BtaINT0026332 @ 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
chr23:27651059-27651633:+
Coord C1 exon
chr23:27651059-27651169
Coord A exon
chr23:27651170-27651600
Coord C2 exon
chr23:27651601-27651633
Length
431 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GTGATACTTTCTTCTCACAGGTG
3' ss Score
10.79
Exon sequences
Seq C1 exon
AACCTCCTCAACCCTCCATCCCCATCATGGGCATCATTGTTGGACTGGTTCACCTCATGGTCACTGGAGCTATGGTGACTGGAGCTGTGATTTGGAGGAAGAAGCACTCAG
Seq A exon
GTAGGGAAAGGAGGGAGGGATCTAAGTTTTCTTGTCTCACTGGGAAGGTTTCTGGCCCAGGTGGAAGTTTGCCTGCCTCGTTACTGGAAAGTACCCTCCACACACTTGTGGAATCTGAGCTGATGCTAAGACTGACTCTTTTGTAAAGTACATGTGAAAATGAAAGACACATTTTTCATCTTCATAATTCCAGTTGGAGGCCTGTTTCTCAGCATTTGAAGGTCAGGAGGGAATGTCCCTGCTGAGGACAGACCTCCAGGAGGGCAGCTGGTCCAGTCCCCCCACGCCTCCTTCCTTCATGTTCCTGAGACTGTCCTCGATTTTTGGTCACAGTTCTGAAAAGTTTTTGTCGTCCAGAACTAGGAAGTTCCTCTAGGGTCTCATGACTCAGTCTGCTCCATGGTCCCTCATGTGATACTTTCTTCTCACAG
Seq C2 exon
GTGAAAAAGGACGGATCTACAGCCAGGCTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005182:ENSBTAT00000031166:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.026 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF066236=MHC_I_C=PU(6.9=5.3)
A:
NA
C2:
PF066236=MHC_I_C=FE(37.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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:
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]