BtaINT0086878 @ bosTau6
Intron Retention
Gene
ENSBTAG00000024632 | LRP1B
Description
low density lipoprotein receptor-related protein 1B [Source:HGNC Symbol;Acc:HGNC:6693]
Coordinates
chr2:56757614-56758800:+
Coord C1 exon
chr2:56757614-56757802
Coord A exon
chr2:56757803-56758651
Coord C2 exon
chr2:56758652-56758800
Length
849 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATT
5' ss Score
6.49
3' ss Seq
TGTTTCTTTCTTACTTGTAGTCT
3' ss Score
8.62
Exon sequences
Seq C1 exon
TCCCTAATCAAGATATTCCAGGGGTGATTGCACTAACATTGTTTGAAGACTACATCTACTGGACTGATGGGAAAACCAAGTCACTCAGCCGTGCCCATAAAACCTCGGGAGCAGACAGACTCTCACTGATTAACTCATGGCATGCCATCACAGATATCCAGGTGTATCATTCTTATAGACAACCTGATG
Seq A exon
GTAATTATTCTTTCCATGATTTCCATAAATGCATCAACATCTTTTAGTAACATTCCATTTTTGTTTCCTTTAGGGTTAAGAGTAAATTTATTTTTGAGAAAGATTATTAGATTTCATTGCGTAGAATAATTGTATAGAATGAATTCATCTGATATCAAAAGCTGCTGTTAAGGGATATGGTTTCAAGATCAATAAAACTGCAAGGAATGTTGATTTGTTGAAATCATATTAAGCTAAATGACATGAGTACATATAGCTGGAGAAATGAATACTGCATTATTGAAATCATATATTTATAAAATGGTTATAGGATTCCAGTTTCTTGAGTGCTAGGTGAAAGAAACTATATTTAAGTAGTTCTGGGGATCCAAAAATGAGAAATGTATCAAGCATATGTCTAGTAGGAATTTTATCAGGCCATATGGAATAAAGTTTTGATTATTTTGCTGAAAACATAAATTTGGCTTGGAAAAGAGAGCTACTGTACTCTCAGATATAGATCATCATTTCATTATTTTATTTTACATTTATATTTCTAATCCTATGTATACAATCATCCAAAATACTTCCAGTCTCTGTTTATTTTTCTGATGGACACTTTTTTCCTACTAAGATACTCACTATAGTAGAAATGCATTTTTAAAATTATTTAATGGTAAAATAATGTCATAGGATAATGAGTAGAATTTGTAGCAAAATAAAATTATATTTATAATATTGATGAGTTCTTGATTATGACATTCTATTCAAATACATGTTATGAAGCTCAAATGTCTTATTTCTAATTGCATATTATGTTATTAATCTTGATTATCATGTTTTTTTTTTTTGTTTCTTTCTTACTTGTAG
Seq C2 exon
TCTTCAAACACCTCTGTACGATAAATAATGGAGGTTGCAGTCATCTGTGCCTTTTAGCCCCTGGAAAGAGTCACACCTGCGCATGTCCCACCAACTTCTATCTTGCAGCTGATAACAGGACTTGCTTATCCAACTGCACAGCCAGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000024632:ENSBTAT00000034302:8
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:
PF146701=FXa_inhibition=WD(100=74.0),PF0005713=Ldl_recept_a=PU(15.8=12.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCCTAATCAAGATATTCCAGGGGT
R:
GACTGGCTGTGCAGTTGGATA
Band lengths:
336-1185
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]