HsaINT0152593 @ hg19
Intron Retention
Gene
ENSG00000080189 | SLC35C2
Description
solute carrier family 35, member C2 [Source:HGNC Symbol;Acc:17117]
Coordinates
chr20:44984441-44985276:-
Coord C1 exon
chr20:44985213-44985276
Coord A exon
chr20:44984514-44985212
Coord C2 exon
chr20:44984441-44984513
Length
699 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
GTGGGTAATTTTGCTTCCAGGTA
3' ss Score
6.76
Exon sequences
Seq C1 exon
CTCTGGCGACGGCGCTTGACGTGGGCTTGTCCAACTGGAGCTTCCTGTATGTCACCGTCTCGCT
Seq A exon
GTGAGTACTGGCCATGCCCTGCTGCCTCCCTTCAGGCTGAAGCTGTCTGTCTGTCCAGCGGGGTGTCTGCACACCCGGCTGCTAGGCCAGCCACTCCACCACTCTGGGACCAGCCCTTGCTCTCTCAGCCTCTCCCTGGCACCCAGCAGCTCTCCGGGAAGTCGCCAGCCTCTTCCGTAAGCCCAGCGCAGAGGAGATGCTGTGCCCACCTGCCAGGCAGCGTGGGGAAGCCAGGGAGCTCTCCCAGAACCCCATCATCAGAGCAGGGGAAGGCAGGCTGCAAGGCCACAGACAGGTGGCCACTGGTGGGTGGTACACGCAGCCGCAGCAGAGCCCTATGTGGCCTGGGGGCTACACAAGAGTTTCTTCTTCCCTCTGATGTTTTGCTTCAGAGAGCACTGTTCCTGCCTTCTTGTCCTCCTACTTCTCATCCTTCCTTCCCGCTCCTGGGCTCTGCCGAGGGTTAGGTAAAGAACAGGACTCAGGGAGCTCAACGTCAGACCTGTAACCTCTTCTCTCTGGTGATAACCAGAGGCCTCTTAGTCAGAGATTCCTTCTGATTAAAGGTCGCTTATCACTCAGATGACAGCCCAGCTCTGTTTGGTCATTTCGCTCAGTGATTTGTGCTCCTGCTCCTTTCTCGGTGATGGGTCTGAGCCCTGAGCTCCAGCAGTGCATTGTGGGTAATTTTGCTTCCAG
Seq C2 exon
GTACACAATGACCAAATCCTCAGCTGTCCTCTTCATCTTGATCTTCTCTCTGATCTTCAAGCTGGAGGAGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080189-SLC35C2:NM_173073:4
Average complexity
IR-S
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(14.4=100)
A:
NA
C2:
PF0089215=EamA=FE(16.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)