BtaINT0130180 @ bosTau6
Intron Retention
Gene
ENSBTAG00000023933 | SEC16A
Description
SEC16 homolog A (S. cerevisiae) [Source:HGNC Symbol;Acc:HGNC:29006]
Coordinates
chr11:103958797-103964031:-
Coord C1 exon
chr11:103960519-103964031
Coord A exon
chr11:103958928-103960518
Coord C2 exon
chr11:103958797-103958927
Length
1591 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
CGATGTCCTTCTTCCGGCAGGAC
3' ss Score
9.61
Exon sequences
Seq C1 exon
ATGCAGCCGCCGCCCCAGGCTGTGCCGTCTGGCGTGGTCGGGCCGCCTCCGTCGGGGAGTCCTCAGACCATGTTCTGGTCTAACAGCCCTTACCGGAGACAGGCCGGCAGCCACGCTCCGATGGCCCCGGTAGCCTGCCCACTGCAGCCAGTGACAGACCCTTTTGCTTTCAGTCGACAGGCTCTCCAGACTACATCGCTGGGCGGTTCGTCTAAAAGCAGCCTGCCCATTTTGCAAGGCCCAGCCCTGCCGTCGTCCCTGCAGCGTGCTGGTCTGCCCGTGCCTCACACAAACACTGGGGACAGCTCCCAAGGGCCCTGCGAACCTCTGCCAGGGCCTCCGGTGCAGCCCAGGGCAGACGCCAGCCCATTTCCCGGGGCGCCAATGCCCTCGGCCTCACACGGGCCCGAGACGACCAGGAGTGCCAAGGCTCCCGGCCCAGAGCCTGAGCTCCCGGACCCGCCGTACCCGCCACAGTACATCCCAGCAGCGGGGTCCAGCGGCGCTCGCGGGGGCCTTCCACAGGGGCACGCGTCTGGGCCCGACAGGCCCCTGAGCCGGCCGAGCCCCCCCGACAGCGCCACACCCCCAGCAGCACTCCCGCTCCCCCCTCAGCCCTGTCAGCAAGTGCCTGGGCAGTGGGGGCCGGGGCAGGGAGGTCCACGGCCCCCAGGTCAGCATTACTGGCCTGGCCCAGAGGGGCCCCCGCAGATCCCAGGGCCCCACGCCTCCAGCGTCACCCACTTCCCCCCTCTGTCCAGCCTGCATCAGCGTCCTGGCCACGAGCAGCTCGGCCCCCCGGCTTCCTTACCAGGACCCTCGGCCAGTGGTGGAAAAAACGAGGCCGCCTACCTGCCCAGTGGAGACCACTCAGCAAATAGCTTTGATCCAGAGAGCGCGTTCAGGCAGAATTCCAGAGTTGGGAACGCTCGGGCAAACCAGGAGCTCAGGTCGAGTCCTGGAGTGAACAGAGAGCAGCTGTCAGGCCTGGCTGCTATTAGCCCGCTCGCTCAGGTAAACCGCCCAGAAAGCCGTTCGCACTACCTGCCGGGCGCCGGGGGTGGCTGGACCCCACTGGAGGTGGGCTCGGGCGCACTCGCCATGTTTTTCAAAGGAGGAGAGACCGAGAACGAAGAGAACCTCTCGTTGGAAACAGCGGGCTCTGCTGGGCAGGCCGACATAGACAGTTTCTGCCTCGGCCAGCTTCCCGCACACGTGGGCGTGGGAGGCGCTCACCAGGCCTTTCCCAGAGGCTCCAGCAGCGAGCCCATGCAGCTGGGGGGAGAGCCACAGCCAGCCTCTAAGGCAGCCGCCATGGACGTGTGGGCAGACACGGCCCGTGCAGGGGCGCAGTACGAGAACGTTGAGAACCTGGAGTTTGTTCAGAACCAGGAAGTTCTGCCGAGCGAGCCCCTCACCATGGATCCTTCCTCCCCAGGCGATCCGCTCAGGTGCGGGCCCCTTCCTGGCCCAGCTGGCCCCAGGCTCAGTGCGGTGGGCCCTGCGGGCAGCGGGGGCCCCAATCTCGAGGCCCTGGATATGACAGCGCACCCTGCACGGTCTGACAGCGTGTCGTCCGGTTACGGCGGCAAGAGCCACCGGGCCCTTCCAGGTGCAGCCAGGCCCTGCGACTCGGGTACCTTCATTCAGCAGGAAGTGGGAAAGCCTGAGGATGAGTCTGCAGGGAGGTTTTTTAAGCAGATCGATTCCTCTCCTGTCGGCGGCGAGACAGACGAGACCAGCAGCCAGAACTACCACGGCAGCCTGTCCCAGCCCTCGACCCCCAGCCCCCCAAAACCTACGGGGGTATTTCAGACGAGTGCGAACAGTTCTTTTGAACCCGTGAAATCGCACTTGGTTGGAGTAAAGCCCATTGAGGCAGATCGCGCCAACGTGGTAGGAGAGGTGAGGGGGCCCAGCGCCCACCAGAAGCAGCACAGAGCAGCCGCTGCCACGCCTGATGCCACCCCTGGCAACCTGGAGCAGCCTCCTGACAACATGGAGACCCTCTTCCCGCCGCAGCGCTGCGTGCCGCCTCTCACCACACCCGTGGAGGCCGGACGTGGACTTCTGCAGGCCACGGGGCCGCCCTTGGAAACAGTGCTGCCCGCACCTGAGAAGAGGCCCTCGACCAGGGCGCAGGGGCCTGGGACGTGTGAGAGCCCCGCCACGACCTTGTGGGCGCAGAACGAGCTCCCGGACTTTGGGGGCAACGTCCTTCTGGCCCCGGCAGCTCCCGCGCTTCATGTGCCAGTGAAACCTCAGCCGTCTGAAGTGATTCAGCCCCCAGACGAGGGGGTGGCACGGCAGGTGGGCCCTGGCTGTCAGAGTGGGGATGGCCTTGGCACTTCTGAGAACCTGGAGAACCCTCCGCAGCTTGGCGAAGAGGAGGTTCTGCCGCCGCAGGCTGGCCCCGGCTATGCCAGCCTGCTGTCCTCCCCGCCCACTGAGTGTTTGCAGAATCAGCCCGTCTTGATCGCCCAGCCCGATCAAAGCTATAGTCTGGCTCAGCCTGTTAACTCTTCTGTGTCCTTACCAAATTCTAACGAGAAGGCTCCATCCTGGAGAGACTCTTCTGTGGGAGATAAGCCCTCAGTCAGCGGCCGGGCTGCTGGTGGTGATCCTGGAGAGAATGTACCTTTGTCTGGGATGCCAGCCGGCTCTCTCGTCTGCTCGCCTCCGCCTAGCCATCTGGCTCAGAGTCCTTTTCCACAAGCTTCTGGTACCTATGACATGGTTTCTAATCAAGCTGCTAATTTGCTGGTTCAACTGCACTCTCATCCAAAGCCCTCACTTCCAGAAGGTCAGAAGGCCCACAGCGCAGAGTGTGTGCCTCCTGAGGGGCTGCCCAGCCCTGCGGGGGCCTCGGGCCTGGTGTTGGTGCCACCTGCAGGCGGCAGCTCTGTGCCTGGCAGCAGCAAGCCAGGCCTCTGTGGCAGGCGGGACGGAGCTGTGGGAGCCCTGGACTGCACGTTCAGTAGGACTTTAGAAAATCCTGCAGGAGTGTACGGCCCAGCCCATGCAGATGGCCCGGCCTCTGGTCAGCAGCCCACTGCCAGTTGTCGGCCTCTTGGGCCTGGGGCGAACAGCCCGGACCGTTTCTATCAGCAGGTGATGAAAGAGGCTCAGGACCAGCCCGGTGCAGAGAGAGCCAAGCAGGAGCTGGCGCCGCCACTGCCCGCTCCGCAGGGGCCCAGAGCAGTGCTTCTGGAGCCTTCAACCCCAGGGAGTCCCCCAGTGCAGGCACAGCCTGCAGACCCGGCCCAGCCTGCAAGCCCAGCTCCTGCTGACGCGGGTCAGCAGCTGCCGCCCCGGCCACCTCGGTCCTCCAGCGCCTCTGTTGTGTCCACCAGCTCGAGCCAGGCGGCCCCACGGCCCGACCAGCAGTGGCTGCAGCCCCCGCCTCCCGACCTGGCTTCCTATTACTACTACAGGTCCCTGTATGACGGCTACCAGCCCCCGTATCCCTCCCCATACCCGCCGGATCCTGGCCCAGCCCCCCACTATTACCAG
Seq A exon
