HsaINT1042121 @ hg38
Intron Retention
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4 member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr5:140361808-140362174:+
Coord C1 exon
chr5:140361808-140361863
Coord A exon
chr5:140361864-140362016
Coord C2 exon
chr5:140362017-140362174
Length
153 bp
Sequences
Splice sites
5' ss Seq
CAGGTTTGT
5' ss Score
7.44
3' ss Seq
CTCCTTGAACCCCCATCCAGTGT
3' ss Score
4.64
Exon sequences
Seq C1 exon
GCTCTACTCATCCAAGAAAGGCTTCTGACAATGAGGAAGCCCCCCTGAGGGAACAG
Seq A exon
GTTTGTGGCCCTTCCTTGGGGTCCCTTTCCAGTGGCTGGGAGAGGGGTTAGAAATTAACAAAAGTCTACTCTCCACTGGATTTCTCATCATTTGAGATCTTATCCTCCCCAAATAACCTTTCATATTCTGTGTCTCCTTGAACCCCCATCCAG
Seq C2 exon
TGTCAGAACCCCCTGAGACAGAAGCTACCTCCAGGAGCTGAGGCAGGGACTGTGCTGGCAGGGGAGCTGGGCTTCCTGGCACAGCCACTGGGAGCCTTTGTTCGACTGCGGAACCCTGTGGTACTGGGGTCCCTTACTGAGGTGTCCCTCCCAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073:ENST00000506757:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.170
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(12.2=63.2),PF075658=Band_3_cyto=PU(13.0=94.7)
A:
NA
C2:
PF075658=Band_3_cyto=FE(37.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCTACTCATCCAAGAAAGGCT
R:
CTGCTTGGGAGGGACACC
Band lengths:
214-367
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains