BtaINT0132525 @ bosTau6
Intron Retention
Gene
ENSBTAG00000016813 | SH3D19
Description
SH3 domain containing 19 [Source:HGNC Symbol;Acc:HGNC:30418]
Coordinates
chr17:6661193-6662379:+
Coord C1 exon
chr17:6661193-6661254
Coord A exon
chr17:6661255-6662114
Coord C2 exon
chr17:6662115-6662379
Length
860 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
GCTGCCACATTGAATTTCAGGCC
3' ss Score
4.98
Exon sequences
Seq C1 exon
GAATCTGACATTGCTGGTCAATCAGGAGGTTCTGGGCGAGGACCCCCAAGGTTGCCACCCAG
Seq A exon
GTAGGTAAGCATGGGAAAACCTCTAAAAAGCCAGTTAAAGAAAATCTAATGACTCCAAGACCAGACCTTTTTCCCCATGTTGTTGGCCTTCTATCTTTTTTTAGAAATAAGTCACAAAGTTCCCCAGGCCACTAGCCCACAGTCTACTTCTGACAGCAGGTTGTAGGCATCTCTGTTTCTTGTTTAGCATAATCTAACCATTCACAGAGCACACACATGAATCTCTGTTGTTGTTGTTCAGTTGCTAAGTTGTGTCCAACTCTTTTTGACCCCATGGACTGCAGCATGCCAGGCCTCCCTGTCCTTCACCATCTCCTGGAGTTTGCTCAAACTCACATCCATTGAGCTGGTATTGCTATCCTATTTTCAGAATTAGCTTTCTTTGTTTTAATCTAAATTAGAGTTTTAATAATGATTCCTAGGACATGAACATTAGAGTTTGTTTTTCCCTTCCTAATAATCTAGAAGACCCCATCACATCTACATGATATCTTATTATAAGCTTTTCATCTCAGGCGTTGGTAGAAAGTGCTTAGTTTTCTGAAACAGTCATGGTGTGTTTAAGAGCAAATGGGGCCTTAGAGAGCTCATGATAGTAAATGCTTGTTTGTCTTGAACTAATGAATCTCTAGTGCAAGATAAGAGGAAGCTGGAACATCATGGCATTTCTTCTAATAATATAATGTTTAATGCAGCAGTCATTTGCTGAAAAATAGCATACCCTGCATGTTTCAGTAAATGGTGTTACATTAGCAGAAAGCTGCGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTAAGAAAGGACAAAGCAGAACTACTATCAATCAAACACTGACTCACAGCTGCCACATTGAATTTCAG
Seq C2 exon
GCCTGTAAATGGAAAAGTCATACCAGCTCGACAGCCTCCTCCCAAGGGGGCCCCTGAGAGACCACCTCCCCCTAAACTTCCAGCAACCAGAACATCAAATAAAAAGCTGCCTTTTAATCGGTCTTCTTCTGACATGGATCTTCAGAAAAAACCAAGTAACTTGGCACCTGGACTCTCAAAAGCCAAGAGTCAAGTCTTTAAAAATCAAGATCCAGTACTGCCCCCGCGCCCCAAACCAGGACACCCTCTCTACAGGAAGTACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000016813:ENSBTAT00000022368:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
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:
GAATCTGACATTGCTGGTCAATCA
R:
ATGTACTTCCTGTAGAGAGGGTGT
Band lengths:
326-1186
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development