BtaINT0050506 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018560 | DNAH3
Description
Bos taurus dynein, axonemal, heavy chain 3 (DNAH3), mRNA. [Source:RefSeq mRNA;Acc:NM_001099199]
Coordinates
chr25:19079361-19081417:-
Coord C1 exon
chr25:19081219-19081417
Coord A exon
chr25:19079470-19081218
Coord C2 exon
chr25:19079361-19079469
Length
1749 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
TCTTATTTTCTTCCCCTTAGGAC
3' ss Score
12.54
Exon sequences
Seq C1 exon
CTCGTGATGTGGTAGCCAAGTTATCTGAGGACAACGTCTGCGATCTGAACGATTTCCAGTGGATCTCCCAACTGCGCTACTACTGGGATTCCAAGGATGTACAGGTGCAGATGATTACTACAGAGGCCTTATACGGCTATGAGTACCTGGGAAACTCCCCCCGGCTGGTGATTACACCCCTCACTGACCGCTGCTACAG
Seq A exon
GTAAACTCTGGGCCTCCCCAGACCTGAAGGGTGAATAGAGAATTCCAAAAGGAAAATCTGAGAAAGAAGTTTGGAGCAGCTTGAGTTTGTTGTTACCTTTACCTTCTGTATTCTAGATCCTCAGATTTTAGAATTTTTACCTTAGTCAGTGTGGTCTCACAGATGGGCAATTTAGGCCTTAGAAATAAATGAGAACCCAGTAGAAGTCCTAATGCAAAGTATCGTGTTCAAATCAACAACTAGACTGTTAATGCCTATCCTTGAAAATGGCACAGTGCTTAAGAAAGAAAGCTCTCCAGTGGCAGGAATCAAGAAGGTGCCAGGAGATCCCATGGCCAAGAGATAGAACAGGGGCCAGGTAAAGGACCCAGGCAAGGAGTCTCTGAGCTCTGCCACCCAGTCTGATGAAGAGATTGGGCCATTCTATGCTCAGCAAATTGCTTTGCCACTTTCCTTGGAATTCATAACTTTAGAAACTTGGACTTTGTGAACTTGTCAATTTTGTGATGTTTAGATTTTTCTTTGATTTTATATATTGTTTGAGTGCAACTTTTAAATTATAAAGGTAGTACTTGGGTATTTTTTTTCTTTCAAAGTCCTCAGTCACTTGTTTTCTATGTTCTGTGACTTCTTCAGTCATTTATCTATTCTACTCACTATTCAACAACCATTTCTTGAACTTTACTGTGCATTATGTGTGACCTCCAGGAATCCTCAACCTAATGGGGTAGGGGAGAGAGACACACTCAGGTGATTATAAGAAAGTGTGTTAACTGAAACTATAGAAGCTCATACACGGGGCTGTGGAACCACAGTTGACATATCATTCATTCTAATATTTATCTTATGCCTCCCATATGGAACTGAACAATGGGTTCTGAACTCAAGAGTTCATAATCTAGTGGGAGAAATATATTTATTTTTCATCATTCCATTAGCATTGGTGATCTTTGGAATGCAGAGGGTTTTTCACTTTCATTTGATTCATTTAGTATCAGTTCAGTTCAGTCACTCAATCATGTCCAACTCTCTGCGACCCCATGGACTGCAGCACTCCAGGCTTCCCTGTCCATCACCAACTCCTGGAGCTTACTCAAACTCGAGTCCATCGAGTCGGTGATGCCATCCAACCATGTCATCCTTTGTCGTTCCCTTCTCCTTCTGCCTTCCATCTTTCCCAGCATCAGGGTCTTTTCTAGTGAGTCAGTTCTTCGCATCAGGTGGCCAAAATATTGTAGTTTCAGCTTCAGCATCAGTCCTTCCAATGAATATTCAGAACTGATTTCCTTTAGGATGGTGTGGTTGGATCTCCTTGCTGTTCAAGGGACTCTCAACAGTCTTCTCCAGAACCACAGTTCAAAATGATCAATTCTTCTGCGCTCAGCTTTCTTTATAGTCCAACTCTTATATCCATACATGACTACTGGAAAAACCATAGCTTTGACTAGATGGACCTTTGTTGACAAAGTAATGTCTCTACTTTTTAATATGCTGTCTAGGTTGTCATTTAATATGTATATATTCATTTATCCATTCAATCATTCATTCAAACAAATGCTTTTAGGTGCCACCCATACATACTCAGTTGTAACACTGAGTAAAATAGAATTTTTTGTGATGATGATGTATTGCCCATATAATCAGGGAAAATCATGTTTAATTATTTGAGTCAAAACAAAATAAACCGAAAGCCAGTTTGTTTCTTGTGTCTTAGGACATGGCATTGAATTCTTATTTTCTTCCCCTTAG
Seq C2 exon
GACACTGATGGGGGCTTTGAAGCTGAACCTTGGAGGAGCCCCAGAGGGTCCAGCTGGGACAGGCAAGACAGAAACCACCAAAGATCTGGCCAAAGCTTTGGCCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018560:ENSBTAT00000024702:29
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.216
Domain overlap (PFAM):
C1:
PF127742=AAA_6=PU(9.5=32.8)
A:
NA
C2:
PF127742=AAA_6=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGTGATGTGGTAGCCAAGT
R:
AGCTTTGGCCAGATCTTTGGT
Band lengths:
296-2045
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]