HsaINT1042118 @ hg38
Intron Retention
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4 member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr5:140360812-140361367:+
Coord C1 exon
chr5:140360812-140360972
Coord A exon
chr5:140360973-140361253
Coord C2 exon
chr5:140361254-140361367
Length
281 bp
Sequences
Splice sites
5' ss Seq
TGGGTAGGC
5' ss Score
6.03
3' ss Seq
ACCCCCAATCCATTCTCCAGAGC
3' ss Score
6.08
Exon sequences
Seq C1 exon
GTGGGTACTGTTTGAGGAGAAGTTGGAGGTGGCTGCAGGCCGGTGGAGTGCCCCCCACGTGCCCACCCTGGCACTGCCCAGCCTCCAGAAGCTCCGCAGCCTGCTGGCCGAGGGCCTTGTACTGCTGGACTGCCCAGCTCAGAGCCTCCTGGAGCTCGTGG
Seq A exon
GTAGGCTGGGATCCTTTGCAGGAAGGGCCTGGGTAGCCATGCCTTTTCCCCAGGATTTCCCCTCCAAAGTCTTGAAATCTTCCAGAGCCCATCCCTACCCCTCCTAGGATTGTCTACCCTTGTCACAGGGTGGACATGGAAAAGCAGGGTGGAGGAGCAAGTTCATTGGCCCTGGCATTCTGAGACTCCCAGAAGGGAAAGGTGTCTGGGCAGAGGGAGAAGGGGAAGAGTGTGCGGCAGGGAACTCTCAGGAAGGAGATGACCCCCAATCCATTCTCCAG
Seq C2 exon
AGCAGGTGACCAGGGTGGAGTCGCTGAGCCCAGAGCTGAGAGGGCAGTTGCAGGCCTTGCTGCTGCAGAGACCCCAGCATTACAACCAGACCACAGGCACCAGGCCCTGCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073:ENST00000506757:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.003 A=NA C2=0.205
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(48.0=85.5)
A:
NA
C2:
PF075658=Band_3_cyto=FE(38.8=100),PF075658=Band_3_cyto=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGGTACTGTTTGAGGAGAAGT
R:
GTGCCTGTGGTCTGGTTGTAA
Band lengths:
261-542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains