HsaINT0151736 @ hg38
Intron Retention
Gene
ENSG00000125648 | SLC25A23
Description
solute carrier family 25 member 23 [Source:HGNC Symbol;Acc:HGNC:19375]
Coordinates
chr19:6457503-6458324:-
Coord C1 exon
chr19:6458198-6458324
Coord A exon
chr19:6457591-6458197
Coord C2 exon
chr19:6457503-6457590
Length
607 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGG
5' ss Score
9.33
3' ss Seq
ACCTCCGGCCCCCTCCCCAGGTC
3' ss Score
10.69
Exon sequences
Seq C1 exon
GGTATCTCCTCTGAGGGTGATGCTGACCCAGATGGCGGGCTCGACCTGGAGGAATTTTCCCGCTATCTGCAGGAGCGGGAACAGCGTCTGCTGCTCATGTTTCACAGTCTTGACCGGAACCAGGATG
Seq A exon
GTAAGGTCGGGCGACCTGCCTGCAGGCCCCAAGGGATAGGGCTGTGGGGGCCCTAGAGACATCAGTGGGGTTAGAACTGGCAGCGCTAGGAGGAGAGGGGGAGGGCCGCTTCTCCCCGATGACTCATAGGCTATTTCAGGAGCACTCCTCACCCCCTAGCTAGGTGGTTCGAGGCCCAGCCAGCCCATCCCACCTCCTTTCCCTACTGGGGCAGAACCCCGATAATTACCCTTAGATTTTTCTATGGGGCAAAGATACCCTATGCTGTTCCTGGGTCCCCTGTGGGACAGAGATCCCCTCATAGCAGCATCTGGGTTGTGGATATTGCCTCTCAATCCCCCATGGCATAGAGACCCCTACAATTACCCCTGGATTCCTTCATTCATTTACAGAACAGAGAAGCCCCCCCAGTATTTCCCAGTTCCACCTCTCTGACCCCAGTGAGTCAGGGGTCCCCCCACAGCCCTACTGCAAACCTCCTCCTAGGTTTCTGGAGCCCCTGATCTTGCTAGACCACCTCCATTCCAAGCTGTTCTGATCCTTGGTCCTGGGGTTCCCCAGGTGTCCTCACACGCACATCCTTCCCCACCTCCGGCCCCCTCCCCAG
Seq C2 exon
GTCACATTGATGTCTCTGAGATCCAACAGAGTTTCCGAGCTCTGGGCATTTCCATCTCGCTGGAGCAGGCTGAGAAAATTTTGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000125648:ENST00000301454:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.258 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(33.3=51.2),PF134991=EF-hand_7=PU(30.4=48.8)
A:
NA
C2:
PF134991=EF-hand_7=FE(42.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTATCTCCTCTGAGGGTGATGC
R:
TGTGCAAAATTTTCTCAGCCTGC
Band lengths:
214-821
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains