BtaINT0130215 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000854 | SEC16B
Description
SEC16 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr16:60760186-60761826:-
Coord C1 exon
chr16:60761686-60761826
Coord A exon
chr16:60760306-60761685
Coord C2 exon
chr16:60760186-60760305
Length
1380 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
CATCTGGAAACCGGGCACAGCTG
3' ss Score
-1.16
Exon sequences
Seq C1 exon
GTGTATAAGCTCCTCTATGCGTCCCGTCTGGCAGATTATGGCCTCACGTCCCAGGCCTTGCATTACTGCGAAGCCGTTGGCACAGCCCTCCTGAGCCACGGAGAGAGCAGTCACCCTGTGTTATTAGTGGAACTCATCAAG
Seq A exon
GTGAGCTTCTCAAAGGGCTCTCTGCAGGTGTGTTATCTTCAGTGTTCAGAGAAAGCTATTGTAAAGCGGCTCAGAGGCCCATTTCCTCTTCTTTGAACATGCTATAAAATTGGAGCCCCTGGCTGTCTTTGACCACATATGCATGCCCAGATGTGATAAGCAGAGGCCTGACACTGCATAAAGAAGGATGCTATGGGTGGGAGGGGCGGGGGACGGGAGTGGGTTTGAAATGGGACTGGAAACCAGGCGTGTGCTGTGCAAGGAAGTCATTCTTGCATCTGCCTTTTTGGTACAGTAAAAATGCATGTTATGGCAAACCATTTTAATTATAAAAGCTGGGCTTAGAAAATATAGTTTAGTGATTAAAATGGGAAATGATCCTTATTAAAATGCTTTTAAATGCATGGAATATTTTATCACATGTGAGATACATTCAAAAAAGAGAAAACAAAAACATCAACTTTTAGTTCCTGGGAAAGAAAACAATCAGGCAAATAGTTGTTCCAATTAATTGAAGAAAAATCCATTGGCTGAGAGTGAAAAGGCAGCCTACCATCACTTTTTGCTTTGCTTTAAATGCGGCCCAAGTGTTGGATTCTGTAGCCAGTAAAATCTGTGCTACTGAGTGCCCTTAATGGCAAATTTCTGCCAACAGGATGATGGTTGTAGGCAGCTCAGGAGCCAGAAGGGAGGAGTCGGAAAGTTTGGGGACTTTATGATGGGATGTTGTTGTTTGGTCATTGAGTTGTGTCCTACTCTTTGCGACCCCATGGACTGTAGCCCATCAGGCTCCTCTGTCCATGCGATTTCCCAGGCAAGGATACTGGAGTGGGTTGCCATTCTCCCCTCCAGGGGATCTTCCTGACCCCGGGATCAAACCTGTGTCTCCTGCATTGGCAGGCAGATTCTTTACCGCCGAGCCACCAGAAAAGCAATGACTGAATAGTCTTGCAACATAAGCAGTCCTTCGACCGGCAGCATGGGCTTCACCTCATGGGGGGCTTGTTAGCAATGCTGGATCTCAGGCCCCACAGACTTCTGGGATCAGAATTAGCATTTTAACAAAATCCCAGGTGGTTCCTACCAGCTCTGAAGTTTGAGAAGCACTGCTCCTGAGAACAGCTTTGCAGAGACATAGAGCAGAGTAGCAGTTTCTCCTCATATTTTATTTAGTATCTAACACCAGGATGGTTTAACTGTTTATGTTGCGATTTGAGGAAGGTATCTGCTGAATTTGCTATTCGGCAGTTCTTTGTAATCTGATTTACAAGTGAGCAAAGGCTTCCTATCTTCTTTTTTCTTACTGCTTCTCCTCATGGTCCATTTCTCCTACTTTTCTCCCTCCTTTTCCCTCTCTTACCATCTGGAAACCGGGCACAG
Seq C2 exon
CTGGCAGAGAGACTGAAGCTGTCAGATCCTCTGGTTTTAGAACGCCGCCGCCACCGAGGAGACAGGGACCTGGAGCCGGACTGGCTGGTGCACCTTCGGGGGCATCACAGGGAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000854:ENSBTAT00000001137:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.275
Domain overlap (PFAM):
C1:
PF129312=Sec16_C=FE(18.8=100)
A:
NA
C2:
PF129312=Sec16_C=PD(5.3=32.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAAGCTCCTCTATGCGTCCCG
R:
CTGCAGCTCCCTGTGATGC
Band lengths:
256-1636
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development