BtaINT0094717 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009924 | MR1
Description
Bos taurus major histocompatibility complex, class I-related (MR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001190298]
Coordinates
chr16:63655127-63656110:+
Coord C1 exon
chr16:63655127-63655402
Coord A exon
chr16:63655403-63656008
Coord C2 exon
chr16:63656009-63656110
Length
606 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
CCTTATTTGCTTACTTTCAGAAT
3' ss Score
9.46
Exon sequences
Seq C1 exon
AGCCCCCCAAAGTCAGAGTCAATCACAAAGAAACTTTCCCAGGGATTACAACTCTTTACTGCAGAGCTTATGGCTTTTACCCCCCAGAAATTTCCATTAACTGGATGAAAAACGGGGAAGAAATTTTCCAAGATACCGATTATGGAGGCATTCTTCCCAGTGGGGATGGGACCTATCAGACTTGGGTGTCTGTTGAGCTGGATCCTCAGAATGGTGACATTTACTCCTGTCACGTGGAGCATGGCGGAGTCCACATGGTTCTTCAGGGTTTCCAGG
Seq A exon
GTAAGGCTGGGGTTGTGGCTGTCTGGGGAGTGAGACCGAGGAAAGGTGGTGAGCAGGAACCGTGGATCACTGCGTGCTTTAGAATAGGTCTGTTAAATCAGAGGTTCTCTCAACTTTTTGGTCCTAGGGCTCCTTTATACTCAAAAAATTATTGAGGACCCCAAAGAGCTTTTGTTTATATAAGTTATATCTATTTATATTTACTGTATTGCAAATTAAAAAAAATTTTTTTTAAGTAAACACTAGAAAACATAGCATTCTATTTGCTGTCAGAGTGATAATGTCATCTCATATTGTGTGGCCTCTAGAAAATTACCCTGTGCCCATGTGAGAGATGGAGATTTAAAAAGGCGGGGGGGGCGGGGAATCATGAGTTAGATCTCATTGACTCTCTGATTGGGTCTTGAGGACACCTGGGGCATTCAGACCATACTTTGGGAACAGCTGTTCCTGTTTCAGATTATTCTCCACAGAGCTGTGAAGAAGTCACAGTAAGAAAAGTAGTATTGGGCTTCTTGATGATCACAGGAAAAAAGTCCCCAAAAGATAACATAGAAGAGCAGGAGGACACGTGGATTTTTTCCTCCCTTATTTGCTTACTTTCAG
Seq C2 exon
AATCGGAAACTATACTTCTCGTGGTGAAAGCTGTTGGGTTCATTGTCCTCGCCATTGCCCTGGCTGGAGTTGGCATCCTAGCCTGGCGAAAGAGGCCCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009924:ENSBTAT00000064417:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=89.2)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCCAAAGTCAGAGTCAATCA
R:
TAGGATGCCAACTCCAGCCAG
Band lengths:
353-959
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development