HsaINT0153530 @ hg38
Intron Retention
Gene
ENSG00000113073 | SLC4A9
Description
solute carrier family 4 member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr5:140371451-140372397:+
Coord C1 exon
chr5:140371451-140371624
Coord A exon
chr5:140371625-140372241
Coord C2 exon
chr5:140372242-140372397
Length
617 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGC
5' ss Score
9.26
3' ss Seq
CCATGTTTCTATTCCTGCAGTTG
3' ss Score
8.3
Exon sequences
Seq C1 exon
TTCACTAATAGGGTGAAGCTGTTGTTGATGCCAGCAAAACACCAGCCAGACCTGCTACTCTTGCGGCATGTGCCTCTGACCAGGGTCCACCTCTTCACAGCCATCCAGCTTGCCTGTCTGGGGCTGCTTTGGATAATCAAGTCTACCCCTGCAGCCATCATCTTCCCCCTCATG
Seq A exon
GTAAGCTGAGGCAGGGTTGGGCTGTGTCCTGGAGGGTCTTGGGAGACTCTGAGCCTGGAAGGGTGGCCAAGGCCTCCACGAGAGGAAGAATCTCCCCTCTCACTCGCTGTGGCTCTCCCTGGTTGGGAATCCTAAGACAAAGAAAAAGATGGCAGGATGATACCTATGTATGGGCTAGTCCTGGGATACCTGATTCACCTCTTTTCCCAACCTCTTTGGAGTGATCAGCCACAGGTAAGAATATAAAACCCAGAAGAAATCTGAGGTCTTGGTAGAGGAAATGGTGACACTTTTATTACTCAGTGAGGTGATAACATAGGTGGCTTCTGGCCTTGTTCTTATTGAGGAAGTTAAGAGTCACAGGCTTTGCAGTAGAATCAATCTGCTTATATATCCCAGATGTGTGACCTCTGGGAAGTAACTAATCACTTGGGGTCTCAGTTTCCTTCCCTGTACAATGGGAATAATTTATTCTATCTACCTCATAGGAATGTGCTAGCATTCAGTGAAACTGATATACAATGCCTAGCACATAGGAAGTGCTCAATAAGTGTTACTATTGTTAATGTTCCTACTACTGTTGCTGACAGGCCTGGGCCATGTTTCTATTCCTGCAG
Seq C2 exon
TTGCTGGGCCTTGTGGGGGTCCGAAAGGCCCTGGAGAGGGTCTTCTCACCACAGGAACTCCTCTGGCTGGATGAGCTGATGCCAGAGGAGGAGAGAAGCATCCCTGAGAAGGGGCTGGAGCCAGAACACTCATTCAGTGGAAGTGACAGTGAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000113073:ENST00000506757:19
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=0.308
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(13.9=58.6)
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:
TCACTAATAGGGTGAAGCTGTTGT
R:
TCTTCACTGTCACTTCCACTGA
Band lengths:
328-945
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains