BtaINT0024954 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023801 | BARHL1
Description
barH-like 1 homeobox protein [Source:RefSeq peptide;Acc:NP_001193177]
Coordinates
chr11:102691121-102693228:+
Coord C1 exon
chr11:102691121-102691343
Coord A exon
chr11:102691344-102692933
Coord C2 exon
chr11:102692934-102693228
Length
1590 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GCGTTTATTTCGGTCCCTAGGAC
3' ss Score
10.36
Exon sequences
Seq C1 exon
TGAAGGAGGAGGGCGACCGGGAGATCTCCAGCTCCAGGGACAGCCCCCCGGTGCGCCTGAAAAAGCCACGCAAGGCGCGCACGGCCTTCACCGACCACCAGCTGGCACAGCTGGAGCGCAGCTTCGAGCGACAGAAGTACCTGAGCGTGCAGGACCGCATGGAGCTCGCAGCCTCACTCAACCTCACCGACACGCAGGTCAAGACCTGGTACCAGAACCGCAG
Seq A exon
GTGAGGCCCCCTCTCCTCTCCTCCCCACCCCTCCACGGACCCACCGGGACACGGGTCTGACTGAGCTTTCCGCATTCTGGGGACCTCTGAGCTTTCCCCATTCTGTGAAACTGGGAAAGTGAGGCCTCGGACGGAGAGAGAAAGCCTTGCCTGAAGCCCACAGTGAGGGATAGAGACAGGACTCGATCAGGTGGGCAGATGGACACGTGGACCATGGGAGGTCCAAGCCTGTCCACCCAGGCCACATCCTACCACCTCCCTCCAGCCCTGGGCAGCTGCTAGGGGTAGAGGGGGTGGCACTGAGCTTTCCCGGGATTCTTCAGGCCTCCCCAGTCTTTCTAGTCCCTGAGACTCAAGGAGGGAAAGGGCCCAGACTTAGCTCCTTGGGGCCTGAGGGACCGGAAAATTGATGCTGGGCACTGGCCTCGAACCTGGTGTTTCCTACTCTTCCTTCCCAAGACATTCACAGAATGAAGAGAAACACAAATGCATACAAAACACACACACAGCCACACGCTCAATCCAGTCACACACTCACGTCAACACAATTCACTAATACAAACACACCCACAGTCACCCGCATACTCTTAGCGGAGGCTGGAATGTTGCTTTCCATAAACAAGCTCAGAACACGCTGCCCCATTAATAATAAATACCGATTACTGCTTCGGGCATTAATAATTAAGGCCCGTTACAGTAATTACACAATTATGATGATGATGAATAATTCAGGCAGGAAAATGGGGGTTGGTATGGCTGAGTCCGACTCAGTGGGGCTGCCTCACCGGCCAGGTGCACCCAGGAGTCCGGCCGCAGCCCTGGCAACCAGAGTGGCCTCGCTTCCCTGCCTTCCCCAAAACCTAGCCGGCACTGGGCTGGGGCCTCCCGGCTTCGGGACCGGGCAGACTGTGGGGCTGGCCCCAAGCCTCGGACCTGCGCGCGGGGTGCGGCGGAGGCGGCCGTGCGCTCTTCCTCTGCGGTTGCCGCGGTCTCTGGCCCGCGGGCTTCCGCAGAAGCAGTCAACTGTGGTCCCGCGGCGAGGCTGGTCTCCTCCGGGCCGGTGGTGCGGCTGGCAGCATCAACCGCTCCCCATTCCACCACGAGCAGACAGACCCCGGCACCCCCTGCGGCCCTCTCCAGGGTGATCTTTCGTTCCAAGGCCTCCCCCGGGGGCCGATGCACGGGGGCGCGAGGCGGAGAGCTCCGACATCCCGCTTCAAGCGCCCAGGTTGGGTGGGATGCCCTGCACGAAGTGTGGCGATCTTAGACCCCTGGCTCTGGGGATAAGACAGCCTAGCTTAGAACCCGGGGTCTCCTCTTTTTCGGCCGCCCTGAGATCTGACCCACTCCTCAGTTTTCTTATCTGTAAGCGGGGATGACAGTCATGAAAAGTTCGTGGAAGATTAATAGCATCGATGCCTTTAATGCGCGAAAACCGTGCCCGGCAACCCGTGATTTAGTGATATGAACGAATTAGTGGGCTCCCTCCTGGCCTCTCTGCAGGCGCTCCGGGGCAGGCACTCTGAGGGGCAGGGGTCTCCGAGCGCCCCAGTCCTGATCCCTGCCTTGCGCGTTTATTTCGGTCCCTAG
Seq C2 exon
GACTAAGTGGAAGCGACAGACGGCCGTCGGGTTGGAGCTGCTGGCCGAGGCGGGCAATTACTCGGCGCTTCAGCGGATGTTCCCGTCGCCTTATTTCTACCCGCAGAGTCTGGTTTCCAACCTGGATCCTGGCGCCGCGCTCTATCTGTACCGCGGGCCCAGCGCACCGCCGCCCGCCCTGCAGAGACCTCTGGTCCCTCGCATCCTCATCCACGGACTCCAGGGCGCCAGCGAGCCGCCGCCGCCGCTGCCACCGCTGGCCGGCGTCCTCCCGCGCGCCGCGCAGCCTCGGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023801:ENSBTAT00000032657:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.413 A=NA C2=0.194
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(89.5=68.0)
A:
NA
C2:
PF0004624=Homeobox=PD(8.8=5.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGATCTCCAGCTCCAGGGAC
R:
GTACAGATAGAGCGCGGCG
Band lengths:
354-1944
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development