HsaINT0025655 @ hg38
Intron Retention
Gene
ENSG00000198870 | STKLD1
Description
serine/threonine kinase like domain containing 1 [Source:HGNC Symbol;Acc:HGNC:28669]
Coordinates
chr9:133401738-133403012:+
Coord C1 exon
chr9:133401738-133401878
Coord A exon
chr9:133401879-133402877
Coord C2 exon
chr9:133402878-133403012
Length
999 bp
Sequences
Splice sites
5' ss Seq
AGGGTGTGT
5' ss Score
4.51
3' ss Seq
TCATTCTGGCTCACCCACAGAGT
3' ss Score
7.75
Exon sequences
Seq C1 exon
CGCTGGTGCACCACCCGGAAGCCAAGGCTCCCTGCAACCAAGCCATCACCTCCACCCTGCTGAGTGCTCTTCAGAGCCACCCCGAGGAGGAGCCACTTCTTGTCATGGTCTACAGCCTGCTAGCCATCACCACAACCCAGG
Seq A exon
GTGTGTCTGCCAGCCACCTCCTGCCCCACCCACGCTCCAGGACAGCCCTTCCCAGGGGTCTTGGAAGGGTTGGTTTGGGGTATAGGTGGGTTGGACAGGACAGTGCTGGGCCTCCTCCTGAGATACATGGTGGCATTTGGCCGTCTTCATTTGGCCACCCCAAATGCTGGTCGCATCCTTTTCCATCTTGATGACAAGCTTCCACTCTTGAAGTCACTGGTTCCCTCTACAGACATGCTAGGCGCAGCTGTGGGCTTCACACCAATGACATCTCTTTCCCACACTTCCTGCCCCTTCTGGGAGGCTGGGGCTCAAATGCCCTGTGTGTCTCCATTCCATAGGGCCCAGTGGGCTTCCGAAGCCTCCAGCCAGGACTGTGGGAAGGAGAGGGCCATACAGAGCGCTCACACCTTCACCCACAAATCGGGTGGGCACTGTTCTCCCCAACAGGAAGCTGGGCCTCGAGAGAGCCTAAGGACAGTTGCCAGGAGTCCATGCAGCAGGGTTCAGGGCTGGGGTCTGGGCCCCAGCACCCTCTTTACTGCACAGACTGGATAACTGATGATACATGGCTGATCTCACTTTGGGGAGTGAAAGGAGGCACTAGGAATAGATGTCAACTGGAACCCTCAGGCAAAATGGATGTCAGTTCATCCTACCGGGATAGGGCCCCGTCATGGTTCCATCCTGGAAGGCACAGGCTGGCTCTGTGAGCCCAGGAGGCAGGGTCAGGCCCCCTGGATGGGAAGCTACAGAGGTCAGACCCAGCCTGGTAGTGGGATGGCAGCTATTGGGACTGGTGGCCCACGAGATGGACAGACTCCTCTGGGGCCAGTCCCACATCCTCCTGTTCAGGGCTCCATTGAGTGCACACGACTTGGCCCAGAGCAGGCACCTAGGATTGCAGGTCAAATGGGACTGCAGTGCCCAAGGACAACAGAGGCAGGAAGGCTTCCTGGAGGGAGGGGCCCTGGGGCCCTCATTCTGGCTCACCCACAG
Seq C2 exon
AGTCAGAGTCACTGTCAGAGGAGCTGCAGAATGCTGGGCTGCTGGAGCACATCCTGGAGCACCTCAACAGCTCCCTCGAAAGCAGGGACGTCTGCGCCAGCGGCCTGGGCCTGCTCTGGGCCCTCCTGCTGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198870:ENST00000371957:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCACCCGGAAGCCAAG
R:
CAGCAGGAGGGCCCAGAG
Band lengths:
264-1263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development