BtaINT0049785 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017409 | DLX3
Description
Bos taurus distal-less homeobox 3 (DLX3), mRNA. [Source:RefSeq mRNA;Acc:NM_001081622]
Coordinates
chr19:37294970-37296728:+
Coord C1 exon
chr19:37294970-37295503
Coord A exon
chr19:37295504-37296537
Coord C2 exon
chr19:37296538-37296728
Length
1034 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TCCCGGTGCGTTGCCTGCAGTGT
3' ss Score
7.57
Exon sequences
Seq C1 exon
GACGCGACGAGAGGCGCGCCGCGACCGCCCGAAGACCCGCGATGGTCTAAGCGCCCCTCGACCGACCCTCCCCAGAGACGCTGCCGGGAACCCTCCCCCTCGCCCTCCGGACACACAACCCCGCCTCGTCTCCTCCGCCTCCCCCGAGCTCCTGCCCGCTTCGGCGTTCCGGCTGAGGCCAGCCCGGGGGTGGTACGGCGCCCGCCAGGATGAGTGGCTCCTTCGATCGCAAGCTCAGCAGCATCCTCACCGACATCTCCAGCTCGCTCAGCTGCCATGCGGGTTCCAAGGACTCGCCCACCTTGCCCGAGTCTTCCGTCACTGACCTGGGCTACTACAGCGCTCCCCAGCACGACTACTACTCGGGCCAGCCCTATGGCCAGACCGTAAACCCCTACACCTACCACCACCAGTTCAATCTCAACGGGCTTGGAGGCACAGGCGCTTATTCGCCCAAGTCGGAATATACCTACGGAACCTCCTACCGGCAATATGGAGCCTACCGGGAGCAGCCGCTGCCCGCTCAGGACCCAG
Seq A exon
GTGAGGACCGCGGGGTCGCTGAGAATGGGAGGCACTGGGAGGTTCCCGAGAGAGAGGAATTGGAGCCAGAATCTAGGGGAGCGTCCCGGCTAAGAAATGTACTGTCTGAAGTTAGAGACGGTGAGCTAGATGACCCCAGAGTGGACGGACGACCTTCCAGTCCAGAAACTGGTCGCCTTTGGGGCGTGGTGCACGCGGGACGCCGCGGTCGGTCCCGGGTGAGGATCCGGGTGAGCGAGGCGGAGAAGGAGAGGGCCCTGGACAGTCAGAGAGCCTCCGGATCCAGGTGCTTTCCCGGCACTTCAGCAAGCGGTTCTCCATCGGGCTCCGGGCAGGCGGCAGGCGCTGGGAGTTCTGCGACCGCAGTTTGGAACTGGGCTGGGGAGGGGGAGAAAGATGAGGGGGACACGGAGAAAGACCCCTCAGAATTCCGGAAACAGGGAGGGAAGCAGCAATTGAGAGTGAAGAAACGGGGGCAAAAAGAAAAATGGAGGCATAAAAATATGTTTTTATAAAATATAAAATATTTTTATTTATAAAGTGGAGGCATAAAAATGGAGAGACAAAGTGAAAGAAAAGACAGAAGAAAGGATCTGAGGAAAGGGCGAAGGAAAAGGAAGTCTGATGTGTCCGCAACTTTTTCTGAAATCTAAAATTATTCTGAAAAGAAAAGGTCTAAAAAACAAACAAAAAAAAAAGAGCGAGAGAAGTGACCGACGGCGAGGTCCTGTGAGAGGGCGGCGAGCAGGCGGGTGGCAGGGACTGAGGGGAGCGAGGCGGCGGCAGTGCGCGTCCAGGGGTGGCTGGCGCCGGGACCCGGGGAGCTAGGAGCCCGGGAGCGCAGCGTCGTGGGCGGCCGCCGGCCAGGCTCTGCGGCCGCAGCTCCCTCCCGGGGCGCTGGCGGCGGAGAGCGCCGCCAGGAAGTCCCGGGACGAGTCGGTGGGCCGGAGGGTGGGGGCTCCCGCGGGGCTCCGGAGGGCGACGGTGTCTTTGGCCGAGGCTGAGTCGCCCACCTCCCGGTGCGTTGCCTGCAG
Seq C2 exon
TGTCCGTGAAGGAGGAGCCGGAAGCTGAGGTGCGCATGGTGAACGGGAAGCCCAAGAAGGTCCGAAAGCCGCGCACGATCTACTCCAGTTACCAGTTGGCCGCCCTGCAGCGCCGCTTCCAGAAGGCCCAGTACCTGGCTCTGCCCGAGCGCGCGGAGCTGGCCGCGCAGCTGGGCCTCACTCAGACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017409:ENSBTAT00000023142:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.294 A=NA C2=0.328
Domain overlap (PFAM):
C1:
PF124133=DLL_N=WD(100=74.3)
A:
NA
C2:
PF0004624=Homeobox=PU(73.7=65.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCACTGACCTGGGCTACTA
R:
AGGTACTGGGCCTTCTGGAAG
Band lengths:
354-1388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]