BtaINT0082857 @ bosTau6
Intron Retention
Gene
ENSBTAG00000037534 | KLRF1
Description
Bos taurus killer cell lectin-like receptor subfamily F, member 1 (KLRF1), mRNA. [Source:RefSeq mRNA;Acc:NM_001099120]
Coordinates
chr5:100673585-100674612:-
Coord C1 exon
chr5:100674473-100674612
Coord A exon
chr5:100673698-100674472
Coord C2 exon
chr5:100673585-100673697
Length
775 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
ACTCATCACCCACTTTTTAGGCT
3' ss Score
7.52
Exon sequences
Seq C1 exon
GAATGTGCTCATCAGAATGGCTGAAATATCAAGAAAAGTGCTATTGGTTCTCTAATGAGATGAAAAATTGGAGTGACAGTTATAAGTATTGTTTGGGGGAAAAATCTCATCTACTAATTATTCAGAACCAACTTGAACTG
Seq A exon
GTAAGTGGTTTAGTATCAAGCTTATGATACTTGCTGCTTTGCCATTAAAATGGCTTATCTCAAATTTCTTCCCACCTTTTCATTAAATTATCTTTTATCTTGGCTACTGAACTTTTGGTGCCTTTTAAATTCTGAGCTGGAATCCAGTGCTTCCCTTGACTTGGGGTAATTATGGTCTGAATATTGATGTTTAATTTATAGGTAGTGGCAGCTCAGCTGATAAAGAATCCTCCTGCAATACAGGAGACCGTGGTTCGATTGCGTGGTTCTATCCCTGGAGAAGGGACAGGTACCCACTCCAGTATCTTTGCATCGAAAATTCCATGGGCAGAGGAGCCTGGTGGGCTACATGGGATCGCAAAGAGTCAAACACAACTGAGCCACTTTCACTTTCACTTCACAGCGTATGTCCTGGTACATGATATATAGTGAAAGCTGCTTGGTTGTGTCCGACTCTTTGCAACTTCATGGACTATACAGCCCATTAAATTTTCTAGGCCAAAATACTGGAGTGGGTAGCCTGTTCCCTTCTCCAGGGGATCTTCCCAACCTAGGGATCAAACCCAGGTCTCCTACATTGCAGGAGGATTCTTTACCAGCTGAGCCACCAGGGAAATCCATATGATATATAATGTATGTGTAAATAAGATGATTGACTAGGATAAAAGCCTTCATGTAGAGTGTGAGTTGTCCAGTAGAATTCTAAAATCTTATTTAGTATGTCTAAATCATTAAGCTATCCTGTTCATTTAATTACTCATCACCCACTTTTTAG
Seq C2 exon
GCTTTTATACAGAAAACTCTAAAACAATCAAACTATGTGTGGATTGGGCTTAACTTTACTTCCCTGAAAAGAACATGGACCTGGGTGGATGATTCTCCTTTGGATTCAAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000037534:ENSBTAT00000042955:4
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:
PF0005916=Lectin_C=PU(26.7=57.4)
A:
NA
C2:
PF0005916=Lectin_C=FE(36.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
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:
GAATGTGCTCATCAGAATGGCTG
R:
AATCCAAAGGAGAATCATCCACCC
Band lengths:
246-1021
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]