BtaINT0130193 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023933 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr11:103943496-103945538:-
Coord C1 exon
chr11:103945407-103945538
Coord A exon
chr11:103943577-103945406
Coord C2 exon
chr11:103943496-103943576
Length
1830 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
CTGGTGGTTTCTCTGTTCAGAGC
3' ss Score
8.04
Exon sequences
Seq C1 exon
GGCTCCTTCAGGACCTCACCAAGTCCCGACACGCCGCCTCAGGCCCTGCAGCTGCCTGCGCCGCTGACGCCCGCACCCGAAGCGCAGAGACCTGTCCAGGCCGCCAAGAAGGAGAGCAAGGAGCCGAAGAAG
Seq A exon
GTGACTCACAGCCCCAGCCGGGCAGGGGTGGGGTGCCGAGGCAAGGGGACATCGTGTGTGTGAAGATGGGGCCCAGCGTGTTCTGGAAGGGCAGCGTGTGTGCAGTGAAGTGTGTGCGGTGTGTGTCTCTGTGTCCACGTGTGAACCACCAGCTCAGAGCGGGGGACGCTGCCTGCCCCAAGGCCCGCGGCTCCAGGGCCCATGCAGCCGACCGGAGGCTCATGTCAGCACTGATCTGCCCCCACTGCCCAGGCTGGGCCGCGCGTGCGGGAGTGGCCCTCGCCGTGCAGCGCCTCATCGTGGGTGCGCCACGCTGCTGCTGTCCTTTCCCCCGGGAACGGACATGAGTCGGTGTCGCTCAGGTTGCGTTTACTGGGGATCCAGCCGCGTGAGTCTTCTTGTCTGTGTCTTGTGGTGGACGCACTTCTTTCCCAAGGGTGTATCCCAGCATCACGGGACAGCTGTGTGTCCAGCTCTAGAACGTCCTGCTGGACAGGCCTCCTCGCGGGTTTACCAGGTGGTCCTTCCAGCACCAAGCAGGCAAGACCCCGGCCGCATCGTCCCTGGGGCCGCGTTGTCTGCCCTCCTGACGGTTGCCACCGTGCCGGGGTTGGTGACACTGATGAGCAGTGACACGGCGCCTTTCTGAGTGCCTGTCTGCCCACCCCGACCTTGTCTGTGGAGGGCTGCTCAGGTCTTCTCCCGTCCTTTACGGGGCCCTCAGGTTGGCGGTGGCCCTTCTCACGTGGATGCAGGTTCTGTCAGATGTGTCTTCTGAGCATCTCCTCCAGCCTTGGGTGGCCTCTTACCCTTTGGTGGCTGCTTGGGAAGAACACTGTTCTCAGTCTAGTGCTCAGCAGAGTCGGCTTTCACGGCTGGTGTCTTTTTTCTTTAATTATTTATTTTTGGTTGTCGTGGGTCTGGGTTGCTGCACCCAGGCATTCTCTAGATGGCCGCGGGTGGAGGCTGCTCTTTGTTGCCACAGGCTTCTCACTGCCGTGGCTTCCCTTGTTGTGGAGCACGGGCTTCAGGGTGCTCGGGCTCCTGGGCTCTAGGGCGCAGGCTCCGTCGTCGGGGCTCCTGGGTTTAGTTGCTCCGCAGCACAGGGCATCTTCTCGAATGAGAGATGGAACCCATGTTCCCCACGTTTGCGGGCAGATCCCTACCCACTGTGCCACAAGGGAAGCCCCCGTGGCTGGTATCACAAGTAAACACAAGTTTAATTCAAAGCGTGCACAAGCCGTGCAGGTGACTGGACGCGGCCGCCCGCCCCAGTGCAGAGTCGGCCGCGGGTTCAGAGGGGGTGGGGGCTGTGGAGCTGCTGCTGCTGCACTTTGCGGCGGACGTGATGGGCAGCGTATGCATGATGAGGCCAACCTCCCTGACGCCTGACCTTTCCCAGTCTGGGGGTGCAAGGGCCTGTTCTGAGGAGCCCGCACGGACTTGCTGGCTGTCACCACTGCTGGGGGAGACGGTCTCAGGCTGCCTATTGTTGGCATTTGGACATGAGAGGCTCCAGGAAGCACGTCACTGTTGCGATCTTTGTAACTGTGGTGAGATACTCAGCACGTTGGTCACTTCCACTGTTTTAAGTGCGCAGTTCTGTCGTGCGGCCACCACCACCGTCCCCAGGGCTCTGTCTTCCACACCGAACCCCTGCCTCCACTGCGGGGAGGCCCCTCCCACCTCCAGCCAGGCGTCTGCTTCCTGTCCTGTGGCCCTGGCACCTGCGACCTGACACCGGGGCTTGCGCGGGCTGGCCCTGCTGTGCCGGGCTCGTTTCTCTCAGTGCCACGACCTCAGGCTTGTTCTGGTGGTTTCTCTGTTCAG
Seq C2 exon
AGCAGCGAATCCTGGTTCTCTCGCTGGCTGCCTGTGAAGAAAAGGACAGAAGCTTACCTGCCAGACGACAAGAACAAATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023933:ENSBTAT00000042743:21
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=0.741
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:
TCCTTCAGGACCTCACCAAGT
R:
TTGTTCTTGTCGTCTGGCAGG
Band lengths:
206-2036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development