BtaINT0049789 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018645 | DLX5
Description
Bos taurus distal-less homeobox 5 (DLX5), mRNA. [Source:RefSeq mRNA;Acc:NM_001075313]
Coordinates
chr4:14291967-14293814:-
Coord C1 exon
chr4:14293630-14293814
Coord A exon
chr4:14292671-14293629
Coord C2 exon
chr4:14291967-14292670
Length
959 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
CTTTGTTCCCCCCCACCCAGGTG
3' ss Score
9.79
Exon sequences
Seq C1 exon
AGAAAGAAGTGGCCGAGCCCGAGGTGAGGATGGTGAACGGCAAACCAAAGAAAGTTCGTAAACCCAGGACTATTTATTCCAGCTTTCAGCTGGCCGCGTTACAGAGAAGGTTTCAGAAGACTCAGTACCTCGCCCTGCCCGAACGCGCCGAGCTAGCCGCCTCGCTGGGACTGACGCAAACACAG
Seq A exon
GTAAATCCGGCCGCGGCCTGGGCCAGAGCCCCGGTGGGCTGCAAGCCTGGCTGGACCGCGCGGTTCGGTCCCGGCGGGCTGGAGCCGACTCATCAGGGCACGCGAGAAACTCACAGACAGACACTGACCCCGCGCCCTCCCCTCTAGAAGTCAGGCCGGGTGCCGTCGCCGGGAGTGGTGGGCACGGCAGCGAGACGTCGTTCATCCCCAGAAGCAGCCCCCCGCCCTTCGACTCTACAGGGGCTGAGGGGCCACTTCCCTAGATTGGAAGCAAGGGGAGGGTTGTCTCGAGGACACCCTCGCAGCCTTAAGAAACTGTCTAGTGCTCCGCACAATGCAGAGCAGCGGGGGTCTCAGGCCGCGCGCCTGCGGCCGGAAGCTGAGGGTCACGCCCTGCGCCTGCGGCCGGTCCGAGGTGGGGGGCGCTGTGGCTCGGAGAAGTCCGCCCTGGATGGTCCCCTTCACTCCCACCGCAACCCTACGGGGGCCTACGGAAAAATAAAGAATGTCCTCGAAGCCGAGCAGGAGTGAGAGTTAAAGGAGGCGGTCGGGCAGCGGGGAGACCACTCCTTGGTCCCCCTCCCACCTCGCGCGGACGCGCCCCTGGCGCACTGCGCTCAGGCGGTTGTTTTGGAGACTTTCGTGGCGCCGCGTTGCGTGCTTCCCGCGCTGTATTACACGTGCGCGCTCGCCGCGCGCGGACACTCGCGCCCCCGCCCCCGGCCCCAACCAAAGACCGAAGCCCGGGGGTCCTGCCCCAGCGGCGGCCCCTCTGGGGCCCATGATCCAGGCTGTGCCCCCGGGTCCAGCCCCTTCACCATAGGCCGCCAGCTGCGGGGGGACGCCAGTGTCCGGCCTCCTGGGGGCCGAGTTAAGCCTCAGGTCGCCGCCCTGGGGGAGGCGCGCGGGCAAGCACCTGAGCGTCCCGGTAACGTGTGCCTTTGTTCCCCCCCACCCAG
Seq C2 exon
GTGAAAATCTGGTTTCAGAACAAAAGATCCAAGATCAAGAAGATCATGAAAAACGGGGAGATGCCCCCGGAGCATAGCCCCAGCTCCAGCGACCCTATGGCGTGTAACTCGCCCCAGTCTCCAGCGGTGTGGGAGCCCCAGGGCTCGTCCCGCTCGCTCAGCCACCACCCTCATGCCCACCCTCCGACCTCCAACCAGTCCCCCGCGTCCAGCTACCTGGAGAACTCGGCTTCCTGGTATCCGAGCGCAGCCAGCTCAATCAATTCCCACCTGCCGCCGCCCGGCTCCTTACAGCACCCGCTGGCGCTGGCCTCCGGGACACTTTATTAGACCTGCCGCTTTCTTTTGCTCTCTTTTTTGGGACTACTGTGTTTTCGCTGTTTTCGAAAATCAACCTTTTTAAAAAAAAAAAAAAAAAAAGGAATTCATATGGGAAAGTTTGGAAAAACGGAAACAAAAAAAATTCATGTGTAAAGCTTTTTTTTTTGCATGTAAGTTATTGCATTTCAAAGGACCCCGTCCCCCCTTTTTTTACAGACGAACATTTTTGCGCAACTGTGGACACTATCAATGGTGCCTTGAAATCTATGACCTCAACTTTTCAAAAGACTTTTTTCAATGTTATTTTAACCATGTAAATAAGTGTAGATAGAAGAATTAAGCTGTATATTCTGGATAAATAAAATTATTTCGACCATGAAAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018645:ENSBTAT00000024811:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.306 A=NA C2=0.734
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=67.7)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=11.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGACTCAGTACCTCGCCCT
R:
CGGCAGGTGGGAATTGATTGA
Band lengths:
346-1305
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]