BtaINT0049787 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007353 | DLX4
Description
Bos taurus distal-less homeobox 4 (DLX4), mRNA. [Source:RefSeq mRNA;Acc:NM_001098041]
Coordinates
chr19:37314777-37316566:-
Coord C1 exon
chr19:37316307-37316566
Coord A exon
chr19:37315966-37316306
Coord C2 exon
chr19:37314777-37315965
Length
341 bp
Sequences
Splice sites
5' ss Seq
CAGGTGTGA
5' ss Score
5.29
3' ss Seq
TTCCCCTTTTCTCCCCATAGGTA
3' ss Score
14.13
Exon sequences
Seq C1 exon
ACTCGGAGAAGCCGCCGCTGTCCCCGGAGCCCCCGGAGCGGCGCCCACAGGCCTCGACCAAGAAGCTCCGGAAGCCGAGGACCATCTACTCGAGTCTGCAGCTGCAGCACCTGAACCAGCGTTTCCAGCACACGCAGTACCTGGCGCTGCCCGAGAGGGCCCAGCTGGCTGCGCAGCTCGGCCTCACCCAGACGCAGGTGGGGCCAGTCCCATCCTCCACCAGCCTTCCCCAAGTGTGTTCCCTGGGAACTCACCCTCAG
Seq A exon
GTGTGAATGACTGATGAGTCCCCAGCCTTATTTTCACAGTTCTCTTAGCTGGCCTGGAGTAGACTAGGGGAGTGTGTTAAAAAGGGTGGGGGGTAGGAGGGGATGGGGGACGGAAAAGGGGTGGGTGGGGTGATTCAGGGCATATAAGAGGGTACTCAGACTGGGAGAACTGGATACTAACTCAGAGGCCAGAATTCAGGCCCTTCAGGGGCTTATGGAGGCCTGGAGCCAATGTTCTCAACATCTGCTCTTCTCCCAGGACAAGTGAGTCCCTCTTGCTGGACCACTTTCCCTTGGTCACTCCTCCTGATCTTCCATTGTTTCCCCTTTTCTCCCCATAG
Seq C2 exon
GTAAAGATCTGGTTTCAGAACAAACGCTCCAAGTATAAGAAGCTCCTGAAGCAGAACTCTGGGGGACAGGAAGGGGACTTCCCTGGGAGGTCCCCCTCCCTGTCTCCCTGTTCTCCACCTCTTCCAGCCCTCTGGGATCTACCCAAGGCAGGGGCCCTGCCCACTGGTGGCTATGGCAACAGCTTTGGAGCTTGGTATCAGCATCACTCCCCAGATGTCCTAGCTCCACCTCAGATGATGTGAGTCTGAGGAGGAGCAGGTCAGGCCCCAGCCTCCTACAGAGCCCAGGCAGGACCCAGCCCACCTGCACCCTCTCTGGGCTGGGAGGAAACCAGATGGGTGTTCTCAGGAGGATGAGGAGCTAGAGGAGGAAAAGGATGGGGTGATGAGTCTTTTCCTCCTTGCCTCATAACCCAAGTAGCCTTAGCCTTTGCCCCACCCCCACCCAGGACTGGACACTTTCCCTCCAGTCAGAGGCTCTGGAAAAAAACTTATTGGCTGGAGTTCAGACTTCCCACGACCCCTAGTCTTGTCACCCCTTCTTGAAATGACTGCAGTCCCACCACAGTCTGGGATTCAACCAGCAACAAACACTAAGTGTTTTTTCTCTTTGTGTGCCCTGGGCCTTACCCAGCCCATTGATGTGGACAGAAGCGGACAAGTCTTCAAGTTGACCACCACTGAGACACACCCACTGATTTTTCTAGATTTTTTTTACCTGCATAACTTATACATCTATTTACCATCCTGTGAAGAAGATGGGATACCAAAAATGTGGACTTTTGTGGACCTATGGGTAATTTTTGCTCCTTTCCTAAGAAAGCCCCTCTTTCCCCCGTATCTTCTCACTTTGAGTAGATAATGGATCCAATTATCCATCAAGTTCAACAAGTATTTATTAAGAGTCTGATTCCCATCCAGAATACCTAAACAAATCCACAGGCATACACTCTCTGGAACTCAGTAGGGTAAAACTTTGTGGAGAATAGGGACAAACAGACTCTTGGATGTTTAAGTAGAGATGTCCCAAACAGATGGGGTGAACCTAGCAATTCAGTTCCTCATAGCCGTCTCAGTGCAAAGGAACTGCTCATATTTATATCCAATCTGAGTAGCAGCGCTCCCCCTGCAAGCTCTCAGCATCCCCCATGTGATGAACATCCAGAAATTAAAGTTTGTACAGAAACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007353:ENSBTAT00000009672:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.678 A=NA C2=0.350
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=WD(100=51.7),PF0004624=Homeobox=PU(37.5=10.3)
A:
NA
C2:
PF0004624=Homeobox=PD(54.2=16.0)
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:
CACCTGAACCAGCGTTTCCAG
R:
TCCAAAGCTGTTGCCATAGCC
Band lengths:
342-683
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]