BtaINT0130206 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023933 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr11:103952395-103953421:-
Coord C1 exon
chr11:103953279-103953421
Coord A exon
chr11:103952457-103953278
Coord C2 exon
chr11:103952395-103952456
Length
822 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATT
5' ss Score
8.88
3' ss Seq
CCTCTCCTGTCCCTGCCTAGACC
3' ss Score
10.07
Exon sequences
Seq C1 exon
CTCCGTCGAGACCCACTTCTCCCGAGAAGTTCTCGGTGCCTCACGTCTGTGCCAGGTTTGGTCCTGGGGGCCAGCTCATCAAAGTGATTCCAAACCTGCCTTCAGAAGGACAGCCTGCGCTGGTTGAAATTCACAGCATGGAG
Seq A exon
GTAATTCCGTGGGGAGCAGTTCCGTGTCATCGTTCAGCGCCCCCACCTCAAAAACATGCTTTCCAGCCTGTCCTCTTCCACTTGCGTGTCCTTGCCTGAAAAGCAGTCTTAAGCAACGCTAACCCATGAGTCTGATTTGTAGGTGGTTTTGATTCTGTTCTGTCATCTATTTTTCCTCCCAGGAGTCAATATTTTGTTAGTAAGAATTTTAGGGGGGGTTGTGGTTCGTCCCCTGGGCGGGGAAGATCCCCTGGAAAAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCATGGACGGAAGAACCTGGTAGGCTACAGTCCACCGGGTCGCAAAGAGTCGGACACGACTGAGTGACTTCACTCTTTTACTTTTGTGTTAGACATGGAATTATCCTGTGTTCATTTTTTTGTTGTTGTTTGACTTTCTGATTTTGGAGGGAGGGCTCCATAGGTGCTCATTTTACCGGTGATCTGGAGAGTGGGTAGAGGAGCCTCGTGACCTCGGGGGGCTGGCGTGGGGCACACCACTCTGTGCCTGCAGGTCTCTTCCATCATGTGTATCCAGGCCCCGCGTCAGAGTCTGGGCAGGAGGAAGGGATCTCACTGCTTAAGTAAAGTTTGGAAGTCACTGTCGTAGAGCTGGCTTGCCCACGATCTGTGATGGAGGCGCTGCCCCCGTGGGGGACAGCCCGTCCCAAGGACGGTGTCCGTAGCTCTGTCTGCCGATGTGGCCAGCAGACGTGGGCTGGGCCAGGCAATGCTGTGCCACCCCCGTGAACCACTCTCCCCGTCCCTCTCCTGTCCCTGCCTAG
Seq C2 exon
ACCTTGCTGCAGCATACACCAGAGCAGGAGGAGATGCGGGCCTTCCCAGGACCTCTCGGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023933:ENSBTAT00000042743:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.417 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF129322=Sec16=PU(33.0=70.8)
A:
NA
C2:
PF129322=Sec16=FE(19.4=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:
CTCCGTCGAGACCCACTTCTC
R:
GAGAGGTCCTGGGAAGGCC
Band lengths:
200-1022
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development