BtaINT0094125 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030876 | MNX1
Description
motor neuron and pancreas homeobox 1 [Source:HGNC Symbol;Acc:HGNC:4979]
Coordinates
chr4:119160835-119162000:-
Coord C1 exon
chr4:119161840-119162000
Coord A exon
chr4:119161198-119161839
Coord C2 exon
chr4:119160835-119161197
Length
642 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGC
5' ss Score
10.12
3' ss Seq
CACGTCGCGCGCGCCCGCAGGTG
3' ss Score
9.48
Exon sequences
Seq C1 exon
CCCAGGCGCAGTCCAACCTGCTGGGGAAGAGCCGCCGGCCCCGCACCGCCTTCACAAAAAAGCAGCTGCTGGAGCTGGAGCACCAGTTCAAGCTCAACAAGTACCTGTCGCGGCCCAAACGCTTCGAGGTGGCCACCTCACTGATGCTCACCGAGACTCAG
Seq A exon
GTACGCTGCACCCCCGCACCCACACTGCTGGCACGTTCCAGCCTCCCAGGAACCCTGTCCTGTCTGCACATGCTCGCCTCCCAGGGACCCTGTGGCCTCTGCTCTCTTCACCCTGGGCCTCCCTGGGCACCTGGAGCTGCTCCTGCTGACCTTTACGGTGGATTCGCATCTCCCCGAGCCCACATCTCCCCGCAGGGTTCCTACGCCAGGGTCTGATTCCGCTGGTTCTGGTGGGCCCAGGAATTTTCACGTGCACACACACATTCCCGCACACACCCTGTTTGGAAGCAGGTAGTCCTCAAACCATATTAGAGCAATTTTGTTCCTTCCGGGAAGAGAGAGGAGGGGGCATCTTGAGACTCAGCGGCGGGCAGCATAGCTGCCCTGACCCTTCCCACGCAGACCAAGGGTGCGGGTGGAAGACCTCGGGGGTGGCGGGGGTCTTGGTTTGAGCTTCCTCAGAGCCCCCAGCCCGTGTCAGAGTCTTCCGGAGCTCCTGAGCCCTCTAAGGGGAACCTCACCCGAGCCCTGGCGATGGCGGGCGCGCCGGGCCCCGTGCGCAAGCAGGCGCGGGAGCCGGGGCGCCGGAGAGGGCCGGCAGGGAGGGAGGCGGCAGGCCTCTCACGTCGCGCGCGCCCGCAG
Seq C2 exon
GTGAAGATCTGGTTCCAGAACCGGCGGATGAAGTGGAAGCGCAGCAAGAAGGCCAAAGAGCAGGCGGCGCAGGAGGCCGAGAAGCAGAAGGGAGGCGGCGGCGCGGGCAAAGGCGGCGGCGCCGACGACCCGGGGGACGAGGAGCCGCTGGGGCCGCCGGCGCCCGGGGACAAGGGCGGCACACGCCGCCTGCGGGACTTGAGGGACAGTGAGCCCGAGGACGACGAAGACGACGAGGACGAGGACCGCTTCCCCTACAGCAACGGCGCGGGCGCGCGCGCCGCCTCCTCCGACTGCTCCTCCGGGGCCGACTCGCCGCCCCCGCGGCCCGGCGCGCCCGGCCACCAGCCCCCGCCCCAGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030876:ENSBTAT00000006046:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.908
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(73.7=77.8),PF088806=QLQ=WD(100=51.9)
A:
NA
C2:
PF0004624=Homeobox=PD(22.8=10.7)
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:
AGCACCAGTTCAAGCTCAACA
R:
CGTTGCTGTAGGGGAAGCG
Band lengths:
348-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]