BtaINT0049784 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005741 | DLX2
Description
Bos taurus distal-less homeobox 2 (DLX2), mRNA. [Source:RefSeq mRNA;Acc:NM_001192662]
Coordinates
chr2:24490240-24491347:+
Coord C1 exon
chr2:24490240-24490424
Coord A exon
chr2:24490425-24490936
Coord C2 exon
chr2:24490937-24491347
Length
512 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CAGGTCCCTTTTCCACAAAGGTC
3' ss Score
6.06
Exon sequences
Seq C1 exon
AGAAGGAAGACCTCGAGCCTGAAATCCGGATAGTAAACGGGAAGCCAAAGAAAGTCCGGAAACCTCGAACCATCTACTCCAGTTTCCAGCTGGCGGCTCTTCAGCGGCGTTTCCAAAAGACTCAATACCTGGCACTTCCCGAGCGAGCTGAGCTGGCGGCGTCTCTGGGCCTCACCCAGACTCAG
Seq A exon
GTGAGGGTTCACGGCCTGGGAGGCATGAGGAGGGCACTGGCCTGGGATGGCCGGGAAGCAGGCAGGTTGAGGACTATGTTTTTCTTAAGTAATTTTAAGGATTTCGAGGCCGCGCCTTGGACCTTTTACGCCCGAAGCTGACATCCCCCAGGTGATGTGATGGAAGGGAAGTGCCAGTGTGGGCAGAAATCGCGTGCCAAGTTGTCCTTCTGCGCACTGCTGATTAAGCGGGTACAACAGTTGGCCCTCTTGACCCCCTCCGCGGTCACTATCAGTCTCCGTGCACACACATCGGCTGTCTCGGTTTGTTGTTATTGTTGTTTTGAGAATACCGCTCCTAGGAACAGACACAGCCTCCAAGGCCGCGGCACGTGATCCGGTTACCTGCCCAGGCTGACAATCCACCCCACTCCCACCCCGCGCCCCTTAGCGGCGGTCTTCCTAAGATTCCTCCCTTCCCCTATCCCAGGCCGAGTTTCCTCCACTAATGCTCAGGTCCCTTTTCCACAAAG
Seq C2 exon
GTCAAAATCTGGTTCCAGAACCGCCGATCCAAGTTCAAGAAGATGTGGAAAAGCGGTGAGATCCCTTCGGAGCAGCACCCGGGGACCAGCGCTTCGCCACCTTGTGCTTCGCCGCCGGCCTCGGCGCCGGCCTCCTGGGACTTCGGCGCGCCGCAGCGGATGGGGGGCGGCGGCGGCGGCCCGGGCAGCGGCGGCAGCGGGGCGGGGAGCTCCGGGTCCAGCCCAAGCAGCGCGGCCTCGGCGTTCCTGGGCAACTACCCGTGGTACCACCAGGCCTCCGGCTCCGCTTCGCACCTGCAGGCCGCCGCGCCGCTGCTGCACCCGACGCAAACCCCGCAGCCACACCACCACCATCATCACCACCACGGTGGCGGCGGGGGCGCCCCGGTGAGCGCTGGAACGATCTTCTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005741:ENSBTAT00000046765:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.290 A=NA C2=0.765
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=67.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=9.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCAGCGGCGTTTCCAAAAG
R:
GTGGTACCACGGGTAGTTGC
Band lengths:
357-869
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]