BtaINT0160237 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008487 | VPS37D
Description
Bos taurus vacuolar protein sorting 37 homolog D (S. cerevisiae) (VPS37D), mRNA. [Source:RefSeq mRNA;Acc:NM_001205718]
Coordinates
chr25:34093774-34094505:-
Coord C1 exon
chr25:34094334-34094505
Coord A exon
chr25:34093857-34094333
Coord C2 exon
chr25:34093774-34093856
Length
477 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
CGTCCCTCTGCGGCCCTCAGAGG
3' ss Score
6.97
Exon sequences
Seq C1 exon
TTCCAAGGCCTGCAGCTGGAGCGCGAGGCGTGCCTGGCTTCCAACTACGCGCTAGCCAAGGAGAATCTGGCGTTGCGTCCCCGCCTGGAGATGGGCCGCACTGCCCTGGCCATCAAGTACCAGGAGCTCCGGGAGGTGGCTGAGAGCTGTGCAGACAAGCTGCAGCGACTGG
Seq A exon
GTGAGGGACGGCGGGGAGAACTGCCCGGGGTGGGGGTGGGGGGTGCCTGGGAATTGCCAGGCTCTGAAGGTTGGGAACTTGGGCACACCTCTTCTTCGGGCAAGCTTGCAGGGGTGCTACTCCTGGGAAATTCCCAAGTTGGGAAAGTGAGCAGTTGGTGAGTATAGCTGGGTTGGAGAGACCAGAATGGGTCCCTGGGAGAAGAGGGGACCCGCTGCCCAAGGGCCTGGGGTGCTCTAGGAGACAGCCTCTGCTTCCTCTTTCGCACCAGGACGGGGTGCGGGGGGCACACAAACTGATGCTGTGGGGCGTTGTCCAGGTGAGGAAACTGAGGCCCCAGAGAGGGGAGGGGAAGCGTAGAGGCACACACAGGTCAGGGAGAGAGTCAGCAGTGGGCCCTGGGGCTCCGGCCTGTCTGTCCAGGGTGACAGGCCCTGAGGGCAGGGGCTATTCACTGCGTCCCTCTGCGGCCCTCAG
Seq C2 exon
AGGAGAGCATGCACCGCTGGAGCCCCCACTGCGCGCTGGGCTGGCTGCAGGCTGAGCTGGAAGAAGCTGAGCAGGAGGCTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008487:ENSBTAT00000011185:2
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=0.214
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(44.5=100),PF0307011=TENA_THI-4=FE(43.8=100)
A:
NA
C2:
PF072008=Mod_r=FE(21.1=100),PF0307011=TENA_THI-4=FE(20.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGGCCTGCAGCTGGAG
R:
CTCCTGCTCAGCTTCTTCCAG
Band lengths:
246-723
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]