTAGATAAAAATATGCAGACAAAATTTTAGTTTAAATTCCTGAGAAGAGATTTTTCTAGTAAAATGTCAAACGACATAGATTAGCCTAAATTACTAATTGAAATTATGAGAAAAAAATTTTTTCCTTGAATCAAAGCTTCTTACATTATTTAGAGCAGATTTTGAAGCAGTGGGAAGAATATTCTGTCTTGGCATGGGTGAGTGTGTCTTTGGTTGATTTGTTCACTTTGCTTCTCAAAAAAATATGTATTTTATTTACAGTTTCGACTTCACAGATACTCAATTATTAATCAGTATTTTTAGGTGAAACAGAAAACCATAAGAGAAACCCTAGGTATCCAAAAATAGGAGATTAATACTGCTTAAAATTTTCCTATTTCAACTTAACAAAATAAATATCTTTCTTCAATAAGGTGTTGTTCAAAGTGTTTTAATAGCCATCATCCTGAATTTTTTTTAGTTGGTTATTTTCCAATACAGGCAACATAACTTCTTTAAATTTAACCAGGAATTTAAAACTTCCATTTTAACAATATAACATTTTCTTGGTGTCTTTCTGTGTAAGAGTAGTAACATTTATACCTTCTCGTTGCTTGTGGTTGTTCTAACAATAAATTATATGGATTTCTTTGGAAGTTGATTGTGAAGAAAATGACTAAGAAAACTTTTTTTTTTCTTTTAG
Seq C2 exon
GTTGATGGAAATCACAATCTTCTGACAAAGCTTTCTCTGGAAGAGGAAAACTGTCTTATTCAGCTGAAGTGTGAAAACCTTCAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000122417-ODF2L:NM_001007022:14
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.160 A=NA C2=0.007
Domain overlap (PFAM):
C1:
PF0003816=Filament=FE(17.0=100),PF131661=AAA_13=FE(25.4=100),PF059116=DUF869=FE(22.5=100)
A:
NA
C2:
PF059116=DUF869=FE(19.2=100),PF127182=Tropomyosin_1=PU(8.9=37.9),PF041117=APG6=PU(16.9=79.3)
Main Inclusion Isoform:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGAGGCCAGATGGAGTCTCA
R:
TGAAGGTTTTCACACTTCAGCTGA
Band lengths:
240-1824
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)