BtaINT0049786 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017409 | DLX3
Description
Bos taurus distal-less homeobox 3 (DLX3), mRNA. [Source:RefSeq mRNA;Acc:NM_001081622]
Coordinates
chr19:37296538-37300144:+
Coord C1 exon
chr19:37296538-37296728
Coord A exon
chr19:37296729-37298307
Coord C2 exon
chr19:37298308-37300144
Length
1579 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CCCCTTTCTTCTTGGGGCAGGTG
3' ss Score
9.43
Exon sequences
Seq C1 exon
TGTCCGTGAAGGAGGAGCCGGAAGCTGAGGTGCGCATGGTGAACGGGAAGCCCAAGAAGGTCCGAAAGCCGCGCACGATCTACTCCAGTTACCAGTTGGCCGCCCTGCAGCGCCGCTTCCAGAAGGCCCAGTACCTGGCTCTGCCCGAGCGCGCGGAGCTGGCCGCGCAGCTGGGCCTCACTCAGACGCAG
Seq A exon
GTCAGTGGTGGGCGGTCGAAGGCCGTGAGGACTCGGTGGGGTCCTGCGGGACCCCGGGATACCCCAGGCACCGCTGAGCCTGGATGGCTTAATAAGTTGCCTGCAGGCCCTTGAAACCCTTGTCTGTGGGTAGAAGGACCCCCAGATCTCAAACTCGGTTGAAGTTTGTGCATTAGCACGTGTACAGGTGTGCATATTTGTGAATCATGCGACTGAGTGTGGACTGAGTGCGTCTATCAGAAGGAGAGGTATCCTCCCTCTACCCCAGAATCCCCAGCTTCCACAGGCTCCCAGCAGCGTTGGTCACTGCTAGGAGTCCGCATCATGCTCCCCACCACCTCACCCCACCACCCCAGGCTAGGTGTGTGTGAGGGCTGTACATACATGTATATTCATGTCTGTTTGCACACAGGCTAATGTGTGTACAGTACATGTGGGAAACGCACCTAAGGAGGAAGGCCTTTCAAGGGCCACTGTGTTTATTGATGGACACATGTACTTGACTGGGCCCCGTGGTGAGTGTATGTACAAAAATGTGTGCTTGTATCAAAAGACTGCATTCCTGCTCAGTACCCAAATGCTCCACCCCTTGTGTGCTTGGAGGCAAGAACAAATTCCCCACAAAGTGGGGTAGGGACTCAGAGGTGGCAGTCCCCCAGCCCCAGCCTGTCCCTAAAGCCCCCAGCAGCCTGTCACTGCTCAGGGGAGGAGTGGCAGACGCCTGGCTCCCTACAGGTGTTGACAGGCGGGCCTGGGTTGCGGCTGCGTGGGGCCCAGTCCGCCGGGAATCTGGGTCACCCGGTGAGGAGCTGATTCATTGTTTGTACCAGTCATGGGGTGGAGAGCGGCAGGCGGAGGGGGAGATACCCCAAGGGAAATTTGGGGAATCATGGCTCACCTGCTTCTGAGTCCCAGATCACCCCCACTAACCAGCCCTGAAGGGCTCCTGAGTGTGCGAACATGGGAGCTCATGTTTGCAGGGCGTTTATCTGGGTGTATCTGTGCATGTGTGTGTCTTTATAGACTGGTGCCTGTGTGTGAAGTGGTGAGTGGGTATGTTCATGCACATGGAGATGCTTATGTGGGTGTGTATTTGTCTCTGTATATCTGTGCACCTTTGCTTATGGGTTTCTAATGTGAACAAAATGCTGCAAACTGCCTCCTCCCCTCTGGAGTTCAGCGGTTACTATGTCAGGTGTATGGCTGGCTGCTTCGAGTTCTTTGTCTGTCTTAACTTTTTTGAGCATTATAGTGACCCTATGAGGTAGGTAATCGTGCTGCCAGCGTCCCCATTTTGCAGATGAGGACAGCAAAAACCAGAGAGGTCGGGTAACTTGCTCACAGTCACACACTTAGTAAGTGGCAGAGCAGAATTTGGACCTAAGCCGCCAAAAGTTCCTAGCTGAATTTCTATCCCCAGTAGAAAAAGATGCTGGCCCAGAGGCAGGATGCCTGGATTTTGCCTGGGTCTCATGTGACAGTGGGTTCTGGCCCAGCCCTCTCCAGATTGACTTCCCCAACGGGTTTTTCACTCGGTGTTCTAAGAGGCTAACTAGCTCCCCCTTTCTTCTTGGGGCAG
Seq C2 exon
GTGAAAATCTGGTTCCAGAACCGCCGTTCCAAATTCAAGAAGCTCTATAAGAATGGGGAGGTTCCCCTGGAGCACAGCCCCAACAACAGCGATTCCATGGCCTGCAACTCACCACCGTCACCTGCCCTCTGGGACACCTCTTCCCACTCTACTCCAGCCCCTGCCCGCAGCCAGCTGCCCCCGCCACTCCCATACAGTGCTTCCCCCAGCTACCTGGACGACCCCACCAACTCCTGGTACCATGCACAGAACCTGAGTGGACCCCACTTACAGCAGCAGCCGCCTCAACCAGCCACCCTGCACCATGCCTCCCCTGGGCCCCCGCCCAACCCTGGGGCTGTGTACTGAGCACCTACCCGTCCTGAACCTCTCACGAAGGAACCCCGGGACCAGGCAGAAGGCGCCTCCGTCCTAGCTGACACTCAGGAATCATCGAGGAGCACAGGGGAAAGGACATCCCTTTCCCCTTCCCTTGCCCCTTCTTCCAGGGACCCAAGAGCTTCCAGAGGAAATTTACATGGACCAAGGATGCCCCCTGAACCTCCCACTCACTGCCTAGACACTGGGGTGCCCCTCCAGATGTTTGGGCACTCCACTCCAGCTGGGACAGCTGTTCCCCTTCTGCTCCAAGAGCCTGGATTGGCTTCAAATGGCTCATCACCTTCCAGATTCTAAATCTTAGTACTCGGTCCCCAGACTGGATTCCTTGGGTACTGGGGAGACTGTGGAGTGTGCGCAGGTCAGGCTTGGGCTGGGCTGGGGCACCAGGCACTGTGGATCCCAGGACCTGCCAGGCCCAAGATCCTCCCCCAAGCCACCTGTGGTTGTCTCCTTCCTGAGCATCCCCTCTGCCAAAAAGACATTGGACCGTGAGACTGGGACTCAGGGTGGGGACCTCAGCGAGCCCTGCCCTGAACTTCTAGCCCTCGTTTAAGATTTGAGGGTTACACCAAAGAAAAGCCCCAAGTAAGGGAAGCTTTTAATATTTGTGGCTTTAGAGAGAAGAATTCAAGGAGCACCTCGCCTCCCCAACTCTGGTCGAAGAGGAGGGGTGGGTCCCAGGCAGCCTTCCCGACCACCCATTTCTTCTCCCATGTACAGGACTTTGCACAACTTTGGTTTCAAAAGCTGTTGAAAAATAGGAAGACAAAGGGCATTGTTAACAGTTAGGACCAATCTCCCCTGCGTGGGCGCCTCTGCTCACCCCCGCGCCCCCACCCCGCCTCTTCCCACCTCTTCCTCTCCTCCAGTAAGCTGGCGCCAAACCCCAAATCTCCAAGGAGACACACCAGGAAAGACAAACCCCCGAACACCCCCTTTCCGGTGGCCTTGGAAACAGATTGTTCCCGCCAAGACAGAGAATGTCGGGTGAGGTGCACGGTGTTATAACTCGGTACCTTTAGGGGTGAGGGGGTGGCTGGCTGAAAGGCTGGTAGCACTGGCTCTTCCTGGCCCAGATGTCCCCCCAAAGCTAACTTTCCTCCACCCCTGATGTGGTCAAATATCGAAGAAGAGGAGGGGTAGAAGACTCTAGCTATATATATAGTATGTATTTTTTTTTTAAAGCAACAGAGAGAAGCAGTCTCCTCCCTCCTGTGGTTTCCTATTTATGTGGCCCTTTCCTCCTGGATGTACCTGCCTGTGCGCAGTGAGCTGAGAGAAACAGAGATGTGGGCTCCGGCTGGATTTGGGTTTGGTGGGAGGCGCAGGCGCGAGGAGAGACATGGTGGATCTCAAAGAGTCCCACCCCAGGGGGATGGGAACGAAGCCAGCTCCCACCCTCTCCCAGCCTTCTCATTTCTGCTTTCTTATTGGACTCACCTTTATATATAACATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017409:ENSBTAT00000023142:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.328 A=NA C2=0.775
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=65.6)
A:
NA
C2:
PF0004624=Homeobox=PD(56.5=28.9)
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:
AAGCCCAAGAAGGTCCGAAAG
R:
GAAGCACTGTATGGGAGTGGC
Band lengths:
347-1926
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]