HsaINT0153407 @ hg38
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4 member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:219639482-219640599:+
Coord C1 exon
chr2:219639482-219639735
Coord A exon
chr2:219639736-219640429
Coord C2 exon
chr2:219640430-219640599
Length
694 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
GTCTGTGTCACCTCCTCCAGGCC
3' ss Score
9.09
Exon sequences
Seq C1 exon
GCTTATCGTCAGCCAGAAGGCGCGGAGGCTGCTCAAGGGCTCCGGTTTCCACCTGGACCTGCTCCTCATTGGCTCCCTGGGGGGGCTCTGTGGGCTGTTTGGGTTGCCCTGGCTCACGGCTGCCACGGTCCGCTCCGTCACCCATGTCAATGCGTTGACAGTGATGCGTACTGCCATCGCGCCTGGTGACAAGCCCCAGATCCAGGAGGTGCGGGAGCAGCGGGTCACTGGTGTGCTCATCGCCAGCCTCGTGG
Seq A exon
GTGAGAGCCCGCCTCCACCCTGCACACCCCCTTCCTTGGGCCCCACGGTCTTACATCTTCACTATCCCAGGCTTGACCCTGAATCTCCCAATGTGCTGTGTGTTGCCCTCAATCTGACCCCCAAACCTGCTTCCCAGCACTCCCCTAGCCCTTTACTCCTGGAGTCCTTTTCTGGCTCTCTGTCCTGCCCCCTCTTCTCTCTCTTTTTTTTTGAGACGGAGTCTCGCTCTGTCACCCAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCCGCCTCCCAGGTTCACCCATTCTCCTGCCTCCGCCTCCCGAGTAGCTGGGACTACAGGCGCCCGCCACCACGCCCAGCTAATTTTTTGTATTTTTAGTAGAGACAGGGGTTTCACCGTGTTAGCCATGATGGTCTTGATCTCCTGACCTCGTGATCCACCCACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCAATGTGTCTGCCCCCCCCCCCGCCCCTCCTTCTCTTGTTCAGGGTGATAAGGCCAAGTTGATTGGTCCAGTGGGTCCATGTCGCCTCCCCCCAGGCCTCTCCATCCTCACGGGGGCTGTCTGAGGGTCAGGCAGATCTGTGTCACCTCTTCCAGGCCTGTCCATCCTCACGGGGGCTGTCTGAGGGTCAGGCGGGTCTGTGTCACCTCCTCCAG
Seq C2 exon
GCCTGTCCATCGTCATGGGGGCTGTGCTGCGTCGGATCCCATTGGCTGTGCTCTTTGGGATCTTCCTGTACATGGGGGTCACGTCCCTGTCTGGTATCCAGCTGTCCCAGCGTTTGTTGCTCATCCTCATGCCGGCAAAACACCATCCTGAGCAGCCCTATGTGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923:ENST00000273063:20
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(17.4=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.5=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:
ACCTGGACCTGCTCCTCATTG
R:
TTTTGCCGGCATGAGGATGAG
Band lengths:
344-1038
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains