MmuINT1007443 @ mm10
Intron Retention
Gene
ENSMUSG00000034903 | Cobll1
Description
Cobl-like 1 [Source:MGI Symbol;Acc:MGI:2442894]
Coordinates
chr2:65105715-65107086:-
Coord C1 exon
chr2:65107012-65107086
Coord A exon
chr2:65105829-65107011
Coord C2 exon
chr2:65105715-65105828
Length
1183 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGC
5' ss Score
9.37
3' ss Seq
AGACTCTACTTCTTTGACAGAGG
3' ss Score
4.01
Exon sequences
Seq C1 exon
GCCTACCTTTGGAAGATGGGATTGCTCCAGACAGCATGTTGGAACTGAGCTCTCCCGAGGGAATGTCCACCCCAG
Seq A exon
GTATGCATGCCTCTTTCACCCCACACGGGAACTGTGAAGGGAAGAAATGTCTTTACAGTAGAGAAATTAATCTGATTGAAATGCTCTTTGTACTGAGAGATTTTAATTCTTTCTACACATTTGTACTATGAAAAAAATCCTCCACCCCACCCCACCCCCCCTTCCACCACCAAGGAATAGACACAAGGATAAGAAACTGGCAGAAATCACATTTTCAGTGCTGGAGTTCTCTATTTGGTCTATTTTTTTTTTCCTTATGTGCTCTCTAGTGAACAGTTAACCGCTTCTTTCTAGGTACTGACACACCGTGGTATGTCACATTCCTTAGTATGTTTCAAAGACTTAACATTAAGCACAGGCTCTTTGGGCAGCTGCTTCAGCTATGAATTCAGCTTTGATGTGTTCTCCTCTTTACAGGGAATTTCACTCACATGTACTTTCCGCCACATAGCTCTCAGTGTGGATTCTCCCAAGGAAATGAAGTTTAAAAAAGAAAATCAGACATTTTTGATATGTCTTTAATTATTTCAACAGTAACTACTTAGAAGCTTTTGTAAGAATAAGTCTGAGCAGGGTGTGGTGGTACAAATCTGTAATTGCAGTCCTTGGGAGGTTGAGGCCAGCCTGGCTTAAGAAGGAAAAACTTATTAACAATCTCAGAACCTGAGTACATTAGCATGCAGATAATTTGTAAGTGTGAATGTTGGCCAGGTACGAGTACCTGGGTTGTATCATTTATATTCACAGAGATGGGCAAGTTCAGGAACAGCTTACTCTTTTTCCTTGACTTTAACATGGTACTTAGAAGTTTGGGATTTTAAGTTGTAAAAGAATCCCCTGTTTATAATTAAAATATTGCTATTACATAAGTAGCATTTTTTTTTTCCTTAGAGCAGTCTGTGCATTTCATTCCAACTCATCTACAGCCATCTCATTGTACACAGGGACTTTACCAAGATAATGTTGCCCACATAAAAGACATACAGGAATTAGAAGGCTTTGAAGTTCGAGAAAGATGGCCAGGCTACTCAGACTTCGGCCTATGTCTGGGTCTGTGTTTTCAAGGCTATTCCTTCGTATATGTGAGCTTGCAGCGCTGATCCCACCCCATCTGGATGTGTGCTTGCTTTGTTTTAACTCTCTTCTCTGAGTACCATTTCTACAGACTCTACTTCTTTGACAG
Seq C2 exon
AGGGCTCCCTTGGTCCCGGGTTCCTAAGCCAGGAGCAGTGTGCTGTGCCCAAGCCGCCGGATGAAATCTCTGAGGGCCCTGGAACTCCAGAGGCAGCTGTAGCATCCTTGACCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000034903:ENSMUST00000112431:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTACCTTTGGAAGATGGGA
R:
CAAGGATGCTACAGCTGCCTC
Band lengths:
185-1368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types