HsaINT0153427 @ hg38
Intron Retention
Gene
ENSG00000080493 | SLC4A4
Description
solute carrier family 4 member 4 [Source:HGNC Symbol;Acc:HGNC:11030]
Coordinates
chr4:71546350-71547720:+
Coord C1 exon
chr4:71546350-71546528
Coord A exon
chr4:71546529-71547647
Coord C2 exon
chr4:71547648-71547720
Length
1119 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
ATCTTTTGATTTGGTTTCAGGGA
3' ss Score
8.33
Exon sequences
Seq C1 exon
AAAGGAGCAGGGTATCACTTGGATCTCTTTTGGGTGGCCATCCTCATGGTTATATGCTCCCTCATGGCTCTTCCGTGGTATGTAGCTGCTACGGTCATCTCCATTGCTCACATCGACAGTTTGAAGATGGAGACAGAGACTTCTGCACCTGGAGAACAACCAAAGTTTCTAGGAGTGAG
Seq A exon
GTGTGTTAACTCAGAGGAAAATGGCTCCCGAAAACACACTGTGCACACATCTATGTGGCAATCATAAGGATATGGGCAGATTTGGAGGAGACAGGGCTTGTGATGATTAATTTATTCCTATATTTTTTGTTCCAGAAAGGACTAAATTTTCATCAGAGGTTTCAGTGATTTTTTTAGTTTACTCCTCATGATATATCATTTTCATGGATTTCCAAAAGGCTAAATGTTGCAATATAAAACTACAACCAGATTACTTTTTTTCAACATGCAGGTGATTTTGGTGCTGCAGTGTTTACTGTATCACAGTCATATGTGAAGGCCCTAAAACTCTTGAGTCTGCTTATGACTTTTAAGATTCTGTAATGGGAAAGGTATTCTTATTTTCCAATTCATTTTCTGTCCCCATAAACACTGAGAAACTTTAACCTCCAGACGTTCAATTTGGGTAGCTGTGAAGGGCAGGAGTAGAAGGTTTTTATACTCTGTTGAGCACTTTTTACAGCAAACTCTGCTCATAAGTGCTTGGGTAGAGAGCTCACATGACAGAGCCATCGTTTCCCACGGCAAAACAGTGGGTGATTCTTTTTTGGGGTGGGGAGGGGGTGTAGGATGGGAATTATATTTGTTGAAAAGTACTTTTGTTGTTGTAGATTTGGAAATTAGACTGATGTGATTTATTGTGCTAATGAAATTTCCTTGAGCTGTTTGTTAATTGGAATATGGGACAATGTAATATCTGTCTCCTATGAAAGAAGGTGTAAGGGTAATTACACAAGAGGATAAATTGCTTTAAAAAATAAGGTCTTCAAAGAGTCCAGTAATTGATGGACCAAGAGCAAGTGATTTTTCTTTCTTGATTCCAAAAGGAGCAAAAAATTTAGCAGGATTACTTCTTTCTTCGTGAATTCAAATCACATATTGCAGTCACTTTAAGAGATTTTTTTATAGTTACGTTGGGTTTATACGCTATCCTTGAGGTATTATTTACATGATATCAACACCTTTGTTGTTTTAGCCAAACATTGATTTTGTCAATGTGTAGTTTTTTTGAAGGTGAAAAGACAAGAGCATGTTTATGAAGACAAGAGGTAGATTGGTAATCTTTTGATTTGGTTTCAG
Seq C2 exon
GGAACAAAGAGTCACTGGAACCCTTGTGTTTATTCTGACTGGTCTGTCAGTCTTTATGGCTCCCATCTTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080493:ENST00000340595:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(11.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(4.6=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:
AAGGAGCAGGGTATCACTTGGA
R:
AGATGGGAGCCATAAAGACTGAC
Band lengths:
246-1365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains