BtaINT0160235 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008064 | VPS37C
Description
vacuolar protein sorting 37 homolog C (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:26097]
Coordinates
chr29:38034776-38036521:-
Coord C1 exon
chr29:38036439-38036521
Coord A exon
chr29:38035481-38036438
Coord C2 exon
chr29:38034776-38035480
Length
958 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CTGGAGCTTGTGTCTTCCAGGCC
3' ss Score
6.29
Exon sequences
Seq C1 exon
AGAAGTTCTCCTCAGCACTGCAGCTAGGGACCTTGTTGGACCTTCTGCAGATTGAAAGCATGAAGATTGAAGAAGAGTCCGAG
Seq A exon
GTGAGGCAGCTGTTGACACCCGGTCTTCCTTGCAGAGTCGGCCCCTGCAGCAGATGAACGCTGACTGGGTGGACACCGGCTCCATGGCCACTAGCGCAGCCTAGCCAGGGGCTGTGGGGCCTGGCAGCGCCTTCCACCCAGAGCCGGTCTGCACACAGAGAGTGAAGAGAGGCCAGAGGGCAGCAGAAGAGACCAGGCAGCCCCAGGAGAGGGGAGAAGCCGGGGGTCCCGCTCCTCAGGAACAAGAGCTCTTGTCCTGAGTACCCGCGTCTGCAGGGCGCAGGACCGGGCTCTAGTAGATGGCAGAGGTGAAAGGTCCCTCCACCTGTAGTCCCCGTGGAGGCCCTTTTGGATGCAGGGAACGGGAACCCAGTCTCACTAGTTGAAGCGGAAACGGATGGATGGCACAGCCGTGGGGCAGCTGCAGGCCTGGAGGGGGAAGGCAGTGAGCAGGTACCCTCGAGGGCTGAAGCCAGGCCGCCAACCCCTCCCTTCTCCTGGCAGCTCTCTCTTGCTTCCTTCTGGGCCCATCTTCACTCTCTATGGGCAGACTGGCTCTCTCCACATCTCTTTGCCCTCTGCCAAGCCCCTCAGCCCTGCCTGGGCTGGGTTGTGCTAGTGACCAGGGAGCCAGTGTTCACCTGGTCATTCAACACCCAATTTAGCATCTGGCATGAGCCTGGCATGATGGTGGGGTGGGGAACAGCAGTGGCTGTGACAGGTGGTCCCCACCCTCCGGGAGCTGACATCTTGGTGGGGGAGACAGGATAAATTAAACACATGCTTGTGTAATAATATATCACCAGTGAGAAGAGCCGTAGAGAGAAATTCCCAAAGCAAGGGACAAAGAAGGCCTGGCTGGGGTGGGGATGGGGGCTGCAGCTGACCTCTGACCCAGCGGTATTCAGGTGGCCTCCATCCCGGCAGACCTGATGCCACTGGAGCTTGTGTCTTCCAG
Seq C2 exon
GCCATGGCTGAGAAGTTCCTGGAGGGCGAGGTGCCCCTGGACACGTTCCTGGAGAATTTCTCCTCCATGAGAACACTGTCCCATCTGCGCCGGGTTCGCGTGGAGAAGCTCCAGGATGTGATGAAAAAGCCCAGGGCCTCCCTGGAGCCGGCCGGGGACACCCCTCCTCCACGCCCTCCCCCGCCACTGCACCCTGGCCCCCAGACGACGCCCCCGCCAGCTGAAGACGCTCAGCCACAGCCTCCACAGCCCTCAGTGGTCCCTCCCTACCCTTTGCCCTACAGCCCCTCTCCAGGCATGCCCGTGGGCCCCACCGCCCATGGAGCGCTCCCGCCAGCTCCGTTCCCCGTGGTGTCCCAGCCTTCGTTTTCCTACAGTGGGCCTTTGGGGCCCCCGTACGCCGCAGCCCAGCCGGGAACCAGGGCCCCTTCAGGCTACTCCTGGTCCCCGCAGAGGAGCATGCCGCCCCGGCCGGGCTATCCTGTGGCCCCCACTGGTGCCTCTGGGCCCGGGTACCCTGTGGTGGGGGGCCGGGCCCCCAGTCCTGGTTATCCTCAGCAGCCCCCCTACCTCTCAACAGGAGGAAAACCTCCATACCCCACACAGCCCCAGCCCTCAGGCCCCCTCCAGCCCCCCTACCCCCCCGGGCCCGCTCCTCCCTATGGGTTCCCCCCGCCTCAGGGTCCCACCTGGCCTGGCTATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008064:ENSBTAT00000010607:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.286 A=NA C2=0.915
Domain overlap (PFAM):
C1:
PF072008=Mod_r=FE(18.0=100)
A:
NA
C2:
PF072008=Mod_r=PD(24.0=15.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCAGCTAGGGACCTTGTTG
R:
TGTAGGGCAAAGGGTAGGGAG
Band lengths:
349-1307
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]