MmuINT0005650 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:22477934-22480660:-
Coord C1 exon
chr17:22480607-22480660
Coord A exon
chr17:22478061-22480606
Coord C2 exon
chr17:22477934-22478060
Length
2546 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CAGGTATTTTTCCATTACAGGGT
3' ss Score
7.74
Exon sequences
Seq C1 exon
ACTTGGAGAAGAACAATAAGAAGAATGGATGTTTCCCTGGTAAATGCTCCCCAG
Seq A exon
GTCAGTGTCCTGTCCATATTTTTTTTTTGAAAACTCCTCTCATTATTTAAACCATTCGCAACTTGTAATGTTATCTATAGTGTTTGTTTTTTCTCATTTATCTTTGTTCTCCCCCAATAATAAAAATTATATCTTTAGTTCTTTTTCACTTATAATGGGACAAGTACAGATATGTCCAATTATATTTTTACTGGATTTTATGCTGTGTGGACATAAATGTTCAAGGATCAATGGCCTGCGGTTCTGAAAGAGAATGTATTGTAATTGATGCTCAAAGAATATATTGATGGTTAATTTCTTCATTGGATGGACTTGTGTCATTTATTATTTCTGGGGACAGATCTCCTGTGCCACTTAAACTGCATTTCAGGAATAGTCAGGTTTCCAGAAACAACCTTCAACAGCAATGTGAATGTAGATCTGCAAATACATGGACATTGATGTTACTGAGAAATGTATGGAAGAATAGAATTTATGGAATTGTCGAATTAGAAGACTATTCACTGTCTTGAATGAAACTTGATAGAAAACATTTCGGCTCCCTAGAGACATAGATGATGAACGGAATATGTGTCTTTCTCTTACCGTAGGATTGATGTGTTTGTGAGGAGATGCAGGTTGTAGTATTCTGGTATCTCTTTTGAACATTTTATGTCACATAGTCATCTTGGGTTTGTTGACACTTGAAATCTTTGTCTCAGGAGAGACACTGCCTAGTGCTCAGTGTGCTCAGTTCTCAATATACAGATGATTGTTTTCTTCTTCCCTTTTGTTTCATTTTTTAGGAGTAATATAAGCACTACTGTGTGTGCCTTTATATTACAGCACATGCCATATATTAGTAAGAATTTTCTGGAAAATATTATCTTGGTACTATGCATAAGCCATCACATTTTAAGCATACATGAATGTCCCTCTTAATTTGTTCTCTTCTTCAGCAAAATGAATGTTCCATCCACCCTATGTTTTTCTCTCCTCCAGTCTATGTATTACATAGGGGAAAACTGAAGGACTGTGGCAATATTTCTTTACAATAATATTTTATTTGAATACCTAAGTGTTTATCTTCATATTTTTATGTACATTGAATGATACCATATGCCCCCAAATCCTGAGTTTAGCATCCAGCCCTTGGGACTGAGGTTAAACATGATAGTGAGCTACAATGTGTGTAGAAACAAAAGAAGATTAAGTCAGGGCTACACAGAGAAACTCTGTCTCGAAAAGGGAAAAAAAAAGAGAGTGAGAGAGAAGATAAAGTTAAAATTACAATTTTCAGTTAAGTCAATCTCATGAGTAATAATGTTTTTAAAATTCAAGAAGAATTACTATAATTCTCAATTAAAAAACTCAATTTGATCAAAAAATGATTCTACTTTAGTTGAATGCATTGTCACATGTGCCATTTATTTACACACACATACCTAATTATTATGTAGTAAAAAAACATATGTAATTAATGACCTTGATATTATCTGTACTGCATATGTCAACTTTGATAAAACTTTCAATAATTCTATGCTGTCTAATACTGGCTTTTTTATTTTACTGTTATGAATATAGCCTCATAAAATAACTTCATAAAGTATTTCATTCTGTGTATCCTTTGGAATGTTGACTGGGTTCACTGATTTAATGTTTAAAGAAAAAAATGTGATTCTTAATTCATCCAATAATTCTGCATTTCGTGTTGTACATCTTTGTCCTAGTAAGGGTACAGCATTGTTCCTAGGTCTCAGGATATCAACTGAGAATTTTAAAATAGAGTCATGTGAGCCCCTACTACAGATAGGATTGATAAAGTGTCCATAGTTGAGCAAGAGTGAGAGCTGTAAAATTTAGAAGTACAGTTTTATTCATTGGAATTTGACCATCTGTGATGTGACACTGGGATTCTGTTTCATAGCAACCCATACTTCATAAAGCTACACTCCTGAATCTAGACAAGAAATGTGTATGTTATATTCCCTAAAACTTTGCTGATTACAATCCTGTAATCCTGTTTCAGAGAAATAGAAAATACAATAGAGACTATTTTGCATCATTTATTAAAATTAATTTTCAATTTTATTTAATGTTTGTTGGTATATTTGGCCGAATGTGTGCATATGTGCTGTGTATTCCTTCAGCCTGTAGGGCTCAGAAGAGTGCATCGTATTTCAGAGAATTGGGATTAGAAATCTGTTGTATAGTTATGTGCACTGGGAAACAACTTTGGATTATAGAACCCAAAGTACAGACAGATTTTTAAATGAAGTGATGGTGGCAAAACCTTCATCTGATGCTAACGTCTTATAAAACATTAGAAAGTTAATGAAGCAGAAGACCTTATGAATGTAATCAATATAGTATATCTTTCTATAAATTGCCTATGAAGGAGCAGCAGTGCATACCTTATGACACATTTTTACAGCATTTCTAGAAGATGTTGTTTGTCCTTAAATATTTACCATGACTCAACTTTATCACAAATTATCTTGAATTCTTTAGGAGGTTTTACCTAGGAAATCACTTTTGTCCAGGAAACAGGTATTTTTCCATTACAG
Seq C2 exon
GGTCAGTTAACATTCAAGGACGTGGCTGTGGACTTCTCACAGGAGGAATGGGAATGTCTTGACTGTGCTCAGAGGGCATTGTACATGGATGTTATGTTGGAGAATTACAACAATCTGTTTTTTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
-6330416L07Rik:NM_176962:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
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
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: