MmuINT1002519 @ mm10
Intron Retention
Gene
ENSMUSG00000006204 | 5430419D17Rik
Description
RIKEN cDNA 5430419D17 gene [Source:MGI Symbol;Acc:MGI:1918645]
Coordinates
chr7:131235044-131238283:+
Coord C1 exon
chr7:131235044-131235097
Coord A exon
chr7:131235098-131237965
Coord C2 exon
chr7:131237966-131238283
Length
2868 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAA
5' ss Score
7.46
3' ss Seq
TCTCTCTCTCTCTCTCCCAGGAG
3' ss Score
12.37
Exon sequences
Seq C1 exon
AATTCTCAAATACTCCCAGTGGGAACATCTCACCTCTTCCCGTATCTGACTCAG
Seq A exon
GTATAATTAGCCTTCCCATCACAATCGCTAACTGATTTTTCTAAAATGGGCAATGAACTAGACAAGCAGAAAAAGAATAAGGCACTTCTGAAGCAGGGGGTGCAGAGGGCCTTAAATAGATAGACATGTTGTTTGCCATGAGTAGATTTCAGGGGAATCCTTTTGATTTTTTTCTGCTTTTAGTTCCTTCACTGATAAGGTTGGCAAACTAACACCCTGCTGTAACCTTGAGCTATCATAAAAGTGACACTTGAAAAGTTCTCACAAAAATAACAAAGTTTTATACAAGATTCATATTTTTTCTGCATTAAGCTCAAACAGAGTTGTGCATGTTTCTGACATAATAGATAGTAATTAGTGGATTTTGTATGCCCTAAATGCTATTGACAACCCCTTTGACTTATCACACTCCAGCTGGAGTAGACTAGTTGGCTGACTCTAGTAGGTTTTCTTTATCTAATAGAATAGAGGAAAGGGCAGCTCAAATATCTCATGGAAAGGTATCATGCTCCCAGATGACAACAGTCACCAAGTCTCTGTCTGCAGGGGACTGGCCAGAGCTGCGACTGGTGGGTGGCTCCAATCGATGCTCAGGGCGTGTGGAGATCCTCTACCAGGGAGTCTGGGGGACTGTGTGTGATGACCTGTGGGACCTGAATGAAGCTGAAGTCATATGCAGACAGCTGGGGTGTGGTCAGGCTGTGTCTGCCCTTGGCAAGGCCTACTTTGGCCCTGGTTCGGGAGATATCTTTCTAGATAACCTCCAGTGTGCTGGGGTGGAGCACTTCCTGGGCCAGTGTGCCCATTCTGGCTGGTCAGACCACAACTGTGGCCACCATGAAGATGCTGGTGTCATCTGCTCAGGTACTCTATCTAAGTTTCTCATTTGGCAGTCATCATTAGCAATGTGTGCTTTGCTGAAATATGCAAAGAATGGGTCTGAATTTGGAGGCAGTAGCCTGCTGCAGGGAGACCAGGGCTGCATGGGGCTGCCTCTCAGAGCTGCAGTGAACTTCCAGACTGCATCTGTGTAGCATCTACATTTTCAGATCTTCACTTAGGAAACTAGAAGACTGACTGATATTTTTTCAGAAAAGAAGTTTTTGATGAAGTACTGTCTTACTAACTAACAAAGAAATGTACAACTCTTATTCTCCTTAGTCATAATATGGAGGGAATTCTGGGAGATGACTAATTTCAATTGCCTGTGTCTTTTTTTTTTTTAATACCCTGACTCATGCATGAGTAGTTATGAGTAAATAGGTTCCCTCTGGAATATCTACAGCTAGTCTTGTTTGACAATGTGATGTCTTTAAGCAAACTGCTACAATTGCAGATGTGACTCCAAAGAATCAGGCACTGTTAATAGAATGGGTTTGCAGTCCACAGAGCTGCCCACACAGATTAATACATGTTAGTAGTGTATCTATCTTACCAGTAAATACACTCAGGCTCCTGGGAGCAGACACTATCCAAACCACAGCCGTCTACATCTGTCCATTTTCTCACTTTGCTGTAAACTAACACCCCAGACAGAAGCTTATTTTAGACCTACTGATAAATTTGTTTTTCCTGGTATCATGTTCTTTAAAGGGATTGATAATAGATTAATCAATACAAATGAGAGTATAATTAAACTTTATCTTCTGTTATTAAAGCCTGGAGTTCCTCCAAATACCGACCTATTTGTTTTTCTTACTTACAGATGCTGAAAAACCTCTGTCTGATGTTCCAGGTCAGTGGTGTCTTTTATAAATGGGAGTTAAATGTCAGCTGCCTTTGACTTTGTCTTTGGACTGTTTGGTCTTTCACCTCTGAGTTCACTCCTTTCAGCTGCAAATCTGTTACCGAATGACATGTCTGGCTGTGATTCTTCTCACTTTTTCATGTGTGATGTGTTGTATGTGTTGCATGTGTGTTCATATGTGTATCCATCATTTGTAAAGGATTCACGTTTGGTCATTTTCCTCACTGGCATAACACCAAGAGAAAAGGTATACACCAAAGCGACATGGCTCTTTAGGGCTCCTTGCCTGTACGCTTCTCTCTGGTCCAAAGGATGGTTTTTGGTTTTTGTTTTGTTTTTGCTTGTTTGCTTTTGTTTGTTTTTTGTTTTGTTTTGTTGGCTCTTCTACTCATTAGCTCCTTTTTACATTTCTTTTCTCCCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCTCTCTCTTTCTTTCTTTCTCCTTTTTTTTTGAGACAGGGTTTCTCTGTGTTGCCCTGGCTGTCCTGGAACTCACTCTGTAAACCAGGCTGACCTTGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGCCATGCACCACCACTGCCTGGCATCCTTTTCACATTTCTAAAGGGTGTCATCCAGCATCTCTTCTCTGCCATTATCCTCTAACATCCTGTCTTTGCTTTTGTTGTATTTATCACATTGTGGAATGGTACATTTTACTGTGTTTATATTTCACAAGTGAATAGACTCAGGTTCCCAGAGGGTCTATGGCTATACAATCCATGGCTAACACAGGAAACAAAAAAGGCTGCCTAAACAAAATTTGCTGCAGCCCCCACAAACTGAAACTCAGAAATCCATGATAAACATGAGAGTGAATGAATGCTCAAAGTACTGCAGGATCCCAGGTGAAGGTATTGGGGTGTGAGGACTCATTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCCCAG
Seq C2 exon
GAGACTGGCCAGAGCTTCGCCTAGTGGGTGGTTCCAGTCGGTGCTCAGGACGAGTGGAAATCCTCTACCAGGGAGTCTGGGGCACCATATGTGATGACCTGTGGGGTTCAAATGAAGCTGAGGTTGTATGCCGCCAGCTAGAGTGTGGCCAGGCTGTTTCTAGCCTTGGTGAGGCTTACTTTGGCCCAGGCTCTGGAGAAATCTTCCTAGACAACCTTCAGTGTTCTGGAATGGAACATTACCTCGGCCAGTGTCCACATTCTGGATGGTCTGAACATAACTGTGGCCACCATGAGGATGCTGGTGTTATCTGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000006204:ENSMUST00000050586:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.585 A=NA C2=0.019
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0053013=SRCR=WD(100=91.6)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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
- 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