BtaINT0128466 @ bosTau6
Intron Retention
Gene
ENSBTAG00000040521 | SAMD14
Description
Bos taurus sterile alpha motif domain containing 14 (SAMD14), mRNA. [Source:RefSeq mRNA;Acc:NM_001105018]
Coordinates
chr19:37171589-37172818:+
Coord C1 exon
chr19:37171589-37171877
Coord A exon
chr19:37171878-37172730
Coord C2 exon
chr19:37172731-37172818
Length
853 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTCCTTTTCTTCCTTGAAAGATG
3' ss Score
7.78
Exon sequences
Seq C1 exon
GGAACCGACGGCTGCGGGAGCCCCCTGCACCGGCTGCGCTCGCCTCTGCACTCGGGCCCCGGGTCCCCAGCTGGGGGCTCCTTCTGCCTGGAGCCCCCGGGATTGCGGCGCAGCCTGGACGAGGACGAGCCGCCGCCCTCACCGCTCGCACGCTACCGGCCCCTGCACAACACCGCCTCGCACGAGGGTCTGGCCGCCGCCTCCGGCTCGCCGCCCCGCTCCGCTGCTTCGTCCGACAGCTCGCCCAGCTTCGTGCGCCGCCACCCTCGCGCCGAGCTGCACAGCGAAG
Seq A exon
GTGAGCAGCGGCCGGCGTGGCGCCCCCTGCCGGCAAGCACTCCTTTGGGCACCGAAGCTCTTGGCCGGACCTCGGGTTTGGCACCGGGTGGCTCAGGGGAGGTGGGGAATAAAGACCACGGTTCATTCATTTATTTCCAGAGAGCCTTAATGTGTGCCAGACACTGTCTGGGCACTGGGACACACAAAAGAACAAGCAGATGCTGTCCTCCTCCTCGCGAGGCTTGTAAGTTCTAGGGGAAGCAGTCAAATAATTCCTTATAGTTTGAGGGGAAGCAATCCCTTAATGAAATGTATAGGTAGGTACAAGGTGTATTGAGTGCTATTCGAGAAAGGGAACGCAGGGCGGAAGGACATTTATCAGGCTGAAAACATCCTGGGAGCAGTTAGGAGCCTCCTGCAAGGCTTCTTGAGGAAGTGACATGTGAGCCAAGATTAGAAGGTTGGTTACAAGTTGGCCAAGATAAAATTAACAGTAAAGAGTAGCGATCCCTACTTTCTAGAGTGGTTTATGGTTTGTATAAGGCTTTCATAAACATCTTATTCAGTTCAGTTCAGTCGCTCAGTCGTGTGCCACTCTTTGCAACCCCATGGACTGCAGCATGCCAGGCTTCCCTGTCCTTCACTATCTCATCCTATTAGGTCTCATGAAACAGGCAGTGTTATTAGCCCCATATTTAAGACGCAGGAAGCTCAGAGAGGTAGTGACTTGTCCTAGGTCACACAGCTAGTGAAAGGCATTAGAGTAAGGTTGCCTGATTCTAAGTCAAGAGAATTTCTATCACCTTATTGGAAGTTGAAAGAGGCACACAAGCCACCACATAGGCTATTTCCTTCCTTTTCTTCCTTGAAAG
Seq C2 exon
ATGACAGCCGGGATGCCAGCCCACCTGAGCCCGCCAGCCCTACCATTGGCCTGGATAAGAAGACTCGCCGAAAGTTCCTGGACCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040521:ENSBTAT00000051851:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGCCTCTGCACTCGGG
R:
GTCCAGGAACTTTCGGCGAG
Band lengths:
334-1187
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]