MmuINT0034974 @ mm9
Intron Retention
Gene
ENSMUSG00000039787 | Cercam
Description
cerebral endothelial cell adhesion molecule [Source:MGI Symbol;Acc:MGI:2139134]
Coordinates
chr2:29726795-29728217:+
Coord C1 exon
chr2:29726795-29726912
Coord A exon
chr2:29726913-29728082
Coord C2 exon
chr2:29728083-29728217
Length
1170 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGA
5' ss Score
9.45
3' ss Seq
GACACTGTCCTTCTCCAAAGTTC
3' ss Score
7.53
Exon sequences
Seq C1 exon
GTCCTACCCAGATGAACAGGGTCCCAAGCACTGGACCAAAGAACGGCATCAGTTTTTGATGGAGCTGAGGCAGGAAGCACTGGCCTTTGCCAGGGACTGGGGAGCTGACTACATCCTG
Seq A exon
GTAAGAAAGCCTGGCTACAGAGTATGGGGGAGGCCTCAGGACCTGCTTCCAATAAAGTCTGGTTATAACCAAACTGTCTATAGGACAGATCTTCTGAAGACTGAGCTGAGACCCCTGTATTTAAGCTCACACTAGATACTAAGCCTGGCTCCTTGTACAGGTCTTAGGTTATATGCTGTTCCTAGATTCCTGAGCTTTTGTATGCCAAGAGTATAAACTGAGCCTGGATCCCTGGATTAGAGCTCAGAATAGAATTTTTTTCCAATATTTTTGTTATGTTTGCTCACTGGGTTTTCGAGACAGGGTTTCTCTGTGTAATCCCGACTGTCCTGGAACTCATGCTGTAGACCAGTCTGGCCTCAGAGATCCTCCTGCCTCTGCCTCCCAAGGGTTGGGATCCAAAGTGTGTGCCTCCACCACCTGATTTACTTTTGTTTTTCAAAGGTGGGTGTCTTGGTGCATGCAGCCCACAGAGGGCAGAAGGGGGCCTGGAAGCGAACTCCACTTAGTAGTGAGTCACCATTGGGTCAATGGGTTTCCAACTCAGGTGCTCTGCAAGAGCTACCAGTCCTTTTTTTTATTTTCGAGACAGGGTTTCTCTGTGTAGCTCTGGCTGTCCTGGAACTCACTCTATAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCATGTGCCACCACCCCCCAGCACTCTTTTTTTTTTTTTTTTTTGGTTTTTTGGTTTTTTGAGACAAGATTCTTAGATCTGCTACTTGCTCTGCTCTAAGCCAGCATCTCAGAATGGCCCTTTGTCAGAAATGGTTAGCCCCTTCTCATATCTGTATCCTGTATCCTGTATCCTGTATTATGTATGTATGTATGTATGTATGCATGTATGTATATATAAGTGCACATGCCATGGTATGTGTGTGCATGTCAGAGGATGGCTTTCCAGAGTTGGTTCCTTCTACTGTGTGGGTCCCAGAGACTGGATTCTAGTTGTCAAGCTGGGCAGCAAGTGCCTTTACCTTTCTAGGCGCCTCTCTCTGGCCCTGGTTAGATCTCTGTGTGCTCAGAGCTACTCTGAAGAAATTCCCCCTCAGTGAACTCTGGTCCCGAGTCTGAGACAGGATTCCCTGTGACACTGTCCTTCTCCAAAG
Seq C2 exon
TTCGCAGATACAGACAACATTCTTACTAACAACCAGACACTGAAGCTTCTCATAGATCGGCAGCTGCCGGTGGTGGCCCCGATGCTGGACTCTCAGACCTATTATTCCAACTTTTGGTGTGGGATCACTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039787-Cercam:NM_207298:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.327 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF137041=Glyco_tranf_2_4=FE(32.2=100)
A:
NA
C2:
PF137041=Glyco_tranf_2_4=PD(14.0=37.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGATGAACAGGGTCCCAAG
R:
CTGTGGAGTGATCCCACAC
Band lengths:
246-1416
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: