BtaINT0071806 @ bosTau6
Intron Retention
Gene
ENSBTAG00000013065 | HFE
Description
Bos taurus hemochromatosis (HFE), mRNA. [Source:RefSeq mRNA;Acc:NM_001012399]
Coordinates
chr23:31619775-31620296:+
Coord C1 exon
chr23:31619775-31620050
Coord A exon
chr23:31620051-31620182
Coord C2 exon
chr23:31620183-31620296
Length
132 bp
Sequences
Splice sites
5' ss Seq
GGGGTATGG
5' ss Score
5.84
3' ss Seq
ATTTGCTTTTGCTGTTTTAGAGC
3' ss Score
10.56
Exon sequences
Seq C1 exon
TGCCTCCTTTGGTGAAAGTGACTCATCACGTGACCTCTTCACTGACTACTCTTCGGTGTCGGGCTCTGAACTTCTACCCCCAGAACATCACCATTAGGTGGCTGAAGGACAAGCAGTTCCTGGATGCCAAGGAGATTAAGCCAGAGGATGTGTTGCCCAATGGGGACGGGACCTACCAGGCCTGGGTGGCCTTGGCCATGCTCCCTGGGGAAGAGCAGAGATACAGCTGCCAAGTGGAGCACCCAGGCCTGGATCAGCCCCTCACTGCCACCTGGG
Seq A exon
GTATGGATGAGAGGCAGGGGCTGAGAAAACCTGGTGTGGGCGGGCTGGGGTTGGTCAACAGGGCAGTCAGGGGAGGGTCTGCTCTGGGCTGGGGGCAGCGTCATGGGCTTTCATTTGCTTTTGCTGTTTTAG
Seq C2 exon
AGCCCTCACTGTCTGGCACCCTGGTCACTGGAATCCTCAGTGGGATTGCTGTTTGCGTCATCATCTTCCTTATTGGAATTTTGTTCAGAATCTTAAAGAGACGGCAGTCTTCGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000013065:ENSBTAT00000017371:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=90.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCTGAACTTCTACCCCCA
R:
TGAGGATTCCAGTGACCAGGG
Band lengths:
254-386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]