Special

HsaINT0153405 @ hg38

Intron Retention

Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4 member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:219638164-219638869:+
Coord C1 exon
chr2:219638164-219638253
Coord A exon
chr2:219638254-219638702
Coord C2 exon
chr2:219638703-219638869
Length
449 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
CCTGTTTTCCTGCCATGCAGAAG
3' ss Score
8.21
Exon sequences
Seq C1 exon
GCTCGTCGCATCATCGGGGACTTTGGCATCCCCATCTCCATCCTGGTGATGGTCCTGGTGGATTACTCCATCACAGACACCTACACGCAG
Seq A exon
GTGAGGGAGCCCCAGCCTGTGGCAGCTGCTGTCACCCCCAGGCCAGGAGAGGGAGCCCACAACACACTTCCATGGGCCCTGGGATTGGGATCAGGCCTGAACTCAACTTTCCCAGTGGAGTGGCCGCCCTGGGGGCTGAGGGCCTTCCCCAGGGAGCCTGAGTGATGAATCCGGGAGAAGCAGGTGTGGGGCTGGGAGCAGAATGACAGTATCCCACACAGGTCCCCTGAAGCTCTGGGGCTCAGGGAGGAGGCGCTTCATTTCCCTGCCCTCTATTGGATCCTTGAAAGGACAGTGACTTCTGGAGGATGCAAAACTAATTTTCCCCTGACCTGTTCACACCCCAGCTCCCTGAAGTCCTGGACTGGGGACGCAGCTTAGTGGGCTGCTTGGTGGGCTTTCTAGCATGGGGAGGCTGTGTCCCTGAACCCTGTTTTCCTGCCATGCAG
Seq C2 exon
AAGCTGACAGTGCCTACAGGGCTCTCAGTGACCTCTCCCGATAAGCGCTCGTGGTTCATCCCACCCCTGGGCAGTGCCCGTCCTTTCCCGCCGTGGATGATGGTGGCAGCCGCTGTTCCCGCCCTCCTCGTCCTCATCCTGATCTTCATGGAGACACAGATCACGGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923:ENST00000273063:18
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(5.9=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.3=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Primers PCR
Suggestions for RT-PCR validation
F:
CGTCGCATCATCGGGGACTT
R:
GCCGTGATCTGTGTCTCCATG
Band lengths:
254-703
Functional annotations
There are 0 annotated functions for this event


GENOMIC CONTEXT[edit]

INCLUSION PATTERN[edit]


SPECIAL DATASETS

  • Autistic and control brains