BtaINT0130209 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000854 | SEC16B
Description
SEC16 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr16:60790259-60792164:-
Coord C1 exon
chr16:60791841-60792164
Coord A exon
chr16:60790372-60791840
Coord C2 exon
chr16:60790259-60790371
Length
1469 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGA
5' ss Score
9.11
3' ss Seq
CCTTTTTTGTGATTCTTTAGGTG
3' ss Score
11.01
Exon sequences
Seq C1 exon
AACATTAGAGAATTTCAGAAGATCTAGGATGGAACCTTGGATTCCCCAGTGGCTGCCTCAGCCATCGGGGAGGCCCCCAGCACCATCAAAGGATCCAGACCGAGGGCTTTGGAAAGATAGATACTATCAGCCTATTCCCCACTCTTGGCACAATGGAGAGAGGGTCCATCAAAGGCAGGATGTGGGCAGGAGCCCCCAGCCACAGCAGGACCCCAGGGAAGACCTCCAGGAGCCTCACTATGCAGCCAGATCTGGGGAATGGCGTCCACCTGTGTCCGGGGTTGACTATTACGAAGGCGGTTATCCCAGTCAATTGTATTCAAG
Seq A exon
GTATGAGTTTAGAGCTTGGACTTGATCCAGCTCTCCCAAATGCTTGTGAACAGATCGTTCTTTTCCGTCTTCCTTTTCCTTTTATTTCTCTTCTTCCTTTTCCTCCTCCTCCTACATTGACTTAGCTAAACCCCTTCCTTTCCCAGGCTAGATTGTGGTGACTGAAAATATAGTTTATTTCCCTTTGTTAGTCCCTAGGGGTGCTTCTTAAGAAGCCATCACAACACAATTGGGTGTTGGGGGCAGAGGAGAGAGTAGAAAGAATGGTGAAATTCAAGACGGCAGATGAGACCCTCTTACTCTGGCATCACAAAAGGCAGGATTTGTAGACTATGGAAAAGCTTTTCCTATGGATGTCTATAAAAAGCTCCTTATCCTCTTTGATGACTCTAACCCAGGGTTAGCACCGAACCCACCAGCAACATAAGAGTCCTAGTACCTAGAACAGTACCTACAGTGTGATGCCTACACAGAAAATATATACATTGAGTGAATGATTGGGAACTTCAAAAAATCAGAGAGCAGATAGAAGCTTGGAGTCTCCAAGTTCAGAATGAAAAGGTCTCTGTGAGGTAATTCTGGGAGAATCTGGAGTTTCTACTTTTGGCCTTCATGTTTTATGCAATGTTGCAAGCCATCTATTTTTCACTTTAGCTTTTTCAGGTGGGATGATATTTTCCTGCTTCTAGGTTTAAGGTTGAAATTATGACAGTTATTGTAAAGAATTCTGTCCCTATGAAATAGTAAAGAATTATTGATTGATAAAAATAGTGTTGAATTCTTGAAGGAAGGTCTGTTAAGGGTAGAGGCAATAACAGCAAGCAGATTTAAGATGGTCCAGTTTGACTTTTCCATCTCATTTCCATCTACAATATGCATGGGAATTCCAGTGGTATATTGGGTACTTTACACAGTTATCTTGGGAAGGGGGTTCCTAAGGTGATATCAGGGCAGGGTTTTCTTAGATAATATTTCATGTTGTTGGATGTGTGTATTTGAGGAGTAAGAGGGATCATGAGGAAGGAGAAGAGACACTCAGCTGTGGTTTTACTGTAAAAATTGCAGCCTTGTTCTGACACAATGATTCTATTCCTGCTCCGATTCTAGATTTTCGGTTGTAGGATGAACCATAGCTTTAGAGCAGATTCTAGACGGGTATCTCAGTTTTGTCCTCTGGAGTTGTTTTGTCTGTCAAGTCCTTCATTGTTTTTCTTTTTTTAAAAAATCGTTTATTTATTTGGCTGTGCCGGGTCTTAGTTGTGGCACTTAGGATATTTGGTCTTCGTTGCGGTGTGTGGAATCTCTGGTTGGAGCATGTGCGATCTAGGTCACTGACCCGGATCAAACCCAGGTTCCCCGCATTAGGATCGTGAAGTCTTAGCACCAGACCACCAGGAACGTTGCTCTCCATTGGTTTTTCTTTTGCTATGCTTATCCTTGAATGAGTGGCCTTTTTTGTGATTCTTTAG
Seq C2 exon
GTGGAGCATTGAGGATCTCTATCAGAGCTATTACTCTCCAGCCCTAAGGGAAGAATATGCTTATGGAAGTTATTACTACCATGGACACCCACAGCAGCTTCAGGAAGAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000854:ENSBTAT00000001137:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=0.308
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:
CCCAGCACCATCAAAGGATCC
R:
TTCTTCCTGAAGCTGCTGTGG
Band lengths:
358-1827
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development