HsaINT0153517 @ hg38
Intron Retention
Gene
ENSG00000050438 | SLC4A8
Description
solute carrier family 4 member 8 [Source:HGNC Symbol;Acc:HGNC:11034]
Coordinates
chr12:51458559-51460108:+
Coord C1 exon
chr12:51458559-51458650
Coord A exon
chr12:51458651-51459950
Coord C2 exon
chr12:51459951-51460108
Length
1300 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGTTTCTTTTGGACTTTCAGGTA
3' ss Score
10.02
Exon sequences
Seq C1 exon
GTCAAACCGTGTCTCCTCAGTCTGTTCCAACTACAAATCTTGAAGTAAAAAATGGAGTGAATTGTGAACATAGTCCTGTGGATTTAAGCAAG
Seq A exon
GTGAGCAGAGTGGTGGGAAGTTGGCTTCAAGGCCTAAGGTTCCTTTTAGTGGAATCCAGAGTTTAATTGCTGGAATCTGGGTAAGGTTTAGTGTTTCAAGACTCTTTCCCTAAGACTAGAGCCCTTTCTGCATAAAAGGGGGCCCATCTCTGCATGTCTTTTCCCTTCTCCTTCAGCCTGGATGAAGCTGACTCAACAGTTTCTTTCTCCAGATTCAACATACTGAAAACTGGGACTAGCTGCTTAGAATCTTCCCTAAAACAGATCTCTTGATTTTTCAATTATTTTTTTGGTACCTGCTCTCCAGCAGTTCCTTCTCACCCCCAGGGGTTTTGCCAAAACAATATTTTGGATATCTATTTAGAGACAGATGTCTCCTAAAACTAACTCTTGGTTGAAGCTCTCCTTGAGGACTGTGACTTTGGTATCTGAGGCCTTCTGTAGCAGCAGTGTCTCACTGCAGCTTATGGTCCAAGCCTTGGTCTCCCTGCCTCCAGCCTCTCCTTGCTCTGGTCTATCTTTGACACTGTGTTTCTAAAACACAGATAGTGTCATATCACTTCCTCTGCTCATAAGGCTTCCCATTTTATTTGGAAAACCTGAAACCCCCGACAAAACATTTGAGTGTTTAAAAAGGGAAAGAATGTGACCCAGAGCTTCAGAAACATTTCTCTTGGAGGAAGCTTGGGGGAATGGGATTGAAATCAGAATACCTGATTTTAAAATCCGAACCTATACCTTAAAAGCTCTGTGGTCCCGGGCAAGTCAACTTCACCTCTCTGGGTTTCAAATACTTCATTTTTTTTTTTTCTTTAAGTGGGACGAATACAATCTGTCATATCCTCCTTCTGGGGTTTTTGTAAGGATCAAATAAAATAAGAAAACATTTGCTAACCATAAAATGACATATGAGTGTAAGATATATTTTAGGTGATGGGGCCAGGTGCAGTGGCTAACGCCTGTAATCTCAGCACTTTTGGAGGCTGAGGCGGGTGGATCACATGAGGCCAGGAGTTTGAGACTAGACTGGCGAAAATGGCAAGACCCCATCTCTACTAAAAATACAGAAAAATTAGCTGGACATGGTGGTGCATGCCTGTAATTCCAGCTACTAGGGAGCCTGAAACACAAGAATTGCTTGAACCTGGCAGCAGAGAGCTGTGAGCTGAGATTGCGCCACTGCACTCCAGAGTGGGTGATGTAGTGAGACTCTGTCTCAAAAAAAAGTAAATAAAAAATTTAAAAACGATATTTAAGGTGGTGGTTCCCAAGTTGTCAGATGTTTCTTTTGGACTTTCAG
Seq C2 exon
GTAGACCTTCATTTCATGAAAAAAATTCCTACTGGGGCCGAGGCCTCCAATGTCCTGGTTGGAGAGGTGGATATTTTGGACCGTCCCATTGTTGCCTTTGTGAGGCTGTCTCCAGCTGTTCTTCTCTCAGGCCTAACAGAAGTGCCAATCCCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000050438:ENST00000453097:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.613 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=FE(11.5=100)
A:
NA
C2:
PF075658=Band_3_cyto=FE(20.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAACCGTGTCTCCTCAGTCT
R:
TGTTGGGATTGGCACTTCTGT
Band lengths:
247-1547
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains