HsaINT1042007 @ hg38
Intron Retention
Gene
ENSG00000080189 | SLC35C2
Description
solute carrier family 35 member C2 [Source:HGNC Symbol;Acc:HGNC:17117]
Coordinates
chr20:46355073-46355874:-
Coord C1 exon
chr20:46355802-46355874
Coord A exon
chr20:46355179-46355801
Coord C2 exon
chr20:46355073-46355178
Length
623 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
TCTTCATGTTCACCTACAAGTCC
3' ss Score
2.26
Exon sequences
Seq C1 exon
GTACACAATGACCAAATCCTCAGCTGTCCTCTTCATCTTGATCTTCTCTCTGATCTTCAAGCTGGAGGAGCTG
Seq A exon
GTGAGGCCCCAGCGTCTCTTGTGTCCTTCCTGCCCCCACAGATGCTAAGAATAAAGTGGGAGTCTGAGCAGTGGCTTGTCCTGCTGTGTGACAGAGGAGACAAGCCCAGTCCAGGTGGCAGTAGATCCCTTTCTGAGAAGGGACCTAGACATGGGCAATACTCAGAATATTTAGAAACCAGTGTGGCAGGGTAATGACCAAAGGTGAAAGCACTGCAGGATGAGGGTCCCAGCAGAGCTGGGTCTAGGAAGCACCCTGCTGTGGGAGGCAGTAGCCCTGTGTGTTAGGCCCAGGGAGGAGGTGGGACCACTTGGGGGCCTAGGACAGCCGTCAGTGTGGCAGAGCAAGCAGGGCTGTTGGCATACCAGCTGACCGTCAGCCCTACATGCTGACATTGGTGGGCAAGGACTGTCCAGGACCCCCTGGGATGGAGCTGAAGGGTGGAAGGATTTCTTGCCCCAGGGGCAGCCAAGATGGCTGCTGACCCCAGGCTCCAAATGTGATGAACCCTTGACCCTCAAGACCCCCGAGTTAGCTGCCACTGCTCCCCATCCTACCAGCGCGCGGCACTGGTCCTGGTGGTCCTCCTCATCGCCGGGGGTCTCTTCATGTTCACCTACAAG
Seq C2 exon
TCCACACAGTTCAACGTGGAGGGCTTCGCCTTGGTGCTGGGGGCCTCGTTCATCGGTGGCATTCGCTGGACCCTCACCCAGATGCTCCTGCAGAAGGCTGAACTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080189:ENST00000543605:5
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:
PF0089215=EamA=FE(18.3=100)
A:
NA
C2:
PF0089215=EamA=PD(14.5=33.3),PF0315111=TPT=PU(18.5=49.1)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains