BtaINT0132519 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016813 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:HGNC:30418]
Coordinates
chr17:6676485-6677448:+
Coord C1 exon
chr17:6676485-6676687
Coord A exon
chr17:6676688-6677395
Coord C2 exon
chr17:6677396-6677448
Length
708 bp
Sequences
Splice sites
5' ss Seq
TAAGTGAGT
5' ss Score
6.43
3' ss Seq
ATTTTTCTTTTAAAATATAGGCA
3' ss Score
6.45
Exon sequences
Seq C1 exon
AGGCCCAAGGTGTGTTGCTCGATTTGAGTATATTGGAGACCAGAAGGACGAGTTAAGTTTCTCAGAGGGAGAAATTATTATTCTTAAAGAGTATGTGAATGATGAGTGGGCGAGAGGAGAACTTGGAGACAGATCTGGAATCTTCCCCCTTAACTTTGTGGAACTCATTGAGGATCATCCCACTTCTGGTACAAATGTTTTAA
Seq A exon
GTGAGTATTGAGAATATGGCTTTTTATTGTGTACTATCCTAATTCAAATAAACCAGGTAATAGGTTAATACTTAAGTTGAATAATAATCCATATTGCCATATTTTTTAGGGTAGAAGGAAAAATGATTTTTAAATGGTATTTGTCATGTTGGGGATAGTCATTATTGGGGCAGTCTCTCAAAGAGCTGGCATTTGCATTTTAGATAATTAGCAGTAGCTTCATGTTTTTTTTACTAAAGTTGCTCAGTCATGTCCAACTCTTTGCAACCCCATGGGCTACACAGTCTGTGGACTTCTCCAGGCCAGAATACTGGAGTGGGTAGCCTTTCCCTTCTCCAGGGGATCTTCCCGACCCAAGAATTGAACCGGGTCTTCTTCATTGCAGGTGGGTTCTTTACCAACTGAGCTATCAGGGAAGCCGTTCATATTAGCTATCAGGGAAGCTTCATATTAGAGATGGCAAAAAAAAGAATCATCAACTTTTAAACAGAAATGGCCTGTAGAGTATAACTAATGCGTTTCCTCTTTCAGTCTACAGTAAAGAAAACAAACCCAGAGAATGTAGTTTGTACTGGCCTGGCAAAGCTAGTAGCCAGTACGTGAAGAGACTGATCTGGAATCCCAGACTTTTTACTTTCCTCTGAAAGATTTTCCCCAATGCTGTGTGGTCTTTACATCTCAAGTTTTGATTTTTCTTTTAAAATATAG
Seq C2 exon
GCACAAAGGTACCACCAAAGACCAAAAAAGAAGATTCTGGTGCAAATTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016813:ENSBTAT00000022368:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.072 A=NA C2=0.889
Domain overlap (PFAM):
C1:
PF146041=SH3_9=WD(100=71.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCCAAGGTGTGTTGCTC
R:
TGAGAATTTGCACCAGAATCTTCT
Band lengths:
254-962
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development