HsaINT0153409 @ hg38
Intron Retention
Gene
ENSG00000114923 | SLC4A3
Description
solute carrier family 4 member 3 [Source:HGNC Symbol;Acc:HGNC:11029]
Coordinates
chr2:219640789-219641980:+
Coord C1 exon
chr2:219640789-219640962
Coord A exon
chr2:219640963-219641650
Coord C2 exon
chr2:219641651-219641980
Length
688 bp
Sequences
Splice sites
5' ss Seq
GCGGTAAGG
5' ss Score
9.63
3' ss Seq
ACCTTCTGTTCCCTCTGCAGCTG
3' ss Score
12.77
Exon sequences
Seq C1 exon
GTGAAGACGTGGCGGATGCATCTGTTCACCTGCATCCAGCTGGGCTGCATCGCACTGCTCTGGGTGGTCAAGTCCACGGCGGCCTCACTCGCCTTTCCCTTCCTGCTGCTGCTCACGGTGCCTCTGAGGCATTGCCTTCTGCCCCGGCTCTTCCAGGACAGGGAGCTGCAGGCG
Seq A exon
GTAAGGGGGTGGTGGTCTGGGGAAACAGTGTTAGGGCAAATGGGCACTGGGTTCCAATCTCTGTTTGGCCACCCACTAGTTGTGTTAGTTGTGAAACTTGTGTAACTTGTGTTGCAAGTTATCTCACCTTCCGAAATCTTATTTTCACCTGTATAATAGGGGTGATCATAGACCCTACCTTATAGGACTGTTGGGAGGGTCAAGTGCTAGTCCAGGTAAAGGCCTTAGGATGGTGGTTTTGTAAGGGAGTTGGCACGGGGCTGCTGCACACAGCTGTGCAGGTGGTGCCTGACCAAAAACACCCGGCTGAGAGGCTACAGGGTTGATGTGGCACTGGTGTCCACCCTGAGCCCTGTTTTTGTCAACTAGAGGAAAAGACATCTTTTTGCAATTTATCCATACTCAAACATGGTGTACAAAGGTACCATAGCAACTAGAAGTGGCCTCAGGAAAGAGCTTCATAATAATAATCATTATTATTATCACCAGGAGGGGCCAGGTATCTGGTCTGGGAGGTGACCTGAAGGCTTTGGCCAAGGGCAGTGCTGCCACCCAGGGTCATGGTACTTGCAGAGAGGCCCAGGAAAGGTCAGGGAGCAGGGAGGGCTGCAGGTTGGAGGAGGAGCTGGAGAATGGGAGGGGACGAGCATGCTTCCCTGCCTTCCCCAACCTTCTGTTCCCTCTGCAG
Seq C2 exon
CTGGACTCGGAAGATGCTGAACCAAACTTCGATGAGGATGGCCAGGATGAGTACAATGAGCTGCACATGCCAGTGTGACCCTTGAAGACAGTGCCCCTCAGAGACCCCAAGACCTTAGGGATTGACACCTGGGCCTCAGGCAGAGCCCAGCCCTGGGCTGGGGGGCTCCTCAGGACCCAGAGATGTGCCTGGAACCACTCCTGATGCCATGGCTAGAGTGGCCCCCCTGACTTCTGCCCGGGGTGTTGACCTCGCCTCACCTTTCACAGACCAGACCGGCACAGGCTTTGAGCTCATTATAACCACACTCCTTGTCTCGTGTCTGCCTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000114923:ENST00000273063:22
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.440
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(2.3=19.0)
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:
GCATCTGTTCACCTGCATCCA
R:
GTGGTTCCAGGCACATCTCTG
Band lengths:
355-1043
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains