BtaINT0130227 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000854 | SEC16B
Description
SEC16 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr16:60786471-60788158:-
Coord C1 exon
chr16:60788050-60788158
Coord A exon
chr16:60786616-60788049
Coord C2 exon
chr16:60786471-60786615
Length
1434 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACC
5' ss Score
9.24
3' ss Seq
TTGTTGTTTTTAACTTCCAGCTA
3' ss Score
8.95
Exon sequences
Seq C1 exon
ATCTAAGAGTCGGAATCCTTATAAAGACAGTCCTGCTTCTAACTCTGGACAGGAGAGGCCCGAGGACCTGTTCATGGAGAGTCCGCTAACTGGGGCACAGAAAAACAAG
Seq A exon
GTAACCTGAAGTGACACAGGGCGGGTGGCCTGTGACAGTGCATCACAGCTGACATCATCAGCAGTGGCAGGGCAGGGCCCTGGGGACGGGGGTCCCTAGTGCCAGCAGTCTAAGGGGTACCATTCCTCCCCTCTTGGCATAGCCTCCATGCCCATGTCCTCCTTTCCCTGATTCCTGTTTCAGTCTTCTGGGTCTGGGGCCCTTATTGAGCCCTTTTGCTTTTTTTTTTTGCCAAGTTAGCTGTCAGGAAATATCACCCAAGTCACTCCAAGGTGGGAAAGAAAAGAAGTGTTACCGGTACCCTGGTGGACTAGCAATTTGGTTTACTCAGGAAGTGGGAAGTTGCTAGCATCTTTTAATTTGGGTATGAAAAGCAGAATTTTAAACTTTTCTTGACTCTTCCATTTCTCTCTTCTGAAATCTTACTGGGTGTACCAGTTGGGCTATGAAATGGAGCTCTTGAATATTTTAAACTTTCAATTTTGGAATAACTTTAGATGTATGGAAAAGTTACAAGAGACAAGGTCTTAATTTTTGACAGTCTTGTATTAATCTTCTATCCCTGATTAGGTTTGTATGATTTGGGGGAACAGTTTCTTCTGTACACCTAATACTTAACAGGGCCGGGCACCTATTAGGACTAACAGTAACAACAACGCAATAACAGCAGTCATATATGAGTATAGTACTTTACAGTGTGGACAAAGAGCTTTTGTATCCGTTGTTTGTATCTGTTTTACAATCCTCCCAGAATATAAATTCTGTGAATTTCTTAAAAAAAAAAAATTATTTATTTGGCTGTACTGGGTCTTGGTTGCGCATGCATCTTCACTGCAACACGCAGGATTTTTTTTTAGTTGCAGCATGTGGAATCTTTTAGTTGTGGTGTGCAAAATTTCAGCTGCATCATGTGGGATCTAATTCCCTGACCAGGGATTGAACCTGGGCCCCCTGTATTGGGAGCACAGAGTCTTAGCCCCTGAACCACCAGGGAAGTCCTTTTGTACCTGTATCCTTAGGGAAAGCATTGCACCTGGAGCATAGTAAGTGCTCATTAAACAGTTGGCGAGTGAATGCAAGAGGTAAGTACTTGAACTATATAGGATAGGTATGATTATCTACATTATAAATGAAGGTACTGAGCTTAGAGAGTCTACGTCACTTGTTCAAGGTCACAGAGCCTGGTATTAACAAAGCTGGAATTTGAATTAAAGTCCCCTGACTCCAGGACCTGCACTCTACCCACAGCCAAAATGAATCCTTTAGCGAGAATTGTCAGTTGAATGATCCCTTCTTTTCCTTTCAATATGTCCACATTCATTAGATTTATTTGAAAGTTTGAATTTTGTTGCTTTAAAGAAACACTTCGGAGGACTGTGTCTCTGAAAGTGCCTCTGATTCTTCCCATGTGTTCTTGTTGTTTTTAACTTCCAG
Seq C2 exon
CTATCACTGATGGAGGAGTCCAACCTTCTCTGGCAGCATGAGTCTGGTCTCACCTCCAGCAGCTACGAGCTCAGTCAGTACATGGCAGATGCTTCCGAGCTCTGTGACCCCATGACTTCAGCCGTTTGGAGCCCAGTTCAGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000854:ENSBTAT00000001137:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.946 A=NA C2=0.194
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
AGAGTCGGAATCCTTATAAAGACAGT
R:
CCTGAACTGGGCTCCAAACG
Band lengths:
246-1680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development