BtaINT0105372 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012907 | ODF2L
Description
Bos taurus outer dense fiber of sperm tails 2-like (ODF2L), mRNA. [Source:RefSeq mRNA;Acc:NM_001075993]
Coordinates
chr3:57825946-57828082:+
Coord C1 exon
chr3:57825946-57826114
Coord A exon
chr3:57826115-57827949
Coord C2 exon
chr3:57827950-57828082
Length
1835 bp
Sequences
Splice sites
5' ss Seq
CTGGTATTC
5' ss Score
1.5
3' ss Seq
TAAATTTTCTTTGTGCATAGCCT
3' ss Score
6.43
Exon sequences
Seq C1 exon
GTTTCAGCTTATGTGGAGAACTTGCTGTGGAAGCCACCGATAAATCCATTTAATTTATGGAGGAGACTGCAAATGATGGAAGTCATTCAGAAGAACTCTTTTCCCATTTTGAAAGTAGATCAGAGAAAGAAGGTTTACCACAGGATGCCAGTGAAAGTCATCTCAGCTG
Seq A exon
GTATTCTCAACAATAGCAGGGGATAACTTAATTTTCTTGATTTCAGGGTTTCGTATTTTGTCCATATTGTAAACTATTTCAAATGTAGCATTCTTTCAAGAATATCATCTAACAGTCTAGTAATTAATATTTAATTTGATTACAAAGTACTCATGTAGCAGAATGTGGCTGTTTTAAAATTTTAATGACAGCAATTAAAATTGAAAACATTACCTATAAAAATTTATAAAGTATATACCTTTTTACCTAAGATAAATGAAAATATAAATACCATGTAATATTGGAAATATAGTTAATGAGTACTAATTCACTGTCATTTGGTATATTGCTATCTAAAAGATACCTGTCATACTTTGCTTCTTTGGTATGGGGATGCACTTGTTTTTTGTATGACTCATTGCTCCCCAAAGTGACAATCTTAAAATACTGTGATTGTTGCTATGGATGATATAGTGCAGCTTTTAGTTATAAATGAAAATAATGTTTGGTCATATATAATTATTTTTGATTTTCTGTACATGGTTTTTAATAATGATAATTGTCTTTTATAGCGAGCATCTTCCTTAGGCCCATCATTTGAAGCCAGTGGTGCTTAAGAATACAATGTATTTCGTAGAGACATAGCCTCTAAGATGCCTTTCATTGTTGTTGAGCCATTATATTATGTTCCATAGAAGAAAAGTGGTGTCAATTAAAGAAAGACACAGTGCTTTCTTGTAATGCTTGGAATTTTATTTATAAATACTGTAAAAGCCTCTTCAAACTTATACATAGATTTTTGTCCAAATGACTCTGCTCATATAAAGATTAAATGAAATAAATTAGTGAAAGTATTCTTAAAGCTTCTTTATACTCAAAATCCAACTTCTTTGAGTCACTTTTTAACTCAGAGTTCTCTCTGCTATTAGGAGTATTAGTGAAAGGGTATTTCTTAGGTGCATCTATATCTGAAATGAAAATTATTGGTGATGGGCTCTTACTTACAGTATACAGAAAGCCTACCTTGGAATCTTGCTTCCAGAATGTTGCTTAACATTCTTACTTTAACAACTCCTTCAAGCCCTCTATGTGATGCTTCTTTGCTAGAGGTTTAAAAATTGCTGTATCCCATCTCTGGGATATTCCTCATACTATTTGATGCTCATTCTATAAGTTTTGGACATGTACAGGAGAGACAGCTCAAGACGGCTTCCAGACTGACAAAGATTATTAAGAAGCATCCCTATTTTGGGATGTAAAAGTATGAACTTCTTGTCTCCCCCCAGAAATGTATTTTATAGTGAAAGCAAATATAATCAGTTTCATTTTAAATGATAATGTTTTATAAAACCAAATGTGAAGAATTTTTAGGTGTCTGGAGCAGTGTTTTTTGTGTTTCATTTGTTTAGCTTACACATTCTTCTGGAGGGATTTTTTTGTGAAGAACAATAGATTTCAAGAAAGGATTGGGAATAAGGGCTAGAAAGTCAGATCTTTTGTTTTTGGACTAGGGAGAAGGGAGGGAAGAAAAAAAAGACACACATTCACATAAATCATTTTACAAACTGGAGAAGAGATGTTGAATAATTACCGAATAGTAGAGTGATATATTGCTGTTGGTAGTCTTCATATTTTATATATCTTAACATTTTAGAAACTGTCTTACCATTTATAGTTAAGTGTAGAAAAAATACGGAAGTATAGAAAAAATGTATACATTTTCAGTGACAATTTAGTGTTAAATTTTGCAGAGCAATTTATGGAACTGTAATACTTAATCAGGCTATGCTTAGTTTGCACAAAAAAGTAAAACAAATTTATGTAACAGTTTTAACTTAAATTTTCTTTGTGCATAG
Seq C2 exon
CCTAAAGCAGGACATCCAAAATGAGAAGACCGAATTGGAAGCATTGTTTAAGGAAGCCGAGTTAGCAACTTGTTCTGCAGAATTACTTCTGCCATTGTTTAAGGACACCATTGAAGAGATTAGTTTTGAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012907:ENSBTAT00000017157:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.947 A=NA C2=0.044
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
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:
TCAGCTTATGTGGAGAACTTGCT
R:
CAAAACTAATCTCTTCAATGGTGTCC
Band lengths:
294-2129
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]