BtaINT0138447 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014132 | SNED1
Description
sushi, nidogen and EGF-like domains 1 [Source:HGNC Symbol;Acc:HGNC:24696]
Coordinates
chr3:120803419-120804404:+
Coord C1 exon
chr3:120803419-120803499
Coord A exon
chr3:120803500-120804391
Coord C2 exon
chr3:120804392-120804404
Length
892 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGT
5' ss Score
9.73
3' ss Seq
CATTTCTCCAATTATTTCAGGAA
3' ss Score
8.62
Exon sequences
Seq C1 exon
GTATAAGAGAGTCTACAAAGTGCACCCGGACACCTGCTTCAAGGAGAGCTGTGAGAGCACCCGCACCAGAGCTCCAGACAG
Seq A exon
GTGCGTCCCGGGGGGGGCCGAGCTGTGCCCACGGTGGTCGCTGAGAAACGGGGCCAGGGTGGCCCTGCTGACCGGGGCTAGGGGATGCCACAGGCCATGGCTAGGCCCGGCTGCCAAGATGTACAGCCCGGCTATGTGTATAGCAGCACAGAGATGGGCGCCATGGGCATGGGGCGTGCTGGTGGGTCACAGGGCGTGCTGGTGGGTCACAGGGCGTGCTGGTGGGTCACAGGGCGGGTGCCATGGGAGCTTACATGGTGGGTGGGGGTTGGGAAGATCACAGGGCGGCACTAGAGGAAGTCACGGGGTGGGTGCTGAGGCATCACTCTGGTTATGGAAGTTCACACAGTATCTGGCACTACTATTAAGAAGTGTAACTGACAATCCCAATTATATAAATACAGTAAACCTCTATCTACTTTTTATTTACTCTCACCCAAGTCTTTCCCCAAAGGGGTCAAGGTAGCCACAGAATTATCATACAACGCGCTGCCTGAGTACAGACAGCAGAGTCCAAACCTCAGTCACATTCTCCACAGACCAACCAGGTGCCACAGGCCCTGGGTCTCGCGTTACTGAGTCCAGGCGAAGCCCCGTTGCTGCCTGACCCGAGCGCATCACCTGCCTCCCCAGACCCTGTCCCCCACACCCCCATTCACTCAGGCCCAGCAGGTGCCTGCCTGCCTTCACTCCACGACACCCACGCCAAGCCCAGTGGGTGCCGAGAGTAAGACGCTAACCTGTGTCCTCGTCTCACTGACCGCACTCCCAAACTGCAAAGCGTGTGAGCTAAAGACCAGACAGTCTCAGGACCGAGAGCTGGGGCTAAGGCAGCTGCCAGGTCAGAGGGACTCGTTCTTTTTCATAACCCACATTTCTCCAATTATTTCAG
Seq C2 exon
GAAACAAAGTAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014132:ENSBTAT00000064553:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.152 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]