HsaINT0153498 @ hg38
Intron Retention
Gene
ENSG00000050438 | SLC4A8
Description
solute carrier family 4 member 8 [Source:HGNC Symbol;Acc:HGNC:11034]
Coordinates
chr12:51504029-51505930:+
Coord C1 exon
chr12:51504029-51504120
Coord A exon
chr12:51504121-51505834
Coord C2 exon
chr12:51505835-51505930
Length
1714 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
GTCCTAATGATTGATTTCAGATG
3' ss Score
6.13
Exon sequences
Seq C1 exon
GAGGCTGAGAAAATGTTAGAAATTGGGGGAGACAAGTTTCCCTTAGAGAGCAGGAAGTTACTAAGTAGTCCTGGAAAGAACATCAGTTGCAG
Seq A exon
GTAAAACTTCCAAACACCAAGGAGTTTACTTTTGGGTTATTCTCTAAGTGTTCTGGCTTTGTGGTGGTGGTGGTGTCACAAGTGCAGCTGCTGGCATAAAGAGCTAAATATTCAGCCTCCCAGTTCCATCCTGTGAAAATACCTTTTCCATCTCATTGTTTATTGAATACCTGCTATGTACCAGGCACTGTATCAGGTTATGGGAATCACAAGAAGAGAGGTAAGAAAGCCAATGTACTGAGTGCCTCCTTTGTGCTGGGATTGTGCTAGAGGGTTTACTTATGTGTTGTCAGTTAACCTGTACTCATATGAATATCACTATCCACATTTGTATAAGTGAAGAAACTAAGTCTTAGAGAGTTTTAGGTAATTTATCCAAAGTTACAATGTTGCTGAATAGAAAGATTAGGATTCAAACCCTGGTCGTCTTCTATTCCTCAAACCAGTGCTCCTTCTGCCTTTCTTTGCCACCTTCCAAAGATGAAAAGGATGTGGTCTTTATTTCCAGAGAGTTCTCAGCCTAGTAGGCATGAAATCCAATGCTTGGGCAAGCTTTTGGGGATAGGCAGAAATAGTCAATGTTAGCCTGGCTTGTGGCATCTGTAGTTCTGGGAGCAAGGGGGAATTGAACTGGGATCATGAAAATTCCTTACTTCTGCCAATGATTTTAGCCCCTTTCTCTATCAAACCTATTGCTCACCACAAATGACAGGAAGCTAAATTGGTCCATTCATGGTTTTACTCCTAGCATCTTGTTTCTGAATTGGAAGAGATACACATAGCACTTGTGTACCTCTAGGTACCATAAGCTGAAAAACCTAGAGGTCAAGAGGGAGCAGAGCAAAGGAAAAGAGCAGGATATCTGGGTCATTGAGATTCTGAAGAATTTACTGCTGCATCACTGAGTTGGTTGTGGTTTATACTGTGGGGGAAATTAGGACAGTCTTTTTCGTAATAATAGTCTTGGTTCTTAATAAACTTTCTACGTGTTGTTGTGGAAGGAGCCGTGAGCTTGATTTATCTGGTGGCAAAGTAGGAACAATGTTTCCCCTGTAACAGGATGCTGCCTCCTCTCTTGGCATTTTAGAAGGAGATAATCTGGCTTGCAGCAAACATCAAACTATTCTGTTTCTAGGAAACCAAGGGCTGGGTTCAAGGTCTTGATTCTCTACTTGCTGTTGTTTGACCTTGGATAGTCACTTAGCTCTGAGAGCTTTCATTTCTGCACCTTCAAAATGAGGATGTTAATAATCTCTGTTGCTATGATAGTTAAGATACTAGGAAAGTCCTTTGTGAACTATGAATAGAAGAGATTTGGCTGTTTAAATGGGAAAATGAATGAAAAATGCCTGGCATGCAGCAAGTGCTCCGTAAGTGGTAGTTCCTGATGCTACACTGTTGATATCATAGTGTTGTCAGCAGCATCTCCAGTGAGGCCCTTCGGAGGAGTGCACAGTTGTGGGAGCAGGACTGGCTGCCACCTGGCACACCAGCCCAGCTTTCAGCACCACCTCATGGGCCACCTTGCCATTCTGACCTCAGTGGCTGCAGGAGAAAGATCAGACTCCATCTTGTTCCCCGAGTTCCTGAGAGCTGTTGGCTGCGTGGTCTCAAACCCCATCTTCTCCCTTCTATTGGGACAGTGATCATTATAGACTGTGGTATGTATTTTACTTGTATGTCTGACATTCACTGTCCTAATGATTGATTTCAG
Seq C2 exon
ATGTGACCCCTCTGAGATTAATATATCTGATGAAATGCCTAAAACTACAGTTTGGAAAGCTCTCAGTATGAATTCTGGAAATGCAAAGGAAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000050438:ENST00000453097:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.065 A=NA C2=0.129
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GCTGAGAAAATGTTAGAAATTGGGGG
R:
CTCTTTTCCTTTGCATTTCCAGA
Band lengths:
185-1899
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains