BtaINT0000884 @ bosTau6
Intron Retention
Description
Bos taurus killer cell lectin-like receptor subfamily K, member 1 (KLRK1), mRNA. [Source:RefSeq mRNA;Acc:NM_001075139]
Coordinates
chr5:100046071-100046857:+
Coord C1 exon
chr5:100046071-100046106
Coord A exon
chr5:100046107-100046705
Coord C2 exon
chr5:100046706-100046857
Length
599 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
AATGTATTCTACCTTTCTAGAAA
3' ss Score
8.19
Exon sequences
Seq C1 exon
CATTATTCAACCAAGAAGCTCCAATTTCTTTGAAAG
Seq A exon
GTAAGTGAAAATTTTCTGATATTTTGATGCACAAACTGCATACATCTATACATGGTTATAGGCACACATCTAATGGCATGAACAAGAAAGAGAATACGGAAATGATTAATTCTTCTCTATAATTCACTGTAGATATGTTTATTTATAATGAGGAGGTACTTGCAAAAAGTAAAGCACATCATTTCGGCATCCCTCCCTATATAAATCTGTAGAGATACGTTCTTGGGCAGGACCATATTGAGTTAACTAACTTGAATTCTAGAGTTGAAATAAAAAAGGTATTTAACCTGTCCAGATAAAATCTGCTCTTATGTTCAGACCGGCTTCTTTACCCAGGTGGCGCTAGTGGTAAAGAACCCACCTGCCAATGTAGGAGACATAAGAGAGATGCAGGTTAGATCCCTGGGGTGGGAAGATCCCTGGAGGAGGGCATGGCAACTCACTCTAGTATTCTTGCCTAGAGAATCCCATGGAAAGAGGAGCCTGACAGGCTACAGTCCATGGAGTCACAAAGAGTCAGAAACAACTGAAGAAACTGAGCATGCACACACACATAATGTTCAGACATGCAGAATTAACAATGTATTCTACCTTTCTAG
Seq C2 exon
AAAATTACTGTGGTCCATGTCCTAAAAACTGGATATGTTATAGAAATAACTGCTACCAATTTTTTAATGAGAGCAAAAGCTGGCACCAGAGCCAAGCTTCTTGTATGTCTCAAAATTCCAGTCTCCTGAAGATATACAGCAAAGATGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004917:ENSBTAT00000006469:5
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005916=Lectin_C=PU(27.6=52.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
TCAACCAAGAAGCTCCAATTTCT
R:
CTGGTCATCTTTGCTGTATATCTTCA
Band lengths:
182-781
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]