BtaINT0026331 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005182 | BOLA
Description
Bos taurus major histocompatibility complex, class I, A (BOLA-A), mRNA. [Source:RefSeq mRNA;Acc:NM_001040554]
Coordinates
chr23:27647936-27650942:+
Coord C1 exon
chr23:27647936-27648208
Coord A exon
chr23:27648209-27650666
Coord C2 exon
chr23:27650667-27650942
Length
2458 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGA
5' ss Score
10.03
3' ss Seq
TTCTGATTCTTCTTCCTCAGACC
3' ss Score
8.81
Exon sequences
Seq C1 exon
GGTCTCACACCGTCCAAGAGATGTACGGCTGCGACGTGGGGCCGGACGGGCTTCTCCGCGGGTATGATCAGTTCGCCTACGACGGCAGAGATTACATCGCCCTGAACGAGGACCTGCGCTCCTGGACCGCGGCGGACACGGCGGCTCAAGTCACCAAGCACAATGCTGAGGCGGCAGGTGATGCGGCGCGTGTGAGGATCTACCTGGAGGGCAAGTGTGTGGAGTGGCTCCGCAGATACCTGGTGACCGGGAAGGACACGCTGCTGCGCGCAG
Seq A exon
GTACGAGGGGCGCGGCGCCTCCCTGATCTCCCCTCGGGCTGGAGCTGGCTTCCCACGAGGAGAGGAAAATGGGGTCCCTGTGGGAACAGCGCCGCAACTTCCTGTCAGGAGAGGGAGGAATCCGCCCAGGTTTTCATATTCTGTACAAGACGGTGACGCGCCAGTGGCCCCACTTGTTATTTAGTCGCTCAGTCGTGTCCGACTCTTTGGGACCCCATGAACTGCAGCACGTCAGTCCTCCCTGTCCGTCACCAACTCCTGGAGTTTACCCAAACTCATGTCCATTGAGTCGGTGATGCCATCCAACCCTCTCATCCTCTATTGTCCCCTTCTCCTCCTGCCCTCAATCTTTTCCAGCATCAAGGTCTTTTCCAATGAGTCAGCTCTTCACATCAGGTAGCCAAAGTATTGGAGTTTCAGCTTCAGTATCAGTTTTTCCAATGAATATTCACGGTTGATTTCCTTTAGAATTGACTAGTTTGAACTCCTTGCTGTCCAAGGGACTCTCAAGAGTGTTCTCCAACACCACAGATCAAAAGCATCACTTCTTCAGCACTCAGCCTTCTTTATGGTACAACTCTCACATCCATACATGTCTACTAGAAAAAACATAGCTTTGACAATATGAACCTTTGTCGGCAAAGTGATGTCTCTGCTTTTTGATATGCTGTCTAGATTTGTCATAACTTTTCTTCCAAGGAGCAAATGTCTTTAATTTTGTGGCTGCAGTCACTGTCCACAGTGATTTTGGAATCCAAGAAAATAAAGTCTGTCACTGTTTACATTGTTTCCCCATCTATTTGTCGTGAAGTGATGGGGCAGAGGAACCAGAGATCAAATTGCCAACATCCACTGGATCATGGACAAAGCAAGAGAGTTCCAGAAAAACATCTATTTCTGCTTTATTGACTATGCCAAAGCCTTTGACTGTGTGATCACAATAAACTGTGGAAAATTCTGAAAGAGATGGGAATACCAGACCAGCTGACCTGCCTCTTGAGAAATTTGTATGCAGGTTAGGAAGCAACAGTTAGAACTGGACATGGAACAACAGACTGGTTCCAAATAGGAAAAGGAGTATGTCAAGGCTGTATATTGTCACCCTGCTTATTTAACTTATATGCAGAGTACAGCATGAGAAATGCTGGACTGGAAGAAGCACAAGCTAGAATCAAGATTGCCAGGAGAAATATCAATAACTTCAGATATGCAGATGACACCACCCTTATGGCAGAAAGTGACGAGGAACTAAAAAGCCTCTTGATGAGAGTGAAAGGAGAGTGAAAGAGTTGGCTTAAAGCTCAACATTCAGAAAATGAAGATCATGGCATCTGGTGCCATCACTTCATGGGAAATAGATGGGGAAACAGTGGAAACAGTGCCAGACTTTATTTTTTGGGGCTCCAAAGTCACTGCAGATGGTGACTGCAGCCATGAAATTAAAAGACGCTTACTCCTTAGAAGGAAAGTTATGACCAACCTAGATAGCATATTGAAAAGCAGAGACGTTACTTTGCCCACAAAGGTTTGTCTAGTCAAGGCTATGGTTTTTCCAGTGGTCATGTATGGATGTGAGAGTTGGTCTGTGAAGAAAGCTGAGCGCCAAAGAATTGATGCTTTTGAACTGTGGTGTTGGAGAAGACTCTTGAGAGTCCCTTGGACTGCAAGGAGATCCAACCAGTCCATTCTGAAGGAGATCAGCCCTGGGTGTTCTTTGGAAGGAATGATGCTAAAGCTGAAACTCCAGTACTTTGGGCACCTCATGTGAAGAGTTGACTCATTGGAAAAGACTCTGATGCTGGGAGGGATTGGGGGCAGGAGGAAAAGGGGACGACAGAGGATGAGATGGCTGGATGGCATCACCGACTCGATGGACATGAGTCTGAGTGAACTCCAGGAGATGGTGATGGACAGGAAGGCCTGGCGTGCTGCGATTCATGGGGTCGCAAAGAGTCGGCCACAACTGAGCAACTGAACTGAACTGAACTGATGGGGCTGGATGCCATGATCTTAGTTCTCTGAAGGACAAAGAATCCAGTGTCTTTGACTAAGAACCAGTAAACCATCCCTGAAAAAGTTGGTCAGTGCTGCCCTTTGACCCTGGCCATGATCTTGTGAACCATAACTTTGTCTCTCAAGGCTTGTTCTCACCCTGAGAACATCTTAGGAGCCCTGACTCCAGCTTTTCTAAGTCATTCAGCCTCCTCCCACATCAGGACCATTAGTCTGTATTCTGCCTCTTACACGGAGCCTCCTCCCTTAGCTGTCACTCTGACTCCAGAACTTTCCAAGGACTAGGAGCTGTTCCCAGACTCTGGAGTCCAGGCTGGTATCTGGTGTTTGTGCTGCTTTTTTTCACACCCACTCTCCTGCTTATTCTCAGGATGGTCACCTGATGCTGCTTCCAGTGGCCCATGGAGGTAACACAAAATGTGAGTTTCTGATTCTTCTTCCTCAG
Seq C2 exon
ACCCTCCAAAGACACATGTGGCCCATCACCCCATCTCTGACCGTGAGGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGAGGAGATCTCACTGACCTGGCAGCGTGACGGGGAGGACCAGACTCAGGACATGGAGCTTGTGGAGACCAGGCCTTCAGGGGATGGAACCTTCCAGAAGTGGGCAGCCCTGGTGGTGCCTTCTGGAGAAGAGCAGAGATACACGTGCCATGTGCAGCACGAGGGGCTACAGGAGCCCCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005182:ENSBTAT00000031166:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.387
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(48.9=94.6)
A:
NA
C2:
PF0765410=C1-set=WD(100=91.4)
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]