BtaINT0048085 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020172 | DENND2D
Description
DENN/MADD domain containing 2D [Source:HGNC Symbol;Acc:HGNC:26192]
Coordinates
chr3:32321550-32322555:+
Coord C1 exon
chr3:32321550-32321803
Coord A exon
chr3:32321804-32322379
Coord C2 exon
chr3:32322380-32322555
Length
576 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
CCCTGCTGTCTTGATTTCAGGAC
3' ss Score
10.04
Exon sequences
Seq C1 exon
GCAGTCTTCTTGCTCAACCGTTGGGTGCACAGGATGGAAACAGCGCTCCCCTATTTGGAAGACAGCGCGTGGCTTGGCTGCATAGAGTCGTTGCTGGAGACTGAAACGGCAGGGGGTTTCTCAGGCTTTCTCTAGCCTGTCTGTATGGGAGGAAAGGGGGCACTTCATGCCTGACAGGCCCAAGAAGATGGAAAGACAAGCAGGAGGCGGGATCCTCAGTCGCTTCCGCAAACGACTGCCTCTACACCGAGCAG
Seq A exon
GTCTGGACTAGATTACCTACTTCCTTTTTTTCCAGGATGGCCCTCTTCGTTGGGGTTATTTCTTCCCCTTGAAATACTTCTTTTTCTTCTTCCTTTTATATCTCATCCTCCACTCGGTTCTCCCATGTGACCGAGCCGGGAGGTTTCCCCTGTTGGTTTTTAGAGCCGGTCATGCCCTCTGTGGGGGTTGGTGTGGTCACAGCCACGTGGCCCTTGGCCTGTTCTGATTGCCTGAGTCCAGGTTGACTTGGGGTGTGTATTGCTTCAGGTAGGCAGAATCTCTACTACCCTGGGGCTGCAGGCCTCCCAGGTAGCCTCCCCGGTACATTTCCTTGGCTTCTGAATCAGTGGTTTCTTTCCTTCTTTTGACTCCTGGTGATTCCACATGTTGCAGGCAGGCACAGAAACTGCCCATTTGGCTCTGAGCCCATGCTGGGATGTGAGGCGCTGGGCCGGCTCCGGGGACCTCGGCGTGGGCATGGCCGCCTGGAGGTGCGGAAGTTGCCAGAACCCCACAGCCTCCACTAGGACCCCAGATCAGTGAGATACCCATGGGCCCTGCTGTCTTGATTTCAG
Seq C2 exon
GACCTCCCCAGGAGAATCTGGGAGAAGTAGTGAAGGAACCAGAAAGAGCCCTGGAGCACTGTCTACCCAACTTTGCTGGAGGGCAGCACTTCTTTGAATACCTCCTCGTGGTTTCTCTCAAAAGAAAGCACTCAGGGGAAGATTATGAGCCCAGGATCATCTACCAGTTTCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020172:ENSBTAT00000026865:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.169
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0345613=uDENN=PU(12.7=15.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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:
GCAGTCTTCTTGCTCAACCGT
R:
TTCAAAGAAGTGCTGCCCTCC
Band lengths:
352-928
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]