BtaINT0049781 @ bosTau6
Intron Retention
Gene
ENSBTAG00000015217 | DLX1
Description
Bos taurus distal-less homeobox 1 (DLX1), mRNA. [Source:RefSeq mRNA;Acc:NM_001099017]
Coordinates
chr2:24505346-24506672:-
Coord C1 exon
chr2:24506195-24506672
Coord A exon
chr2:24505546-24506194
Coord C2 exon
chr2:24505346-24505545
Length
649 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
CACTTCTGCTGTCCCTCCAGGGG
3' ss Score
10.06
Exon sequences
Seq C1 exon
CATGCTTAGACTTTTCAAAGAGACAAACTCCATTTTCTTATGAATGGAAAGTGAAAACCCCTGTTCCGCTTAAATTGGGTTCCTTCTTGTCCTGAGAAACACAGAGACCCCCAAAAGGGAAGCAGAGGAGAGAGAGAGACCCACACCCAGACCCCGCGAGAAGAGATGACCATGACCACCATGCCAGAAAGTCTCAACAGCCCCGTGTCGGGCAAGGCGGTGTTTATGGAGTTTGGGCCGCCCAACCAGCAAATGTCTCCTTCTCCCATGTCCCACGGGCACTACTCCATGCACTGTTTACACTCGGCGGGCCATTCGCAGCCCGACGGCGCTTACAGCTCGGCCTCGTCCTTCTCCCGACCGCTGGGCTACCCCTACGTCAACTCGGTCAGCAGCCACGCGTCCAGCCCCTACATCAGTTCGGTGCAGTCCTACCCGGGCAGCGCCAGCCTCACCCAGAGCCGCCTGGAGGACCCAG
Seq A exon
GTACGTGCGCCTGCCAGGGAAAGGAAGAGGTACGGAGGGAGGGAGAGAGGGAGGGGGAGAGAGAGAAAGGAGGGAGACGAGAGGAGGAGAGAGAGGTGGGATGGGGGTGGGGAGGGCGCCGGAGCAGTGAAAGGTTTCGGGTATCAATCTCTGCATCCCTGTCATAGGAAAGAAATTAAAAAAATATATATCCACCCAATTTGCAACTATCCAGCAAAGGATAAATCCAAGAGCGTCCCCTGGCATTGGCTGGGCCTCTGGGCGGCTCCGTGCGCCAAGCACACAATGCCCTGCTGGGAAACAGAAACCCACATGTGCACGTATTAGTCTCGGTAATTATTTATTGCGTAGCGCTATAAACAATGTATGCAATTAAGGGTAATTAAACCTCAACTACCGCCTGCAAAAATAGCAAACTTTCCCTGCAAAGGCAGGAGCGCGCGCCTGCAAACTGCCCCAGTCCGCCTGCAGCTCCCGGGGTCGGGCCCTTTGGACTTGGCCGGACCCTTCCCTGGCTTTTGGAGTTTCTTGAGCGATCTCCCTCCTGCTCCTTCCTCTGCCACCCCTCTGTGGTTACTTGCTCTCGGCTCCCCACACTCAAGGCAGTCCCTCGCCTTAACAACGGCCCGCACTTCTGCTGTCCCTCCAG
Seq C2 exon
GGGCTGACTCGGAGAAGAGCACCGTGGTGGAAGGCGGTGAAGTGCGCTTCAATGGCAAGGGGAAAAAGATTCGCAAACCCAGGACGATTTATTCCAGTTTGCAGTTGCAGGCTTTGAACCGGAGGTTCCAGCAAACTCAGTACCTAGCTCTGCCCGAGAGGGCGGAGCTCGCGGCCTCTTTGGGACTCACGCAGACGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000015217:ENSBTAT00000020246:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.619 A=NA C2=0.358
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(73.7=62.7)
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:
GCAAGGCGGTGTTTATGGAGT
R:
ATCGTCCTGGGTTTGCGAATC
Band lengths:
355-1004
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]