MmuINT0048207 @ mm10
Intron Retention
Gene
ENSMUSG00000035392 | Dennd1a
Description
DENN/MADD domain containing 1A [Source:MGI Symbol;Acc:MGI:2442794]
Coordinates
chr2:37798991-37802273:-
Coord C1 exon
chr2:37802015-37802273
Coord A exon
chr2:37801251-37802014
Coord C2 exon
chr2:37798991-37801250
Length
764 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TCCTCCCTCCTTCCCCACAGAGA
3' ss Score
11.87
Exon sequences
Seq C1 exon
GCCACAGCCATACCGGACATTGAAAGAATCAGACAGCGCAGAAGGTGATGAGACCGAGAGTCCAGAGCAGCTAGTTCGAGAACCCTGGGGACCTACCCCTGCTCCACCTGACCGAGCTGCCAGCATTGACCTTCTAGAAGATGTCTTCAGCAGCCTAGACGTGGAGGCACCACTGCAGCCGCTGGGCCAAGCCAAGAGCCTGGAGGATCTCCGGGCCCCCAAAGACTTGCGGGAACAGCCAGGGAGCTTTGATTACCAG
Seq A exon
GTATGATGGGAGTAGGGAACAGTAGTTGATGGGGTGTCTCCTAATGAGCAAGGTCCTCCTAGTCACAGTGGAAGGGGCCAGGGAGATAGGACATCACATCCCCACCCCTGTGTTAGTACTCCAACCCCACCCAATTTGGAGCAGTACACTGTTACCAGCTATCACGGGGAGCTATCTATCATGCTAGCACAGCAGGGGGTGTCTGCCTGCCTCCATTCTTATCTGATAGTTGGCTGCTGCAAGGCTTGTCCAAGCCCACCAGGCTCCTTGGATCAAACTCCTGGGTTATGGATTGGTTCTCCCAGTGCGACTATCAGTCAGCTCCCCTCTCTGGGATTCATAGATTATCCCACCTTCTGGGAATGAAGCAGCTCTAGTCTAGCCCAGGTCAAATGGAGGCATGGTCAGGACTCAAATACAATCTCTTCTCTGGCTCCTGTCCCTTCAGCCAGGCCTAGAGTTACACTTGCCCCTTTGAGGGTAATCAAAGACACCACAATCTCTGAACAGCAAAAAGGCTCAAGCCATTGTTAGGTGGCCCACAGATGGAAACATTTTCCTGAAACTGCTTGGCAAGCATAGGCATTTGTAAAAAGACAGGAGATTCCTTTGTATTCCTTTTGTGGAACACAGTAGGGCTTGGATCTCTGCAGGTGTCTTGGGTACCTGCAACTCCTCCCAGTCCCAGGAGCAATGTGCTTGGCATGCAGGAAGGGTTGCCTGGGCTAACCAGTGGTCATCACTTCCTCCCTCCTTCCCCACAG
Seq C2 exon
AGACTGGACCTGTGCAGAAGTGAGAGGGGCCTTAGCATGGCTGCAGCCTTGAAGCTTGCTCATCCATATACTAAGCTCTGGAGTCTGGGTCAGGACGACATGGCCATCCCCAGCAAGCCCTCCATAACCTCCCCTGAGAAGCCCTCAGCTCTGCTTGGTACTTCCCCAGCCCTGCCTCTCAGACCCCAGAACCAGGAGGGCATCCTGAGCCCCAGCATCAAGGAGGAGACTCCCATCCCAACTCCGGGCAGCATCACCATTCCCAGGCCACAAGGCAGAAAGACCCCTGAGCTGGGCATCGTGCCTCCACCACCCACTGCCCGGCCAGCCAAGCTCCAGGCTGCTGGCGGCCCACTTGGTGACTTCTCTTCAGAGCCACTGCAGATGGACCGGGAAAGACAAGCCGCTCTGAGTCCAGCCCTCCTGTCAGGGCTGCTCCCCAGAGCTGTCCCCCAAGGTCCCACAGAACTTCTGCAGCCACCCAGCCCAGCCCCAGGAGCTGCAGGCACAGGCAGCGATGCCCTGCTCGCTCTCCTGGATCCACTTAACACAGCCTGGTCAGGCAGCACCATCCCATCACATCCTGCTACCCCCAGTGCAGCCACCCCATTCATCCCTCAGCTCAGCTTCCCCCCAACAGTGACACCCACCCCTTTTGTACAGACACCACTCAATCCCTTTGTCCCATCTGTGCCAGTAGTACCACCCTCCATGCCCCTGAGCTCTACACCAGCCAGGCCTTTTGGGACCCCTCCAGCATCCCTAGGGCCAGCATATGCACCTAGCATTCTATTGTCTAGTTCTGGCTTCTATGCCCCTCACAGGTCTCAGCCCAACCTCTCTGCTCTCTCCATGCCCAACCTCTTTGGCCAGATCCCAATGGGTGCCCACACTAGTCCCCTGCAGCCACTTGGCCCCCCAGCCGTTGCCCCCTCCAGGATCCGAACATTGCCTCTGGCCCGCTCAAGTGCCAGGGCTGCTGAGGCCAAGCAGGGGTTGGCCCTGAGGCCTGGTGAATCCCCACTGTTGCCTCCCAGACCGCCCCAGAGCCTACAGCCAACCCCGCAGCCCTCTGTTCCTACACAGGCCAGAGACCCCTTTGAGGATTTGCTGCGAAAAACCAAGCAAGATGTGAGCCCAAGCCCAGCCCCGGCCCTGGCCCCAGCCTCCACCTCCGTGGAGCAGCTCCGCAGACAGTGGGAGACCTTTGAGTGAGCAGGCCTGTGCCACTGTCTAATACTGTGCCTCCCCAACGTCCCATTTCTAGCCAGGCTTCATGGGGCAAAGGGACTCTGCCCCCTCCTCCACAGCCCATCTCTGAGGCCTGGCCCTGGGAATGGCCATCCCAGAAGAGCTGCCTGCCGCCACCCTTGGCACCCTGTGTGGGTTTTGCACTATATGTCAACTGGACCAGCTGTATCCTATCCTCCCATAGCCCAAGAGGAGTCAAGAAGCTCAAGGCTGCTTTCAAGCCCAGCTCTCCTCCTTTGCTGGGCCCCACCCCACAGGGCAGATGTCAGTAACAACCTGTGTAAGCACAGCTTTGGGGGACATGGGTGTTTGGGGGGCTGAAATGAGGCCCACTCCTAGGCTGGCATTTCTCCCTGGTGGTCATCTCCAAACCTCTCTAGCAATATACTCTTTCCTGAGTCTTCACCTAACCACCAACTGGAGTTGTTCCTGAAGGGTCAGGGGTCTGGAGACCTAATGGTCAGCAAACCCAGCCCCAGCCAGCTCTTCCAGGGGTTGGGAACACCAGCAACTCTAACTTATAAGAGAAGCTCCAAACCTGAGTCTTAGGAGCCGCCCTCAGCTCTCTGCCACCCTCATACCTCTGGGCTCTCGTGTCAGTCAAAGCTCAGGCCCAGCCTCCTGCCACTTGGAGCTTTATGGGCAGAGCTGGGCAGCAGTGACCCAGATTCCAACTCAAAGGACAAGCTTCCTGCCACAGACAAAGGGAGGGAGGCACAGCTGTTAGAGCTCCTGGGTCAGGACCAGGTGGGGCCCCAGGGCTCCCCAGGTTCCCCCATGGAGTGAAGATACACGTGGCCTCTGAGCGTGCGGCAAGTGGGGGCCTGGAAGCCAGCCCTCCCCACTCTCTCCAGCTTCTCGACAGCGCAGAAATTCCTGAGCCCAAGTCACCAAAGTTATAATGAAATGTTTTGTTATTTTTTCTTTGATCTTGCTTTTCCTTTTTACCTTATTGATTTGATGAATCTTGAAAATTGATTCCTTTCAATAAACCAAGGTAAAACACAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035392:ENSMUST00000102787:21
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.845 A=NA C2=0.801
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGAGAGTCCAGAGCAGCTAGT
R:
GGGCTTCTCAGGGGAGGTTAT
Band lengths:
349-1113
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- 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