GTAGGGCCATGCTCTTGGGCGGTTGAGCGCTCTGACCAGTGATCTCTTTCTCATGTCCTGCTCCGGGGCAGGGTTCTGCGGTCAATCCTGAAGGAAACCAATGGTCCCCCTGCTGGCACACGCCTCTTCATGAGCTTCATGAGAAGGGTGCTCCCTGTCCCAGCTCATTCTTTGGACCACAGCTCTTCTCCTGGAGGGCCACGCTGCACAAGAGCCTGTTTTATCTGGGGAGAATCACTACTTCATTTTGGTGTAGCACAGCATACCCCAGCTTACATGAGAAAGGACCCTCACTTCCTGTCCTGCCCACCGGCTCGCAGCAGAGCCAGAGTTCTGGGTGGCACATTTTGGAAAACTGGAATAGCCTCTTGAAGCTTCTTTCTGGTTTTAACATCAAAAACTTAACATGAGAAACAAGAGGCAAACTCTAGTCTTTTAAAGCCCTGCTTTAGGATAAAAGCGTTCAGGGTACGAGGCCAGGCTTGGGGCGTAGTGCAGGTGGAGCAGCTAGGAGCGGTGGCGGCGTGCACGCTCGGGCACCCGGCCACAGCACGGGGCCGCCACGCTGCACGGGATCCTTTCTCAGCTCTTCTCGGTGAGCCAGGCCCACGGGTGCTGTTTAGCTTCCGATTCATCCTGCTTTATTGTGACCCACGTGGACACCTTTGATTGTCTGCTCGTTACCATCTCGTGTCCTGGCCCAGCATTGCCACAGTCTGCAAAGGTAGAAGGATTGTGGACCAGGAGTTTGGAGCTCCTTGCGTGACGTGGCTGTGGGCCCCACACTGGAGGCCCCACAGTCAGAAGCAGCTGAGGGAGCAGAGCTGTGGTGGGCTGGGGGCCGCCTGGGGGTGGGGCGGCCTGAGGGGCTTCGAGAGTCTGTGTATGCGTGGGAATGAGTTACATGCCTAACCCCGAGACCTGGGAATCAGAGCCAGGAAGAGCCGCAGAGACTTATTTGCATGGAGGGAAATGACGCTCTGCAGGACCCCAGGGTGGGCCGGCAGAGTGTGGAGGGGCCCGAGCCCCAGCGGTACCCGGCACTGCTGCGTGGGAGCCCAGGCCCCAGTGGGGGTCAAGAGTAAGTCCAGGTTACGTGCTGTCTCGTTCTCCACCTGCTCTTGACAGAGAATCAGGCCCTGAGACAGGAAAGACAGGTCTGGCTCGTGCCTGGATCACCCATCCCTGCTTCAGGTTCCAGCATGGCTGTGGGGCCGCAGGGCTGCTGCATCCGGAAGGGGCTGAAAGCCTCGTGAGGCTAGAGCACGATCCTCTTTTTGGGGCTGCCTGTGCCCGCGGGACCCAATCCCAGGGGACCCGGATTGTTTTGCTTACTTGAATTGGTGCCCGAGATGGGACCCCAGGTTGTGGGGTGTCAGCACCTACTCAGGTGAGACCTCAGGAAGCGGAAGAGAGCCCTTGAGGCTCACCTGGGCATGGCCCGCTGCCGTAGGCTGTCTCCTGAGCCAGGCCGGGCTGGCTGTCTTTGGAACAGGGCTGTCTGCAGAGCCTTACCTGGGTCCTGAGAGCCGTGCCAGGTGCCTGCGTAGGTGGCTCCTGGCGTCTAATGACGATGTCCTTCTTCCGGCAG
Seq C2 exon
GACGTCTACGGCCTCTACGACCCCAGGTACAGGCCTTCTGACGGCGCTGCCTACGTGGACCCCTGTCGCTGCCCCGAGCCCGAGCGGCCCGGCTCCCGGGCCAGTCACTGCTCCGACCGCCCGGTCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000023933:ENSBTAT00000042743:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.939 A=NA C2=0.386
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:
CTTCTGGAGCCTTCAACCCCA
R:
CCTGTACCTGGGGTCGTAGAG
Band lengths:
342-1933
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development