BtaINT0132521 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016813 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:HGNC:30418]
Coordinates
chr17:6680478-6681170:+
Coord C1 exon
chr17:6680478-6680664
Coord A exon
chr17:6680665-6681072
Coord C2 exon
chr17:6681073-6681170
Length
408 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
AATTTTTGGTGTCTTCATAGCTG
3' ss Score
6.57
Exon sequences
Seq C1 exon
GAGAACAATCTTTGTGGAGAATGGTGCGAAGCTCTGCACAGTTTCATGGCAGAGACCAGTGAAGACCTATCCTTCAAGAGGGGAGACCGGATCCTGATCCTGGAGCGAGTGGACTCCGACTGGTACAAAGGCAGACTGCGGGACCGAGAGGGCATCTTCCCTGCCGTCTTTGTGCGGCCCTGCTCAG
Seq A exon
GTACCACTGCTGCCCGGGAGGCTCTTACCCTCCAAGGGGACCCCCAAGACCTTTGAAATGATACAGATTTCTTGTCCCTCTGGCCGTGCTCAATTTCAGTTGTTTGCCTGTTTTTGAAAGTTAATTCATAAAGTTATGCAAACTTTCTGCATATAATTTGTTGAAGTTATGGGAGAAAAAGAGATAAAGATACCTTTAATCAATAATGGCTAGTTTTATCTCCTGAATATATTTTCTGTAATTTTTTTTCTGCTAAGAGAACATCCTTCATCTTTTTGCAAGTTAAAATAAATTCAAAATTAATTGAAAATATTATGTCCTGGAAGTGACGAGGGGATTTCTTAAAATGTTTGATTTGTGTTTTAGTCAATGACTTTCTATGTATTTGAATTTTTGGTGTCTTCATAG
Seq C2 exon
CTGAGGCAAAAGGTGTGGCTGCTTTATCACTGAAGGGGAGGAAGGCCAAAGCCTTGTATGATTTCCATGGGGAGAATGAAGATGAGCTTTCCTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016813:ENSBTAT00000022368:13
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=0.000
Domain overlap (PFAM):
C1:
PF0001823=SH3_1=WD(100=73.0)
A:
NA
C2:
PF0001823=SH3_1=PU(34.8=48.5)
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:
CAATCTTTGTGGAGAATGGTGCG
R:
TGAAGGAAAGCTCATCTTCATTCTCC
Band lengths:
278-686
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development