MmuINT0068030 @ mm9
Intron Retention
Gene
ENSMUSG00000026893 | Gca
Description
grancalcin [Source:MGI Symbol;Acc:MGI:1918521]
Coordinates
chr2:62528018-62528506:+
Coord C1 exon
chr2:62528018-62528131
Coord A exon
chr2:62528132-62528447
Coord C2 exon
chr2:62528448-62528506
Length
316 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTC
5' ss Score
6.49
3' ss Seq
CATAATTTTTGTGTGTAAAGATT
3' ss Score
3.44
Exon sequences
Seq C1 exon
GCTACAGGTTGAGTCCACAGACATTAGCTGCAATTGTCAGACGCTACAGCAAGAATGGCCGGATTTTCTTTGATGACTATGTTGCCTGCTGTGTGAAGCTGCGCGCCCTGACAG
Seq A exon
GTATTCAGCATTTAAAAGTAGTTTCAACTTATGTGGCTATTTTTTGTGAATAGTGTTTCTGTTTCTTTCAGGATATTTATAATAGCATTTTCTCATCTTTTTTCACTATGATATCTAAATAGTCTTATCTATTTAAAGTATTCATGAATGCAAATAGAGAAAGTTGAGATTGCTCAGTTTTATAATGCTTTCATATTTCAGTGCCTTAGAATATTAAATACTTAAGATACTGTCAGTCTCAGTATCAGAGACATTAGGTACTGAGAATTAATGGGTTTTCAATTATAATTCTAAAACATAATTTTTGTGTGTAAAG
Seq C2 exon
ATTTCTTTAGGCGAAGAGACCACTTGCAACAAGGGATTGTGAATTTCATGTATGAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026893-Gca:NM_145523:6
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:
PF0154011=Lipoprotein_7=PD(33.7=74.4),PF134991=EF-hand_7=PD(50.0=76.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: