BtaINT0128471 @ bosTau6
Intron Retention
Gene
ENSBTAG00000040521 | SAMD14
Description
Bos taurus sterile alpha motif domain containing 14 (SAMD14), mRNA. [Source:RefSeq mRNA;Acc:NM_001105018]
Coordinates
chr19:37174844-37176235:+
Coord C1 exon
chr19:37174844-37174999
Coord A exon
chr19:37175000-37175853
Coord C2 exon
chr19:37175854-37176235
Length
854 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CCCTTGGATCCCTCCCCCAGAGT
3' ss Score
8.2
Exon sequences
Seq C1 exon
TTTCTGGATGAGCCTCTTCCCACCGTCTACCACTGGACCAGTCAGCAGGTGGGCCAGTGGCTGCAGAGCCTCAACCTGGAGCAGTATGCTGCTGAGTTCGCTGCGCGGCAGGTAGATGGGCCGCAGTTACTGCAGCTGGATGGAAGCAAACTGAAG
Seq A exon
GTGGGTTGGGGTGGGGGGACCACCACCCAGTTGGATCCCTGAGGCAGCCTTCAAGGATTGGGATCCCCTCATCCTGACCTTTCCATTCCCTTTAAGACCACTGCCCTGACCTCTAACCTCTAGGCAAGATCCTTGATCTTTGCTCTCTAGCATAGATTCCCTCCCAGTCTTGACTCCAGTCCAATTCCTCAGTCTGACCTTCAAGCTCCAGCCAAAGTCTTCAGGTTGACCTCTGACCTTGAGGACTAGCCTATCATCTGACTCTTGACTCTAATGAGCCTCCTCTGGTCATCTCATCTGAATTTTGGAGGCTTCATCTCTAAGACTAAAAATCTTGGAGGCTGGTGGTTGTGGGAGGCAAGTAGGGGGAGGGAGGGAGGGTGTCAGAGGTTGTGCTCTGATCTCTGTTCTGGGGGTTTCTGGCTGGTTTTGCACCGTCTGCTTAGTTGCTTGGGGAAGCAATGGTGAGGAGAGTCCCCGAGAAGTCTCTGGAACAGGGGCCTCAGCTACTGACGGGCTGTGTGACCTCGGACAGACTCACTTTCTATCTCTGGGCTCACGGAATCTGGCAGGGTTATTCCAAGGCTGAAATCCTGAGTTGAGGGATGGGAGCCAAGGATTAGGGTGGGGAAGGGGCAAAGGGCCTGGAACCCTGCACCATTTACCCTCATCTCTCCTAGCCACTCCCATTCCAAATTTTTGCCCTGAGGGTCCTGATCCATCAGCAAGCTTGGGAGGTGGAGGCTGAGGGCTGGCAGAGCTCCAGCGAAAATACACCTGGGCCACAGAGAACCCTGGGCGTGGGGTTGGCCAGGTGTGGGGCTCTTCACTTCACCCTTGGATCCCTCCCCCAG
Seq C2 exon
AGTCTGGGGCTCAGCAACTCGCATGATCGGGCGCTGGTGAAGCGGAAATTGAAGGAGCTGGCGGCGGCTGCCGAGAAGGAGCGCAAGGCCCAGGAGAAGGCTGCACGGCAGCGTGAGAAGCTCCGGCGCAGGGAGCAGGAGGCCAAGAAGAGCTAGGGAGATGGGCGGGCAGGCACTGGCACCCGGCTCGGGAAGCTGCTGGGCTCTGCGGGCACAGGCCGCCTTAGGAGGCGGGGCCTGGGCACCAGGCTTGGGTTGGCCTGGCTCCATGCTCTCAGGAGAACAGCCCTCTCACCCTGTCATCTGTCTGGACCCAGATCCCTCAGAGAGAGACCCAGGGGAGAGGACCCAGTAATAAATCCCCTTGCAAGGACTTTTTGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000040521:ENSBTAT00000051851:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.365 A=NA C2=0.765
Domain overlap (PFAM):
C1:
PF0764712=SAM_2=PU(66.2=82.7)
A:
NA
C2:
PF0764712=SAM_2=PD(30.8=38.5)
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:
GTAGATGGGCCGCAGTTACTG
R:
ACAGATGACAGGGTGAGAGGG
Band lengths:
352-1206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]