BtaINT0078235 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009080 | ITGB6
Description
Bos taurus integrin, beta 6 (ITGB6), mRNA. [Source:RefSeq mRNA;Acc:NM_174698]
Coordinates
chr2:36256325-36256637:+
Coord C1 exon
chr2:36256325-36256454
Coord A exon
chr2:36256455-36256561
Coord C2 exon
chr2:36256562-36256637
Length
107 bp
Sequences
Splice sites
5' ss Seq
AGCGTAAGT
5' ss Score
10.07
3' ss Seq
TTTTTAATCTGTCTGCACAGCGA
3' ss Score
8.35
Exon sequences
Seq C1 exon
GGAAGTAAATCATGTTGGAGTTGCTCTTGAACACAGCTTTTCTTCTTTACCTGTCCAGGTAGCTTCTGTTTTCATTTCAGTCTTAATGAAAACTTTTTTATTTACATCTCAAGTTTCTTTTCAAAGCAGC
Seq A exon
GTAAGTAGTATTTACAACTTTACACTTCAAGAAAGAAAGACTTTTAACAGTGTTCAGCTTTGGTCTTGTAATGTTGAAGTAATTCATTTTTTAATCTGTCTGCACAG
Seq C2 exon
CGAGAACTGAAACGGATGGGGATTGAACTGCTTTGCCTGTTCTTTCTATGTCTAGGAAGGAATGATCACGTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009080:ENSBTAT00000011972:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
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:
GGAAGTAAATCATGTTGGAGTTGCT
R:
CTTGTACGTGATCATTCCTTCCT
Band lengths:
206-313
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]