HsaINT0148377 @ hg38
Intron Retention
Gene
ENSG00000143379 | SETDB1
Description
SET domain bifurcated 1 [Source:HGNC Symbol;Acc:HGNC:10761]
Coordinates
chr1:150941329-150942688:+
Coord C1 exon
chr1:150941329-150941428
Coord A exon
chr1:150941429-150942562
Coord C2 exon
chr1:150942563-150942688
Length
1134 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGG
5' ss Score
6.06
3' ss Seq
TAACTTTGCTTCTTCTATAGGAA
3' ss Score
9.34
Exon sequences
Seq C1 exon
CTCCGTGAAGCTATGGCTGCCTTAAGAAAGTCAGCTCAAGATGTTCAGAAGTTCATGGATGCTGTCAACAAGAAGAGCAGTTCCCAGGATCTGCATAAAG
Seq A exon
GTTAGGGTCAAGAAATACCTGGGTACAGATGGGAGGTGAATTCTTACAGAGATTTTGTCTTAAGTCTTATGTCTGCTAATTGTTTGTGACATGCCAGACTCAGTATCCTTAGTAGTTATGAAATCCCAGTTACATTGATGGTGATTTTTCCAGTCTGTGATGGTTTTATCTCAATACCTCTTTAGCGTCCTACATTTAGGCTGTTTCCATCCTCATGACTGCTTCCAGGTGGAGATTAGGGAGAAGAGAATCACTCAGACTCTTGTTACAAAAAGGTTTGAGGCCAGGTGTGGTGGCTCATATCTGTAATTCTAGCAGCTTTGGGAGGCTGAGGCAGGAGGATCACTTGAGGCCCAGCATTAAAGACCAGCCTCGGCAACATAGTGAAACCCCATCTCTACAAAAAAAAATGTTTAAAAATTCTCCAGATGGGCCAGGCACGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCGGATCACAAGGTCAGGAGTTCGACACCAGCCTGACCAACATGGTGAAACTCTGTCTCTATTAAAAATACAAAAATTAGCCAGGCGTGGTGGCGCACGCCTGTAATCTCAGCTACTCAGGAGCCCGAGGCAGGAGAATCGCTTGAACCCGGAAGGTGAAGGTTGCAGTGAGCCGAGATCATGCCACTGCACTCCAGCCTGGGCAACAGAACGAGACTCCATCTCAAAAAAAAAAAAAAAAATTGGCCGGGCACAGTGGCTCATGCCTATAATCCCAGCACTTTGGGAGACCGAGGCAGGCGGATCATGAGGTCAAAAGATAGAGACCATCCTGGCTAACATGGTGAAACCCCGTCTCTACTAAAAATATAAAAATTAGCTGGGTGTAGTGGTGCCACCTTGCGTGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTGGAACCCAGGGAGGCGGAGGTTCCAGTGAGCCAAGATCGCACCACTGCACTCCAGCCTGGTGACAGAGTGAGACTCCATCTCAAAAAAAAAAAAAAAATTACCCCACTTTCCCTAATTACCATACTACCCTCTTTACCTTCCCGTTCTCTACCGAATCTATGTCATAACTCTTGAGAATAACTTTGCTTCTTCTATAG
Seq C2 exon
GAACCTTGAGTCAGATGTCTGGAGAACTAAGCAAAGATGGTGACCTGATAGTCAGCATGCGAATTCTGGGCAAGAAGAGAACTAAGACTTGGCACAAAGGCACCCTTATTGCCATCCAGACAGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143379:ENST00000271640:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.481 A=NA C2=0.140
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF150571=DUF4537=PU(17.4=48.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTATGGCTGCCTTAAGAAAGTCA
R:
CTGTCTGGATGGCAATAAGGGT
Band lengths:
214-1348
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains