BtaINT0128469 @ bosTau6
Intron Retention
Gene
ENSBTAG00000040521 | SAMD14
Description
Bos taurus sterile alpha motif domain containing 14 (SAMD14), mRNA. [Source:RefSeq mRNA;Acc:NM_001105018]
Coordinates
chr19:37173087-37174756:+
Coord C1 exon
chr19:37173087-37173246
Coord A exon
chr19:37173247-37174636
Coord C2 exon
chr19:37174637-37174756
Length
1390 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TATGCCCCCTTTCCATCTAGGAA
3' ss Score
11.55
Exon sequences
Seq C1 exon
GGAGTCGGTGGAGGGGTCCAGCAGGTCAGGGGGCTCCCCGTTCCTGCCCTTTTCCTGGTTCACAGACAGTGGCAAGGGCTCCGCATCTTCTGGCAGCACCACCTCCCCGTCCTGCTCCCCTAAACGCGAGGGTTTCAGCCCTAAGAAGTCAGCTTCTCAG
Seq A exon
GTGAGTCCATGGCCTTCTGGCCTCCATCCTGGCCCCCAGACTCAGGTGACATGAGGACATACTTCACCCTGGCTTGGGCCTGGATCCAGGCATTCCCAGAGTCCATCTGTCCATCCAAGGAGCCATTCGACGATCATTAATTCATCCAGTCTCTGAGTTCAGGCATTCACTTGTTCACTTGTTCGTATGCCGAGTGGTTCCTTTGTTGACTCATTCATTGCTGTCTCCATTCAACACACATAACCGAGCATTATGATCCCCTAGTACACACCCAGCCTGAGGGCTCCTCTATTCCTGCTAACTCTTCTGCCTGACTCAGTTCTGACTCCACATCCTGTATTAGGAGCTGGCCTACGTGCGGTACAGTGAGGCTGGGGGGAACAGAGATGAATAGGACCGCAACCTAGCTAGTGCTTGGAAAGTTCACAACCCTGTGGGTGAAGTGAGACCAAGGAACAGAAGCAACAATGAGCACCTATTTATGTTCACTAGGATTCTGTGGCCTACAAAGCTCCAAAAGCATTTTTGTTTATCCTCATAAACGTTCAGTGAAGTAGGGAGGGCAGGCACACTCATCCCTATTGTGAAGTGAAGTGAAGTGAAAGTCACTCAGTTGTGTCTGACTCTTTACGACTCCATGGTCTGTACAGTTCATGGAATTCCCTAGGCCAGAATCCTGGAGTGGGTAGCCATTCCCTTCTCCAGGGGATCTTCCCAGCCCAGGGATTGAACCCAGGTCTCCCGCATGGGAGGCAGATTCTTTACCAGCTGAGCCACCAGGGAAGCTCATCTTGTACAGATGGGCAAATGCAGGCTGAGACTGAAGGGAATTGCCTACAGACTCAACTGGATTTAGATGCCAGGCTCTAATGACCCCCAGCCCTGTGCTTGTTCTGTGATTCTGTTCCTGTGTGCAGCCGGGTCAGAGAAGATCAGAAAACTGTACATTCAGGGGAGAAAGGGTCCCTCTCCCACATCCTCCCTCCCTTTCTTCCATTGTGCTGGGCCCTGGTGAACAGACACAACCCAGACACTCGTATAGCTCAGAGTCCAGTGAAGACATGACATCTAACCAGGTTTTTATAAGCCAGGGTGCTGGAGGCCATGCTGGAGAGGCTCAAGGCAGGAGACCCAGCCCGGGGAAATCCCGGTCAGCTGTCAAGGAAGGGACAGCAGCGTGACCTCCATTCCCGCTAACTGCTCAGTTCTAGCCCTGCAGCCTTGCTCTGTGTGCCTGCCCAGCTCCTGGTTCACATCCAAGGGCCCTGAGAAACTCTTGGTGCCTGGTCCTGGACTTCAGCTCCATTTGAATGGGGATGGTAGGTTGTGGGTTGCTGCCTTGGTCTTGAGGTGAGCTCTCTCCTCAGCAGTATGCCCCCTTTCCATCTAG
Seq C2 exon
GAATCCACCCTGAGTGATGATTCCACACCCCCCAGCAGCAGCCCCAAGATCCCAAGTGGTCCCCGGCAGGCGGCCAAGTGTTCCTACCCCTACCACACTCTGTCCCAGTCTTCCGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040521:ENSBTAT00000051851:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.741 A=NA C2=0.850
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGTCGGTGGAGGGGTCC
R:
CTCATCGGAAGACTGGGACA
Band lengths:
279-1669
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]