BtaINT0130230 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000854 | SEC16B
Description
SEC16 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr16:60780615-60782785:-
Coord C1 exon
chr16:60782724-60782785
Coord A exon
chr16:60780751-60782723
Coord C2 exon
chr16:60780615-60780750
Length
1973 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAT
5' ss Score
8.76
3' ss Seq
TCCTTGAAATCTCTCCCTAGGGA
3' ss Score
9.9
Exon sequences
Seq C1 exon
GTTATTCTGAATGATTCTGAGGAACAAGAAGAGATGAGGACTTTCTCAGGACCACTGATCAG
Seq A exon
GTAAATCGCCATAAAAGTTGCCAAATAAGGGCTTTTGAAACCTATAAAATCTTCCTGCATTTTGGGGATTTGGGCTTGGCTTTCTTGAAAGAAAATATCTGTCCCCATTGGAATGGAATCTCTGTGCTACAAGTTGGAGCCAGATGTGGCTTGAGTCATTTTGACAAGCAATTTGAGTGTTGAAAGACAGAAAAAGGTTTAAAAATCTGAAATCAGTTCTATTTTACAAAGGCTATGTGGTAGGAGGTTTTAATGTTCTGGGTACTTAATAATACTTAAACTGGTAGAAAATTGGGGCACAGCCTCGGAAATCATAGGCAAGTTGCTCATATGGAAAACATTTTTCTGGAGAGATGTATAACTCAGTCAGCATGAGTTCCTAGACAGTGTGCAAGTCTGCCCTCTGCAGGATTGAGCTAGAACTGCTTTTACATTCCTAGTCATGTTTCTGATAAATACTGAGGATGTTCTTTGTTGTGGAGAGAAGAGTTCAGGCTGGTGTCAGAGGTGAGATAATGCATTCTGAAGCCCTTTAAATATCATCACAACTATACAGATGTGTCCTTATCCTGAAGCTTCCCCCTCTAAGAAAATCCCTGGGGTATTTTGACAGTTCCTTCAAGTAAAAATGAATTGTCTCCATTTTTACACACAGGTGTAGCAATGTGGCCTAGAGTACCGAGTTGGGTGTTTGGACACCTAGGGTACTGATCCCTATTTGACTGACTTCATTAAATAATCTCAAGCAAATAATAATTCCTGTTTATGGAGCACTTTATATATGCTACACAATTAGCTAATTCCTTTTTGTATAAGGTAGACTTTAAAACAGTGTTTTAATAGAAGTATAGTTGATTTACAATGCTGTGTTAGATTCATGGGTACAGCGAAGTGATTCAGTTATATATAAATCTGTTCCCTTTCACATTCTTCTCCATTATAGGTTATTATAAGACACTGAGTTAGAGGTAGACTTTTAAAGAAATTTTATTTTGTTTGTTTATTTTAGCTGCACTAGGTCTTCGTTGTTCCACACGGGCTTTCTCTAGCTGTGGCAAGCGGGGGCTACTCCTTGTTGCAGGGCACTGGCTTCTCACTGCGGTGGCTTCTCTTGTTGTGGGCACAGGCTCCAGGCACGCAGGCTTCAGTAGTTGTGGGCACAGGCTCTAGGCATGCAGGCTTCAGTAGTTGTGGGCACAGGCTCCAGGCATGCAGGCTTCAGTAGTTGTGGGCACAGGCTCAGTAGCTGCAGAGCCAAGGTTAGTTGCTCCACAGCATGTGGAATCTTACCAGACCAGGGACTGAACCTGTGTCTCTTGTATCCGCAGGTAGATTCTTATCCACTGTACCACCAGGGAAGCCCTGGAGGTAGACATTTTAATCACCCCTGTTTTATCAGAAAGAGCAGAGTCTCAGAGGAGATAAGCAACTTGTGTAGGCTGAGAAGTTTAGAAGGGAGCTTCCCTGGTGGCTCAGAGGTTAAAGCATCTGCCTGCAACGTGGGAGACCTAGGTTCAATCCCTGGGTCAGGAAGATCCCTTGGAGAAGGAAATGGCAACCCACTCCAGTATTCTTACCTGGAGAATCCCATGGATGGAGGAGCCTGGTAGGCTAAAGTCCACGGGGTCACAAAGAGTTGGACACGAAGGCTGGATTTAAATCCAGGGTTGTCTGATCTCAAAGTCTGTGCTCGAACCTGCCACCCAAATAGTCATTTCAGGTCTCTGGGCCTCAGTTTCTTCCTCTGCAAAACAGAGACCGTGGATGAGAGAATCTCTGAGGTCCCTTCCTGTTCTATATGGAAACAACTGCCCTGTAACTACAGACTCACTGTCCCCATCCTGGGTTGTCCTGTTTCTACTACCATCTCAGTCCCAGCCCAGGCACCGCCCTCACGCTGTAGGAGGGGCTTGTGGTCCTGCCTGGGGGAGGAATCTGTCCCTCACTCTTTGCTCCTTGAAATCTCTCCCTAG
Seq C2 exon
GGAAGATGTGCACAAGGTGGACATCATGACGTTTTGCCAGCAGAAAGCAGCACAGAGCCACAAATCTGAGACACCGGGGAGCAGAGACTCGGCTCTACTCTGGCAGCTGTTGGTTCTCCTTTGTCGGCAGAATGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000854:ENSBTAT00000001137:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.524 A=NA C2=0.196
Domain overlap (PFAM):
C1:
PF129322=Sec16=FE(19.6=100)
A:
NA
C2:
PF129322=Sec16=FE(44.1=100)
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:
GTTATTCTGAATGATTCTGAGGAACA
R:
CCCATTCTGCCGACAAAGGAG
Band lengths:
198-2171
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development