BtaINT0130228 @ bosTau6
Intron Retention
Gene
ENSBTAG00000000854 | SEC16B
Description
SEC16 homolog B (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:30301]
Coordinates
chr16:60783179-60786615:-
Coord C1 exon
chr16:60786471-60786615
Coord A exon
chr16:60783331-60786470
Coord C2 exon
chr16:60783179-60783330
Length
3140 bp
Sequences
Splice sites
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
3' ss Seq
CACCTGTATTGGTTGGTCAGAGG
3' ss Score
1.32
Exon sequences
Seq C1 exon
CTATCACTGATGGAGGAGTCCAACCTTCTCTGGCAGCATGAGTCTGGTCTCACCTCCAGCAGCTACGAGCTCAGTCAGTACATGGCAGATGCTTCCGAGCTCTGTGACCCCATGACTTCAGCCGTTTGGAGCCCAGTTCAGGCTG
Seq A exon
GTGGGTACTGACGTGATTAAAGGAGTTGGCTGAGTCTGATGAGAAGAGGGCTGGGTGGCACATTTCTTGGAAGGTCAACTTTACCTGGTATTTCCAAGAGTAGATCCCTTGTCTGCCTCATTTGCATATGTAGGTCCCCTGGGCAGAGTGGCCAGCTTTGGCTCCATTCCCCATCTTTTCTTTGGTACTGAAGAATGCATCATAGCTGATTTTTGGGAAGGAACGCGGCCCATGGTCATCATCAGGTTGGGAGAGGAGGCCCTCGGAGGTACTGTAGGTAACAAGGGAAGAAAGTAAAGACCAGAGTCAGTTTGGGAAAGTCAAGGCAGGCCACGAAGGTCTGGATGTAGGAGATTTGCCCTGAGTACTGGGGCTATGAGAGCCAGTCCCCAACCTGTCACCCTTATGAGAGTCTAGCCCTGGTACATTATCATTTGGACTAAACCATCAATTACTTGCATTATATTATTCTTTTTTCTTTTTAAAATTAATTTTTTATTGGAGTATAGTTGATTTACAATGTTATTTTCCGCTGTACAGCAAAGTGAACCAGTCATATGTATACATATATCCCCTCTTTTTTGGATTTCTTTCCCATTTAGGTCACCGTAGAGCACTGAGTTGAGTTTCCTGTGCTATACAGTTGTTTCTCTTAGTTTTCTATTTTATACCTGATAGTGTATAGATGTAAATCCCAATCTATCGATTTATCCCATGCTCCTTTCCCCTCTTGGTGTCCATACTATGTGTCTCTCTTTCTGCTTTGCAAATAGGTTCATCTGTACCATTTTTCTAGATTCTACATACATGCCTTCATATATGATGTTTCTTTTTCTCTTTCTGACTTGTTTCACTCTGCAAGAAAGTCTCTAGGTCCATCCACATCTCTGCAAATGGCACAATTTTGTTCCTTTTTATGGCTGAGTAATATTCCATTGTGTATATGTGCCATATCTTCTTTATCCATTCCTCTGTCAATGAACATTTAGGTTGCTTCCATGTCTGGGCTATTGTAAATAGTGCTGCAATAAATTTCAGGGTGCATGTATCTTTTGGAATTATGGTTTTCTCCAGGTATATGCCCATGAGTGGGACTGCTGGGTCATATGGTAGTTCTGTTTTTAGTTTTTTAAGGAACCTCTACACTGTTCTCCATAGTGACTGAACCAATCCACTTTCCTACAAACATTATAAGAGGGTTCCCATTTCTCCACACTCTCTCCAGCATTTTTTGTTTGTAGGTTTTTTGATGATGGCCATTCAGACCAGTGTGAGGTGATATCTCATTGAAGTTTTGATTTGCATTTTTCTAGTAATTAGTGATGTTGAGCATTTTTCATGTGCCTCTTGGCCACCTGTATGTTTTCTTTGGAGAAATGTCTATTTAGGTCTTTTGTTCATTTTTTTGATTGGATTGTTTGTTATGTTGATATTGAGCTACATGAGCTGTTTATATATTTTGGAGATTAGTCCCTTGTGTGTTGCTTCATTTGCAAATATTTTCTCCCATTCTGTTATTTATTTATTTTTTTGGTCTTGTTTATGGTTTCCTTTGCTGTGCAAAAACTTTTAAGTTTAATTAGGTCCCACTTGTTTACTTTTGTTTTTATTTTCATTATTCTAGGAGATGGGTCAAAAGATCTTGCTGTGATTTACATCAGAGTGTTCTGCCTGTTTTCATCTAAGAGTTTTATAGTGTCAGCCTTACATTTAGGTCTTTAACCCATTTTCTGTTTATTTTTGTGTATATAGTGTTAGGGAGTGTTCTAATTTCATTCTTTTACATGGGTTGTTCAGTTTTCCCAGCATCACTGTTGAAGATGTTATCTTTTTTCCATTATCAAATATTGGGTAACCGTAGGTGTGTGGGTTTATCGCTGGATTTTTTTATCCCATTCCATTGATCTATATTTCTGTGTTTGTGCCAGTACCATGCTGTCTTATTACTGTAGCTTTGTAGTATAGTCTAAAGTTAGGAAGCCTGGTTCTTCCAACTCTGCTTTTCTTTCTCAAGACTGTTTTGGCTATTCAGGGTCTTTTGTGCTTCCACACAAATTATAAAATCTTCTGTTCTAATTCTGTAAAAAATGGCATTGGTTATTTGATAGGGATTGCATTGAATCTGTAGATTGCTTTGGGTAGTACAGTCATTTTCACAGTATTGATTCTTCCAGCCCAAGAACATGGTATATCTGTCTATCTCTTTGTGTTGTCTTTGAAATCTTTCGTCAGTATCTTATAGTTTTCTGAGTACAAGTCTTTTGCCTCTTTAGGAAGGTTTATCCCTAGGTATTTATTCTTTTTGTTGCAATGGTAAATAGAATTGTTTCCTTAATTTCTCTTTCTGATCTTCCATTGTTATCATACAGGAATGCAAGAGATTTCTGTGCATTAATTTTGTATACTGCAACTTTAGCAAATTCATTGATTAGCACCAGTAGTTTTCTGGTGGCCTCTTTAGGATTGTCTATGTTTAGTATCATGTCATTTGCAAACAGGATATTTTTACTTCTTTTCCAATTTGGATTCCTTTTATTTCTTTTCCTTCTCTTTTTGCCATGGCTAGGATTTCTAAAACTACGTTGAATGATAGTGATGACTGCAGGCATCCTAGTCTTGTTCCTGATCTTAGAGGAAATGCTTTCAGTTTTTCATCATTGAGAATGATATTTGCTGTGGGTTTGTCAGGTATGGCCTTTATTATGTTGAAGTAGGTTCCCTCTATGCCCACTTTCTTGAGAATTTTTTTTTATCATAAATGGGTGTTGAATTTTTTCAAAAGTTTTTTCTGCATCTATTGAGATGGTTGTATGGTTTTTATTCTTTAATTTGTTAATATGGTACATCACATTGATTGATTTGCATATACTGAAGAATCCTTGCATCCCTGGGATAAATCCCACTTGATCATGGTATATAATCCTTGTAATATGTTGTTGGATTTGGCATTATAGTCTGACATATTCTTAAAGGCCTAAATCTGACTTGGAGCATGTATTTCTTCTAATTATGTAACCCACCCAGAACCTTATCTTGGTCCCAGTTGAAATTTGCGAAGAAATATGTCTGTGGAATATTTCTTACATAAAGCAAAGCAGTGGTTGTAATGCTAACAGTGTCCACCTGTATTGGTTGGTCAG
Seq C2 exon
AGGACATCTCAGCAGCTGGTCCCAAGGAACCCATGAAGTTCTATGTCCCTCACATGCCTGTGAGTTTTGGGCCAGGAGGTCAGCTGGTGTGTGTGAGTCCCAGCTCTCCCAGTGATGGACAGACAGCCCTTGTTGAACTGCACAGCATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000000854:ENSBTAT00000001137:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.194 A=NA C2=0.392
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF129322=Sec16=PU(33.3=66.7)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development