MmuINT1002652 @ mm10
Intron Retention
Gene
ENSMUSG00000009551 | 6330409D20Rik
Description
RIKEN cDNA 6330409D20 gene [Source:MGI Symbol;Acc:MGI:1917980]
Coordinates
chr2:32737500-32741016:-
Coord C1 exon
chr2:32740450-32741016
Coord A exon
chr2:32737632-32740449
Coord C2 exon
chr2:32737500-32737631
Length
2818 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CCTTCTCCTTCTCCTCCCAGGAG
3' ss Score
11.52
Exon sequences
Seq C1 exon
CTAACTCGCGGGGCTTCCCACCCTGGGGCCCTTCTCTTTAAACCCCGACTGGCTTGTGTGAAGATGTCTGGAATGCACGGTGAAGACCTGTGTTGAACTTTGTGAATGTCACCACGCCCAATTAAAAAAAAAAAAAGTTGCCCGGTACAGATAATTATCCAGTAAAGATGCTCTACTGTGTCATAACTAGGCATCACAAAACCTAGACTTGGGGCTCTTAGAGTGTTTGCCTACCGAGGGATAGGCATGGAGTCCAATGGCAACACAGAAAGAATCAAAATCTGGATGGACCACATTAGCTGATAGAATGTCTGCTTGCCCAGCAAGTAAATCCCAAGCACTTCATAACGGAGACCTGGTGGTTCACACCTGTAATCTCAACAGCCAGATGGTGAAACCAGGAATATTACAAGTTCAAGATCATCTTTGGCTACATGGTAAACTCAAGGCCATTCTGGGAATACATGAGATTCATCATCATTGTCGTCGTCGTCGCCATCGTCATCATCATCATCTAGATAAATCTGGTATCCAAACTCTCCCCACAGCCTATGCGACATCAAGCAG
Seq A exon
GTGAGTCCACATCTCTGGTCCCCAGATGTAGATATACTGGAAGCTCTGAATACCGTGACTGAAACTTTCTGTCTTTGGTCTTTTGAAACCCTGAGAGTCCAGGATCCCTGACATTGTTTGGATTTTGGAGTTGTGGACACTCTTCAAAGAAGAACACTTTCAGGGCAGGAATGGCGTTTGGAAATAGCTGATCCCAACCCCCATAGGCAGAGACTTTAAGAACAGAAGCTAGGACTCCTTTAAGAACTGGGGGTTCTGGGTACAGAGAGCAGGTGTTATCCCCCTTATAATTGTTTAAAGTATTTTACCCTCTGTAATGAGATGGCACCCAGGGCCTCATGCAAGCTGGGCAAAGGTTAGACCCCCAGCTATATCCACAGCCCTAAAATCTATATCTTAACTCCATAAAAAGACGAGAGAGCCACAAATCCTCAGAAGGCTCACGCTGCCTTGCCAGACAGAGCAGATCTGTGGGGTTCATCTCCTACCTCAGCTCAACTCCCTCACATAACCCCTCCCGTGCTATAACAGCTCAGTGACTCAGTATCCCTGAAATCTGGGGCCAGGCCAGCTGCCCTGGCCCAGACTCAAGCATCCCCTCGTGGCACAGTCTCACTGAGCCCCCAAAGTCCCCTGTTTCACATAAGCAAATGCTAAGTGTCAGAGAAGCAAGCCACCCAAGTCACTGTCAGACTTGAAACTAAAATCTAGAGCAAGGGATATGGCTTTGTGCATAGAGCACTAGCCTCGCCTGCAGGAAGACGAGCACCACAGGAACCAAGCAGGGTAGTGACTGAATAAGTAAGCAAGCAAGCAAGCAAGTAAATAAATAGATAAATCCTAGTTCTGTTGGATTATAAAATATGTCCAAACTGTGCAATTCTCTGGTTCCCTGCCTGGCCTGAGAACCCTTTACACGAAGAGCTGGCACCTCTCCCCTGCTCTCTGCAGCAGCTGCTGCTCATCTAGGGCTGACTCTGGTGGAGCTTCTGACTGGAGAAGGCCAAGGACATTGTCCTGAGTCTGAGCCTCCGCCTTGGGGCTTGGTACCAGCTCTGCCCCACAAGATCCCTTTTGACTATGAGGAAGCCATAGGTTTGTTGGGTGGGTGGGTGGTCCCTCCCTCCCTCCCTCTCCCCTCTCTTTCTTTCTTTCTTCCTTCCTTCCTTCCTTCCTGTCTGTCTGTCTGTCTGTCTGTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTGGTTTTTCGAGACAGGGTTTCTCTGTGTAGCCCTGGCTGTCCTGGAACTCACTCTGTAGACCAGGCTGGCCTCGAACTCAGAAATCCGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGTGTGCCACCACACCAGGCTTTTTTTTTTTTTTTTCTTTCCTAGGTTTCTTTTTTTCTTTTTTTTTTTATTTTTTTATTTATTATATGTAAGTACACTGAAGCTGTCTTCAGACACACCAGAAGAGGGAGTCAGATCTTGTTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGATTTGAACTCAGGACCTTCGGAAGAGCAGTCGGGTACTCTTACCTGCTGAGCCATCTCACCAGCCCCCCTTTCATAGGTTTCTAATCTGCAGTGGAAAACTAAATCTGAGTTCAGCTTCTCTAAAGAAGCCACAGAGGCTTCAGGAGATGGGTGAGTGAGCAAGGCCCCTGCTGCCAAGCCTGAAGACCTAGCTCAGCCCCCAGATCCCACACAGGGGAAGCAGAGAACCACAGGCTGCCCTCTGACTCCAACATACACATCTAGAGAGAGACAGACAGACAGACAGACAAATAAATAAACAGCAGCATGGTTTTGCAAACAATTGGCTTTCAAAATGTTACTTAGCCTTATTGTTATTACTATTATTTCAAAACCAATGTTTTCTTGTTAAAACAGGGACTTAACCGTGGTCCAAGTTGGCCTGGCACTTGCAATCTTCCTGCCTCAACCACCCAAGTTGCTGAGCAAGCAACAACAACAACAACAACAACAACCCCTGTACTGTGTGGCTGGCTCACTCTGTAAAGTGTTGGCATACAAGCTTGAAGATAGGAGTGCACGCTCCAGCAGCCATGTTAAAAAAAATAAAAATGCCACCTGTGATGGTTACTTTGAAACCTCGGCTTTGGGGGTGAACACAAAAAGAACCTGGGAGCTCATGGGCCTGCCAGTGAACCCCAATCAATGAGACCCACCATGGACAGAAACAACCGTGAGATCTACCTATGACTTCCACAGACACACAAAGACACACATGCAAGCGTGCACTCACACACACAAACTACATCTTAAACATTTCTAGGACAAGATAAGCTGGCCTCAAATCTCACTATGTAGACGAAGATGACCTTGAATTTATCCCGCTGCCCCATGAGTACTGGGGTTACAGGCATGCAGGACCACACTCAGTTTATGTGGAGCTGGGGACTGACCCCCAAGGCCTTCTGTATACTAGGCAAGTGCTCACCTACCGCCCCATATCCCATCCCCAGTCCCCAAATCCAGCTCTTGTCTGTGAGTTGTGCTGAGTGTCTGCTAAAGATCTGAGTCACTCCTGCTGTGTCCTGCTGTGTCCTCCCAGCCTCAGCCCTCAGATACCCAGGCTGACTGGGATCTCATTATGGTGGCCACTGCAGGGGGACACCCTTGGGATCCTGTCCAGCTGAGTTTGGGGCTAGCAGAGAGGCAGGAGGCATGGGGAATAGCTTCCCAGAATGATAGCTGTCCCCAGGGGCTGCCCCCACCCCCAACCTTCTCCTTCTCCTCCCAG
Seq C2 exon
GAGGAAGCCTGGTTCACAGCAGACCCCGAGCGCTCTATCATATCTAGCATACTGTGACCAACCCCCAGCCTACCTTCACATAGTCCCCAGCGGCCTCCAGCTCTGCAGCAGTCCTGGAAGAAGAAAAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000009551:ENSMUST00000009695:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.356 A=NA C2=0.400
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
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