HsaINT0152592 @ hg38
Intron Retention
Gene
ENSG00000080189 | SLC35C2
Description
solute carrier family 35 member C2 [Source:HGNC Symbol;Acc:HGNC:17117]
Coordinates
chr20:46356574-46357773:-
Coord C1 exon
chr20:46357623-46357773
Coord A exon
chr20:46356638-46357622
Coord C2 exon
chr20:46356574-46356637
Length
985 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
GGGTGCCTGTGTCTTCACAGCTC
3' ss Score
8.96
Exon sequences
Seq C1 exon
AGCTTCCATTTCCCCCTCTTCATGACGATGCTGCACCTGGCCGTGATCTTCCTCTTCTCCGCCCTGTCCAGGGCGCTGGTTCAGTGCTCCAGCCACAGGGCCCGTGTGGTGCTGAGCTGGGCCGACTACCTCAGAAGAGTGGCTCCCACAG
Seq A exon
GTAGGTGGGGGACCTCAGTGAGGGCAGAGCAGGAAGAGGGGCTGGGGAACCATAGGATGAGAACAAGAGAGACACCCGCATGTCTGGAAGCCAAGTCCCTCCCCTCTTCCTGCACTGTTCCTCCTCTGCCCTCTTGACCTGGCCTCCCACCACCCACGCTGCTGCCTCTTGTGCACTGCGTGCCTTCCCACTGCCCCACCACACACCCACAAAACCCCCCCTGCACCTGCGGCCCCGCAGCTCCCTCTCCTGCCAGCAGACACCGAGCCTGGAGTGCAGCCCTCAGGCCTGGAGATAAGTGGTGAGCAGGCAGGGTCCCTGCCCTCGCAGGGCTGTGACACGGACATGGAGGGCACTACGGAGCCCAGGGAGGGGACCAACCCAAGGCCGGGGCCCATGGCTGGTAGAGGAAGATTTCCTAGGCCAGGTGCCAAGTAGGCAGAGCCCTGAAGGATGCGTGGGACTGGTTGGCCCTGGGAGGAGGGGCCCTCGTGGCCCGAGGGAGATTTAGTGCCAGCTGTGGGGTCTGGAAGGGAACTCAAAGTGTTTCAGGATACTGAGAACCCGGTGCTGGCCAGAGGAAGTGGGAAAAATGAGAACTGAGAGGGTGGGCAGGGGTCATGTCCTGGAGGCCGGATTCCCCGTGGAGGAGTTTGTGTTCCATCCTGAGGGAAAAGGGTTTCCAGTAAGGGATCAACCAGATCAGGTTAATACCTCCGCTCAGGGGGCTCGCCGGAGTGTTTGTGGAAACCATACCGGCCCAGCCAGTTGGAATGGGCCCCAGCCCTAATGCTAGAGCAGCCCCCGACCTTTGGGGGCCAGATATTAACCCTTTAGTTGCTGGTGGAAAAGAAGGCCCAAGGGCCCCACAGGAGGCACCGGGATGGTTCAGAAGTGGGGGACACTCAGGTGCCTCAGGGTACCAGCCCACCCCAGCAGAGTGTGGACCTCCCAAGCTGTCCTGTGGGTGCCTGTGTCTTCACAG
Seq C2 exon
CTCTGGCGACGGCGCTTGACGTGGGCTTGTCCAACTGGAGCTTCCTGTATGTCACCGTCTCGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080189:ENST00000543605:3
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(38.2=100)
A:
NA
C2:
PF0089215=EamA=FE(16.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTCCATTTCCCCCTCTTCA
R:
AGCGAGACGGTGACATACAGG
Band lengths:
214-1199
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains