BtaINT0141325 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030885 | SSC5D
Description
scavenger receptor cysteine rich family, 5 domains [Source:HGNC Symbol;Acc:HGNC:26641]
Coordinates
chr18:62469332-62470315:-
Coord C1 exon
chr18:62470007-62470315
Coord A exon
chr18:62469452-62470006
Coord C2 exon
chr18:62469332-62469451
Length
555 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
AACACGCTGCTGTCCCCAAGGCC
3' ss Score
4.12
Exon sequences
Seq C1 exon
AGCGGCTGCGTCTGGCCGACGGGCCCCATGGGTGCGCGGGCCGCCTGGAGGTGTGGCACGGCGGGCGCTGGGGCACCGTGTGCGATGACGGCTGGGACCTGCGGGACGCCGCCGTGGCCTGCCGGGAGCTGGGCTGCGGGGGCGCGCTGGCCGCCCCTGGGGGCGCCTTCTTTGGGGAGGGCGCAGGGCCCGTGTGGCTGAGCGAACTGGCCTGCCGGGGCGGGGAGCGGCAGCTGGGCCTCTGCCCCCACCGGGGCTGGAAGGCCCACATCTGCTCACACGAGGAGGATGCGGGGGTCGTCTGTGCAG
Seq A exon
GTAAGGGGTCCTCAGCCTCCTCAACACCCAGGGACCCTCAGCCCAGTAACTAACTCTGAGCATCCAGAAGTCCAGACACCCTACCCCTGCCTCACTGAGAGCCTGCCCTCTCCATAGCACTGGGGTGTTAGATGGTGGGTGTTGGAAGAACATCCTCCAAACTCTTTGGAAAGAACTTTTAAATTGATAAAGCTGGCAGCTTTACCAATCGTGCAGATGGCGAGCCAGAGTTATTTATTTGCACCTGTGCTTCCCCCCACCTAAAGAGGTGCAGGAAGACTTAAAGGGGCCAGAGCTGGTCTGCACAGACTGGAACTGGGGATTGTCCCTCCCCTCAGGGGGCCTCATGACTATTATTCCTCATGGGCCACTTATCAACTGTGTCAGCAAAAAGCATCTGTTTTCAGAGAGAGGAAGGCAAGGGTAAAAACCGATACGGAGCCTACTTGGCTTGGGTGAAACTCAGCCACGCCAGGTCGGGTGGGGGCGGCCCGGGGCCTGAGACGGGCCCACAGGAGGGAGTGTGCCCTCCAGCAACACGCTGCTGTCCCCAAG
Seq C2 exon
GCCAGCGTGGGACAGACTCCAGGGACCATGACGATCCACCTTCAGTCCTGGATGGGGACCCCTGGCCAGGGCTGGCAGGGGAGCTGAGCCCCGGCTCTGAGGAGGCCCCGGTGACGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030885:ENSBTAT00000043694:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=94.2)
A:
NA
C2:
NO
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:
GTGTGCGATGACGGCTGG
R:
ACCGGGGCCTCCTCAGAG
Band lengths:
344-899
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development