HsaINT0068186 @ hg19
Intron Retention
Gene
ENSG00000115271 | GCA
Description
grancalcin, EF-hand calcium binding protein [Source:HGNC Symbol;Acc:15990]
Coordinates
chr2:163215554-163216062:+
Coord C1 exon
chr2:163215554-163215667
Coord A exon
chr2:163215668-163216003
Coord C2 exon
chr2:163216004-163216062
Length
336 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
AGTAATTTCTTTGTTTAAAGATT
3' ss Score
4.41
Exon sequences
Seq C1 exon
GTTATAGGTTGAGTCCTCAAACATTAACTACTATTGTTAAACGTTATAGCAAGAATGGCAGAATTTTCTTTGATGATTATGTTGCTTGCTGTGTGAAGCTTCGAGCATTGACAG
Seq A exon
GTATTGACTATTTAAAACTAAGTGCACAGTGTTATGTAGCTATTTTTCTTGAATAATGTGTCTCATTTCCTCCAGCAAGTTTATAATAATATGTGTTTTCTCCCTTTATTCACTGTTAAATCTAATTAGTTTAAAGGCTTCAAATATTAAGGAATATAAATGATAAAAACGTTATGTTATTTTTGGAAGTTTTTCTCATATCTCTGTTGCCAGGGCTATTCAATCACTTAATATTTAATTGAATATGAAATTATTCTTTTTGTGTACCTGGGTGCACTAAATATTTGAAACTATGTATTTTAAATTACAATAAAAAAGTAATTTCTTTGTTTAAAG
Seq C2 exon
ATTTCTTTAGGAAAAGAGACCACTTGCAACAAGGGTCTGCGAATTTCATATATGACGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000115271-GCA:NM_012198:6
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:
PF134991=EF-hand_7=PD(50.0=76.9)
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:
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
- Pre-implantation embryo development
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)