BtaINT0005418 @ bosTau6
Intron Retention
Description
NA
Coordinates
chr1:121434524-121435262:-
Coord C1 exon
chr1:121435169-121435262
Coord A exon
chr1:121434651-121435168
Coord C2 exon
chr1:121434524-121434650
Length
518 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CTTTGTGTGTGATGGTTTAGGAC
3' ss Score
8.37
Exon sequences
Seq C1 exon
ATAGGTCTTCTTTCTAAGGACCCTTTATGCGATCCTGAGGAAAAGATAGAGGCAAGACAGGATGGTAGCTGAGTGTTTGAGGGATTGTTCTCAG
Seq A exon
GTAAGAAGACAGGGCATCCTTATACAGAGTGAGCTACTGCATGCACCACATGGAAACATTTCCTTCTGGTTAGACCTATGTACACAGCTTCTTAAATAAAGCTAGTCTGAGTCCCTTTTGAATTTCCTCCCCATGTGAAAGGGGGAGTAATTGATGAGGGATTACTCTGAATAATCTTAGTATTTCAGTAATTACCTTCTGATGTTGTGTCATGATTGCTGCTGCATTTGTTTTATTTTGACTATTCTGACATGGTACAGAATGAAGGTATATATTTCTTAGTGACCTTATGTATTAGCTTGCCCAATTATGTGTCATTTGTTCAGGACTGTGTTACTGGTTCCATATCAGTCACGAGTGGGTGTAGCTAGAAAGGAGAGCTAAGACCATTGTGTCCTGGAAGAGATGATGAGAGACCTTGAGGCCCTCTGTTGATATTGGGGCTCCCTTCCTCATTCTCCACTGTACATTGTTGGAGATCTTACTTTACTGAAACTACTTTGTGTGTGATGGTTTAG
Seq C2 exon
GACTCAGTGACCTTCACTGATGTGGCTGTGTACTTCAACCAGGAAGAGTGGACTTTACTGAATCCCTTTCAAAGAAAGCTATATAGAAATGTGATGCTGGAAAACTACAAGAACCTGACCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000025146:ENSBTAT00000054299:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0135222=KRAB=WD(100=95.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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:
AGGTCTTCTTTCTAAGGACCCT
R:
CTGCTGTGGTCAGGTTCTTGT
Band lengths:
219-737
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development