MmuINT1012516 @ mm10
Intron Retention
Gene
ENSMUSG00000086779 | Gm13562
Description
predicted gene 13562 [Source:MGI Symbol;Acc:MGI:3651238]
Coordinates
chr2:26369601-26371952:+
Coord C1 exon
chr2:26369601-26369740
Coord A exon
chr2:26369741-26371382
Coord C2 exon
chr2:26371383-26371952
Length
1642 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGC
5' ss Score
9.12
3' ss Seq
TCTGTGTTTCTGTGTCTTAGGCG
3' ss Score
10.15
Exon sequences
Seq C1 exon
ATGCTGTTTCTTCTGAGGGGAGGAATAGGCTGCCTCAGGTCTCAGATACCCAGGCATATAGGTAACAGAGAAACAGGACACCCTATGGAGAAGTTCCTTAAGGAAGAACACCTCCAGGGACAGAGCACACTGGGGCTGAG
Seq A exon
GTATGCTTTCCCTCTGTCCTTGGCCTCCTGATAAGGACACGAGAGGGCCAGAACCTTTGCACTCCCTTCCCATCCCACAATCCCTCATCTCGCCCAAGCACTCTTACAGGTTATGGGGTTTTTGCTGAGCTCGAGGAAAGCATACACACAGAAAGCAAACAAATGTCTCACCCTGGCCAAGATCTTCCACTTGCTCAGACACTGGGAGCCTGACCGATGGGGCAATTCAGAAGCGATTCTTGCCCAGTGACCTGCAAAAACAGCCACAGTAGATCAGCCTCTAGGACAGAGGCTAGGTCATCAGGAGGGGCTTCCCTCATGTGCTTGGTGAGAGGATCTGTGTTTGCCAGCATGCGAATCTCAAGGCTGACCAGCCCCTGAGGAAGGTCTGGCACATACAGGTAGGAAGGGAAAGTCACTACAGGCCCTGTGCATCTGATGCACTTAGGCTCTAAAGAGACCTTGCCAACTCTTTGTGCCTAGTGCTGCAGAGGGACACATGCACATTGCAGTTCTAGGGCAGTGTGACAACGGGTGGAAAACACTCTTATGTTCTGAAGTCATATTAGTTTTTTTTCTGAGGAGGTATCACCAATATCAGCAAGATTTGGCCACAAACACTTAGCTCTCTCCTGACATGTTGTAAAAAGTTGAGAAATACAGCAAATGCAAGTCACAAAAGGTCTGACTAAAGTCGGACACAGTTATGCGTGCGAATGTGGGCTTGCATCTGCCTCCTGAGTGCCAGGATTAAAGACCCTGCACCACTTCATCTGGCTTCCCCATGTTCTGTTGTGAATATCTATTCATTTGTAATGAGAGCATGAGGTTGGGGCTTGGAGGCATGCTTGCCTAGCTGGAGTGAGGTCCTGGATTCCATCCCCATGCCCACCCCTAAAAGAGAACAGCATTTGCAACTGGGAAGGTTGAGAATGAGGCAGAAACTGATTTGAGGACAGCCTGGGATCCGGAAGATGGGCTGCAAGAATTCGCAGTATGATCAGAGTCAGCAGCAGCAGGTAATACTGTCCGACAGACAACTCACCAACACCATATTTCTCTATTAGCTGGATCAGCTGTTGTTCTTCTTTTGCATTCCACCGTCCCTTTTTCAAGCTGAAATGTAATCTTCTGATGTAGCTGGAAATGTGTGGAAACAGAGGGACACTTTAGGTGCTAAGACCCCCTTCACTGCTCTCTGGCCTTCTCAGTGATTTCTTAGGACAATACCACAACAAGCAAAAGCAAAAGCAAAAGCAAAAACCAAACCAAAACCAAAGCAAACCAAGACAAGATGGAATTCATCATTTTTTTTTTTTTTTGGTTCGAGACAGCTTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTTTGTAGACCAGGCTGGCCTCGATCTCAGAAATCCTCCTGCCTCTGCTTCCTAAATGCTAGGATTAGTCATGAGCCACCACTGCCCAGAACATTTCAAGAATTTTATGCTTTAAGGCAGTGGTTCTCAACCTTCCTAATGCCGTGACCCTTTAATATAGTTCCTCATGATATGATGACTCCCAACCATAAAGCTATTTTTATTGCTACTTCATAACTAATTTTGCTACTGTTATGAATTGTAATATAATTATCTGTGTTTCTGTGTCTTAG
Seq C2 exon
GCGACCCCTGTGAAAGGTTCATTCAACAACCTCCCTACCAAGGGCTTGAGACCCACACGGTGAGACCCACACGGTGAGGCCCACACGGTGAGGCCCACACGGTGAGAACCACATGGTGAGACCCACACGGTGAGACCCACACGGTGAGACCCACACGGTGAGACCCACACGGTGAGAACCACTGCTGTAAGGCGCCTTGTGAAGAAGGGAGAGAAGAGCCGTTGATTAGTGCATCTGACTAGGGACTTGCATTTTGAACATGTAAAAGCCAGTAATCCAAAGACAGGTAATTTAAACCTAGGAAGGGACTTGACAGGTGTTTTTCCAAAGAGATGTACACATGTAAGAAGCCAGCAGGTACAAGCAATTGTACACACGGTTAGCCATGAGGGGCTGCTGTGAGACAACTGTGTCAAAGTCTATTCCACAAACACGTGGACGGCTTCAGCCACAAGCCTCACATGCTGCTTGTGGGAGCACAATATAGAGACATTTTGCACAGATGACAGTTCTTCCAAAGGCCAAGCACAAGAGTCACCGACCCAAAGACGCTCTTGAGAGAAATGAGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000086779:ENSMUST00000125198:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATAGGCTGCCTCAGGTCTCAG
R:
ATCAACGGCTCTTCTCTCCCT
Band lengths:
342-1984
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