BtaINT0024953 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023801 | BARHL1
Description
barH-like 1 homeobox protein [Source:RefSeq peptide;Acc:NP_001193177]
Coordinates
chr11:102687919-102691343:+
Coord C1 exon
chr11:102687919-102687948
Coord A exon
chr11:102687949-102691120
Coord C2 exon
chr11:102691121-102691343
Length
3172 bp
Sequences
Splice sites
5' ss Seq
GAGCTGAGA
5' ss Score
-0.62
3' ss Seq
GCGCGGCTGTGTCTCTGCAGTGA
3' ss Score
8.11
Exon sequences
Seq C1 exon
TTTCCTTTCCATCCTGTCTTAACCAGGGAG
Seq A exon
CTGAGATCAGCACTAAGAGGAAAGAGGGAAGGAGGAAGGAAAGAAGAAAGAAAGGAAGAAAGGAGAGAAAGAATTCCTTAATTTTGTTTCTCGTCCTGGCCACTGCCTTGACTTTAGGTCTTTGGTGAAGCCAGAGGCACGAAGTTCTTTCTCAGGGAGAAGTCAGGAGGCAGGAAGGGAAGGAGTTTCAGAGCCCTGTGTCCCCATCCAGTAGAAAATGAAGGGCTGGCAGGGGCTGTTTAGAGCTCTTTCAGCCTTATAATTAATTCCCAGAATGCTTTCCATGAGAGAAAACTTCCCTATAAAGCCAACTTCTATATTGTCTTGGGGGCCCTACATCTCCTGACCCATATTTGCACTGCTAAGTTGATTCAGTCGTGTCCGACTCTTCGAGACCCCATGGACTGCAGCCCAACAGGCTCCTCCATCCATGGGATTTTCCAGGCAAGAGTACTGGAGTGGGGTGCCATTGCCTTCTTTGTTTGCACTAAGTTATCACAAAAATTTAGGAAGGCTCGTTTAACACTCTCTTCCCAACCAAGAAGTGGTTGTGGACATGCCCTGACCTCAAACCAAAACCCATATGAGGCCCCACTCCACATCTCATTCCCTCCTCCACTGCCCCAAGCAACCAGTGGAGACTCCAAGGTCTCCCTGGGTCAGCCGTGCTAGATGGGCAGGTTGGGCTGGAGCTGGAGGAAGGGGGTCCAGACGCCTGTGGCCCAGAGAGCCCTGCTCCTCCCCCCAGGTCTGTTTAGAGAGACAAGGAAAACTTGCCTGGGAGAAAGACAGGTGTATGATGGGGAAGTGAGGGGGAGCAAGGGAGGCAAGGTAAATATATATGTGTAACAGCATATTTTATTATTTATAATTCTCAACAACACCCAGATTTATAGTTAGAATAAGTCGCAAGCCCCCCCTGCACCGCGTGGTGCTGGTGAAAGAGTGTGGCTCGTGTCTCTATATTTGTTTATTTTTTTGCCCATAGGTGGGATTTTGAGTCAAGGTTTCGGTTAAGATAATTGGAATATCAATTTTCTTCTCTTGTCCCTGATGATATCTGATCGGGGTGGTGATGACGGCCGGCTGTCCACATATCACTTAAATAGGGTTGGAGCTGAAGACAGAGGAAGGTCTCCCCCAGCCCTAGGTACCCCACCTTTGCATCAACAAAGTCCCAGGTGAAGAAGGAGAAGAAATAACCGCCTCTGGAGCATTTCTCAAAGGCGGACCCGAAGCAGGAGACCTTACCGAGAGACAGACAGACACACGGGGTTGGCAGCTAAGCGACTCCCCTATCCACCTACCATGTGAAGAGTCCCTCCTCCAAGGAGGGCAGGCAGGGAAGGTCAGTCCCATCCGAGTCGGCATCAAAGGTTCCTCAGCATAACATTTAAAGAAGCGGAACCGGGCTTTGAAGTCAGGCGTTCTGCAGCGCACGGTCTGGCTTGCAAGAGCCGATATCCATGGAGAAACGAAACGGGCACTGTGCTCCCAGCTGGCAGGGTCGGGGGGCCTGGAACTCTCAGGCGTTGAGATTGACTGAGCCTGCTTTGGAGGTTGAGGCTGGGCACCTGCGAGTGTGTATCTGAAGGCTCCAGCCTGCGCCCGGGAGAGGAATTAGAGAAAAAGCCCCAGGAGCCAACCCGTTCTTCTGGACACCCCAAACTCAACCTCCACCCCACCCCCAACCTTGGAGCTCAGTCCTGAGAAATGGGGGGGATTTACAAATAGGGCCAGATGATGAGGTCAAAAAGTAAGGTTTCCACAATATCAGGTTAGAGGTTTGGATAATCATTTCCGCAAACTTGCTCAAACTTTACCTGCCTGGCATAGACAGAAAAGATCCTCCAGCATAGACAGAAAAGATCCTCCATCCTAACAGATCCCCATCTCCTGAGGCACCCTTGCCCCAGTGTGGCCCGAGTCCAGGAGGGCAGGGAGAGGCCAGCGAGCTGGTCTGGAGGAGGCGGTGGGAAGGCGTGGACCCCTGCTCACCGGCTTCTTACCGGTTTCTCACCTGCTAGCGCTCTCCCGGCTCAACCACTGGGGTGTACCTGGTGACTGGCACCCTCCCAGTCTCGAACCGCTTTCTGGTTGAAAAGTCTTGCTCCCTCGTGGCTCAATTAACCGGATTATTGTTTCCTACAGACAGAAATTAACTCCAATTCAGCTGAACCCAGTCACTGCAAACACCATGCTCAATGAAACTCAGCATAAAGGAAAAATAGAGAAAAAGAGGGAGGGAAGCCCCATGTCCATTTTGGGGAGATGGTCTCTGGTGGTATCATCACTTTAGGGGAAGAAGGAGGGAGGTGTTTGAGCTTGCTCCAGCAAGTGTGCATTTTCGGTGCAGTCAACTCCAAAGGAAAGTGCTGGGGAAAAAAGAAACCACATTATCCAGTACCATCCTTGTGACTCAGGAGCGGGGACCCTGCTGGTGTGTCTCGACCATCGGGGGAAACACAGGGCAGCCACCTTAGGCAAATGACAAGGACACACGGACCTCAGAGATGTGTGCATCTGAGGGGTAAACGAGTCACTTATTTTTCCAAACGGCTTTGTGCTCCCTGATCGGGCACCTGGCAGTTCGCATTTTGCCTGTGCGCTGTTTGTAGTTTAAGAAACAGGGGAACCATCCCTATAGATTCGTGCCCAACCAGGGGTCAGGCGAGATGTGGGTGTCCTTCAGGACCACCGTCTACTCCAGGGTGAACAGGCTTTTGTCCCTCAATGCAGGTTCTTCTCCCCAGACTCTGGCCCTCAGCTTCCTCTCTTCCTGGCCCAGATGCAGCCAGAGAATCGGGGGCACAGTCCTAAACCCCGGAGCACGCACCGGAGCAGCCCACCAGGCTGGAACTCCTGCGTCCCCTCCCCACTGCTCCCCTCCCCTGGCAGATCCACCCAGTCGGTCCACTAATCCCTCCAGGGAGCGCCCGTGCAGTGTGGGAGCTGGGTCGAGTTCTCTGTAGGCTTTGGGTTATTTCTCCTCGGAGGTGTCGCTCCTCCTCGGTCTGGGGGCTGGGAGGTCTCAGCCCTGAGCGGCTTTGCTACGGCCCCACGGGCTCGAGTGCAGCGGGGCCACCGCCACCGGGAGCCACATTCACAAGACCGTAAGGGCGGGCAGGCGGGCGGTGAGGCTGGGCCCTGATGCGCGGCTGTGTCTCTGCAG
Seq C2 exon
TGAAGGAGGAGGGCGACCGGGAGATCTCCAGCTCCAGGGACAGCCCCCCGGTGCGCCTGAAAAAGCCACGCAAGGCGCGCACGGCCTTCACCGACCACCAGCTGGCACAGCTGGAGCGCAGCTTCGAGCGACAGAAGTACCTGAGCGTGCAGGACCGCATGGAGCTCGCAGCCTCACTCAACCTCACCGACACGCAGGTCAAGACCTGGTACCAGAACCGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023801:ENSBTAT00000032657:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.413
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0004624=Homeobox=PU(89.5=68.0)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development