BtaINT0094716 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009924 | MR1
Description
Bos taurus major histocompatibility complex, class I-related (MR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001190298]
Coordinates
chr16:63653825-63655402:+
Coord C1 exon
chr16:63653825-63654100
Coord A exon
chr16:63654101-63655126
Coord C2 exon
chr16:63655127-63655402
Length
1026 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TGAACTTCTTTTTTTTCTAGAGC
3' ss Score
9.16
Exon sequences
Seq C1 exon
GGTTTCACACTTACCAGAGAATGATTGGCTGTGAGTTACTGGAGGATGGAAGCATCACGGGATTTCTCCAATATGCATATGATGGACAGGATTTCCTTATCTTCAATAAAGATACCCTGTCCTGGATGGCCATGGATAATGTGGCTGACATCATCAGGCGGGTATGGGAGGCCAATCGGCATGAGTTACAATATCAGAAGAATTGGCTGGAAGAAGAATGCATTGCTTGGTTAAAGAGATTCCTGGAGTATGGGAAAGATGCCTTACAAAGAACAG
Seq A exon
GTAAAGAGGAGGGGGAACTCCTTGTCCCCACATCCTCAGAACTAGCAGTTTCATACGTAACAGTCCTCTAATTTAGCTTTTAGCCATCCTTTTCTGAAGTCTGTTTTGTTAGTTGGGCTACAGTGACCTGTAACTTCCTCATGAAAACTTTCCCTAGTTACCTTTTTATCAGCATTTTAACAACACTCAGCAATTCTACTTGTTTTGAGTGGAGTATGTCCAGGGACGCTTCCTTTTGGGGGATTCAGTGAGATAAATCCTCCCATCTCCTGTTAATGATAAGTTGGGTAATATTGGGTTGGCCAAAAAGTTCATCTGGGTTTTCCTGAATGAACTTTTTTGGCACCCCCTGCCCAGTACTTTGGGAGGTAATGCAATTCTTCAAGCTTTGTAGTAACCAAGAGATCATACAACACCAGGATGAGTAAAAATCTGAAATTAGAAAAAAGACACACAGAGGGTCTTTGCTTACCTTAAGAGGTTAGGATAAGATTCCTTTCAGTAAAAAACTCCTCTTATACATCAAAGATGTGATTCAGTTGGTCAACTTTTAGTTAACAAAGAACTTTTCATGCATGATCTCATTATTCAAAATGAATTATGTCTGTATCATGCTGTGGGAAACTCCCAGACACGATGTGCCTTTTCCCACAGGAGTGATGTTTAATAGTGGGGCTTTCCAGAGCTATGGCAGTCCCTTGGGGAGGCACCTGGACTACAGGTATGAATATGGACTCTCTGTTCAAGCACATCGGTTTTGGAGGCAGTTGACTGGAGTTTGTTTCAATTCTCCCACTCACTAGCTGAATACTCATTTTCATTTTAATGGTTTCAGGTAACAGAAATCTGCTCAAATTGGCTTTAGATCAAAGAATTTGTTATTGGTGAACCTGGGTTCTGGGTTATTCTTATTTTTATATGTTTCTTGCAATGAAGAAAATTGGGAAATGCAGTTGCTGTTTTCTAGTATTGTGCACTCAGTACATAAGATACTTCTATTTTAACTTGAACTTCTTTTTTTTCTAG
Seq C2 exon
AGCCCCCCAAAGTCAGAGTCAATCACAAAGAAACTTTCCCAGGGATTACAACTCTTTACTGCAGAGCTTATGGCTTTTACCCCCCAGAAATTTCCATTAACTGGATGAAAAACGGGGAAGAAATTTTCCAAGATACCGATTATGGAGGCATTCTTCCCAGTGGGGATGGGACCTATCAGACTTGGGTGTCTGTTGAGCTGGATCCTCAGAATGGTGACATTTACTCCTGTCACGTGGAGCATGGCGGAGTCCACATGGTTCTTCAGGGTTTCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009924:ENSBTAT00000064417:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.005 A=NA C2=0.027
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(50.0=94.6)
A:
NO
C2:
PF0765410=C1-set=WD(100=89.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATACCCTGTCCTGGATGGC
R:
TGATAGGTCCCATCCCCACTG
Band lengths:
345-1371
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development