HsaINT0144765 @ hg19
Intron Retention
Gene
ENSG00000167100 | SAMD14
Description
sterile alpha motif domain containing 14 [Source:HGNC Symbol;Acc:27312]
Coordinates
chr17:48190035-48191443:-
Coord C1 exon
chr17:48191288-48191443
Coord A exon
chr17:48190413-48191287
Coord C2 exon
chr17:48190035-48190412
Length
875 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGT
5' ss Score
8.23
3' ss Seq
CACCCCGGACTCCTCCCCAGAGC
3' ss Score
5.94
Exon sequences
Seq C1 exon
TTCCTGGATGAACCCCTCCCCCCTGTCCACCACTGGACCAGCCAGCAGGTGGGCCAGTGGCTGCAGAGCCTCAACCTGGAACAGTATGCTGCTGAGTTTGCTGCACGGCAGGTAGACGGGCCGCAGCTGCTGCAGCTGGACGGAAGCAAACTAAAG
Seq A exon
GTGGGTCAGAGTGGAAGGGCCATGACCCAGCCCAGTTACTTGAGGTGACTTTCAAGGATTTGAAGTCCCTCATCCTGACCTTTGACCCTCAGCCCAGCCTCCTGGGCTGACCTTTTCACTCCATCTGTGGCCACCACCCTGACCTCTGACCTCTAGGCAAGGTCCTTGGTCTAATCTTTTGAGTTGTAGCATGAATCCCTAGTTTGACTTGAAACTCTAGTCCATGACTTCAGTGTGACCTTCAAGCTCCAGCCCTGGTCTCCAGGCTGACCTTGCCCTCTAGGATGACCCTTGATGCATATGAGTGTCCTGGTATCATGGGAAGCCACATCTCCCCCTGGTCAGCTTGGTCTGATTCTGTCTCAGAGGCTAGTGGTAATAGTGGGCAGGGGGAGGCTGTAGGAAGGGGGTGGTGGCCTCTGACCTATAAGCTGGGAGGTTCCTGGCCTGTCTCCTGCTCTCTGCTGAGTTGCTTGGGGCAGGGATGGTGAAAAGAGCCCCCAGGAAGTCTCTGGAAGTGAGGAGGGTCCTTGGGCACTAACTGTGTGACCTTGGGCAAGTGACTCCCCATCTCTGGGCCTCAGGAGGTTGGGCAGGTCCGGGCCAAGGCTGAAATACTGAGTGGAGGAATGGTGGGGGAGGAGGAGGAAGCGCCTAATACCCCCAACCCTCATCTTTCCCAACCACACTCATTCCAAATTCTTGCTCTGGGGGTTCTGATCCATGGGCAGGTCACGGTGTGGGAGGCGGAGGCTCCACTCCAGGGAGGATTTGGAGCTCCACAGAGTACACCTGGGGCAAAAGGAGCCTGGGCGTGGGAGGCCAGGACTGGGAAGGTTCTGGGACTCTCTCCCTCACCCCGGACTCCTCCCCAG
Seq C2 exon
AGCCTGGGGCTCAGCAACTCTCATGACCGGGCACTGGTGAAGCGCAAGTTGAAGGAGATGGCAGCAGCTGCCGAGAAGGAGCGCAAGGCCCAGGAGAAGGCTGCGCGGCAGCGGGAGAAGCTCCGGCGCCGAGAGCAGGAGGCCAAGAAGAGCTAGGGGAGGGTGCACAGGCGCTGGCACCCGGCAGGGGCAGCCACTGGCTCCGCGGGCACAGGCCTCACCAGGGAGGCTGGACCTGGGCGCTGCACTTGGGCTAGCCTGGTCCCACGCTCTCAGGGGGGACATGCTCTCTCTTACCCTGTCACTTGGTCTAGACCCAGAGACCCCAGAAAGGGAGACCCCAGGGAGAGGGCCTAGTAATAAATCCTATTTTGAGGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167100-SAMD14:NM_174920:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.529 A=NA C2=0.897
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
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCTGGACGGAAGCAAACTA
R:
TCTGGGGTCTCTGGGTCTAGA
Band lengths:
354-1229
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)