BtaINT0160238 @ 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
chr25:34092808-34093856:-
Coord C1 exon
chr25:34093774-34093856
Coord A exon
chr25:34093167-34093773
Coord C2 exon
chr25:34092808-34093166
Length
607 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TCCCATCCCTCCTGTCCCAGGAG
3' ss Score
8.75
Exon sequences
Seq C1 exon
AGGAGAGCATGCACCGCTGGAGCCCCCACTGCGCGCTGGGCTGGCTGCAGGCTGAGCTGGAAGAAGCTGAGCAGGAGGCTGAG
Seq A exon
GTGAGAGGAGGGGGCAGCTGGGCCTGGGGACCCGGAGGGGGAACCCAACCTATCATTGTCCCCTCCCCTTGATTCTTACATTGCAGGCGTGAGAGCCCCTCTTCCAGGAAGCCTGCCCTGAGTGCCTGGCCCCCAGGAGGGCCTGCTGAATTGCTGTCCGCCCTGGACACAAGGCCCACCGTCCCCACCTGTGACTTTCCCCCGGCTTCCTGTGACCATCTCCGGCAGCTTAGGCTGGGGCTACAGAGGAGCCGGGGCAGTCAGTCGTCCCAGAACAGTGGGAGGGAGCACAGTGCTCAGGGTGTGGAGGGGTGGAGGTGGAGGGCCCTGGCCTGGAGGAGATGGACTCCCGTCCCCTTCACATGTGTCCCCATCCCTGGACCCCCTCGTCCCTGCCCCGGCAGGTCTGGTGATCGTGATCAAGGCTTGAGAGGAGAGGACTTGGTCCACAGTCACTCAGCAAGGGGCAGGCGAGGCTGGAACTCAGTGCCCCATCCCAGACCGGGGCGGTGGGGTCCATTGGAAGGGATTCAGGATGGGGGAGAGAGGACCAGCCCTGAGTCTTCGGTCATGGTCCTCCTAAACTGTCCCATCCCTCCTGTCCCAG
Seq C2 exon
GAGCAGATGGAGCAGCTGCTGCTGGGAGAGCAGAGCCTGGAGGCTTTCCTGCCCGCCTTCCAACGAGGCCGGGCCCTGGCCCACCTGAGGCGCACCCAGGCGGAGAAGCTGCAGGAGCTGCTGCGGCGCCGGGAGCGGTCTGGCCAGCCAGCCCCTACGGCTGCCGCGGAGCCCCCCAAATCCTTCCCCGCTGCCGCAGTCCTGCCCACCGGGGCCGCCCGGGGGCCGCCGGCAGTGCCCCGGAGCCTGCCCCCCTTGGACTCCCGCCCAGTGCCCCCACTGAAGGGCTCCCCCGGGTGCCCCCTGGGCCCAGCCCCTCTGCTGAGCCCTCGGCCCTCGCAGCCAGAGCCCCCCCACCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008487:ENSBTAT00000011185:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.214 A=NA C2=0.825
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(21.1=100),PF0307011=TENA_THI-4=FE(20.8=100)
A:
NA
C2:
PF072008=Mod_r=PD(28.1=30.0),PF0307011=TENA_THI-4=PD(30.8=33.3)
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:
CTGGAAGAAGCTGAGCAGGAG
R:
GAGGGCTCAGCAGAGGGG
Band lengths:
358-965
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]