BtaINT0130205 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023933 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr11:103953279-103954443:-
Coord C1 exon
chr11:103954269-103954443
Coord A exon
chr11:103953422-103954268
Coord C2 exon
chr11:103953279-103953421
Length
847 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
TTCACTTGATCCACATGTAGCTC
3' ss Score
4.14
Exon sequences
Seq C1 exon
AGTCAGGTGTACCGGAGTCATAACGTGCCCTCCGGGTCCTATGAGGTGCCCCCTCCGCCGGGCTCCTTCCACGGTGATTACGCCTACGGCCCCTACGGGAGCGACTTCCATGGCGCACCAGGCTTTCCAGAGTACGGCTACCCCGCCGAGGCCAGCTGGCCCTCCGTGGAGCAAG
Seq A exon
GTGTGTGTGCAAGGCCCTGGGCTCACACAGTGCGGAGGGGCCCAGGGGCTCCTGGGACCAGCGTCTGCGCCTGCGGCAAGAAGGGCTGGGCTACGACCCAGGTGGGAACTGGTGATGGTCGGGCCTGGGCTTCCCTGGGAGCTGCTGGCCTGTCCATCACATCCACTTCAGTGCAGCGCTGCCTTGAGGCTTCCTGCCCAGGTCAGCTCCCCATGTGGAGGGACAGCAGCCCCCTCCCGCCACCCGCCCTGCGAGGCTGACCGCACGGGTGCGTGGCTCTTAGAGGAAGCCTGGTTCTCCTTGCAAAGCTCCTGATCGTTTACTTACCGCACGAGCTGCACCTCAGTGCACCTTTGAGATGCTTGATCACGTGCTGTTTCTTGGAAACCTGTACGAGTACGTGAAGTTTGAGAACAAACAGTATAAGAGATAACTGATGGACTTGCTCGAATGTTCCGTAATTGGAGATCTCCCTTCCTGCTCGCCTGCGGTGTCTCACTCTCAGTCGTTACCTCAGCGCGCTGATGCTGCTCTAAGGTCGTAGCTGTGAGGAGTGCGCAGGGCCACCTGAGCAGGTTTCTGTTTTAAAAGCACAGCACATCCTGATGGCTCTTAAAGGAATCTTTTCATTTTAGAGGAGAAACTCCTTGTTTTTAATGGTTTGTTTGTGTGACACATGCGTAAGTTCTCCTTTTTAATAGGATATTTAATAGTTGAAAGGCAGTCGATCTGGATAATCTGTGATTCCGGTTGTCTGGGTGTCTTAAAAACTTGAGCTGTTGATCTAGTTGAGAAGCATTAAACAGTGACAAGCTGGCAGCTTCTTTTTCACTTGATCCACATGTAG
Seq C2 exon
CTCCGTCGAGACCCACTTCTCCCGAGAAGTTCTCGGTGCCTCACGTCTGTGCCAGGTTTGGTCCTGGGGGCCAGCTCATCAAAGTGATTCCAAACCTGCCTTCAGAAGGACAGCCTGCGCTGGTTGAAATTCACAGCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023933:ENSBTAT00000042743:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.847 A=NA C2=0.417
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129322=Sec16=PU(33.0=70.8)
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:
AGTCAGGTGTACCGGAGTCAT
R:
CTCCATGCTGTGAATTTCAACCA
Band lengths:
318-1165
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development