MmuINT0041390 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr6:121999655-122001893:+
Coord C1 exon
chr6:121999655-121999803
Coord A exon
chr6:121999804-122001743
Coord C2 exon
chr6:122001744-122001893
Length
1940 bp
Sequences
Splice sites
5' ss Seq
AAAGTGAGG
5' ss Score
4.44
3' ss Seq
CTTCATTTTCCTTCTCGCAGGTG
3' ss Score
11.09
Exon sequences
Seq C1 exon
CTCCAGTAAAAGGCAACTTTGACTTGGAGATTCCTGTGGAGTTCAGCATGGCCCCCATGGCTAAAATGCTCATCTACACCATCTTGCCTGATGGAGAAGTGATTGCAGATTCTGTAAACTTTGAAATTGAAAAGTGTCTTCGCAACAAA
Seq A exon
GTGAGGGATTTATTACCTATAATTTCTATTTTTAAAAGGGGGGGTCTGAAGGACAGAGATTTCACATAAATATGCTAAATCCATTCATTGGTGTTTGCCTCCATGGCAAAGATGTGGACAGTACCAGAGTGCCAGATTTCAATTTATAAACCCCACATATGGTTGGAGGGTTAAGAGAGAGGAAGTGTACAGGAAGAGAGGAGAACCGAATTTTTAATGACTACATTAAGTTGTTTAAGTTACATTTTATTGTATTTATCTGCACGTGCACCTGTGCATGTGAATGCACATATGTTGAAGAAAGAGAACAAGTTTTACAAGTCTGTGCTCTTCTTCCTCATGAGTCTGAGGGGTCAAGCTCAGGTCAACAGGCTTGACTGGTGACGCCTTTACCCACTGGTCCATCTCATAGATCTTTAATGTCATATATTCTTATGCAAGACCAGTCATAAGATCCAGGCCTATCAATTGTTAGGATATTTATTTTCCCTCTAGTTTTTCATTATGATTTTTTCTAGGATGTGATAAGAACATAAGACCCTTGCTAGTATTAAATTTTATGACACAGCATATTGAGTGTGTGCTATATCACACATCATCAGTTCCTAGTCACATTAGGCACCTGAAACTATGTCTGTTGGTGAGCATCTGGGCTTTTCTTACTCTAGAGTAGCTAAGGACACCTCTGATCTGCTTTCATCAGCCCCTTTCTATACACCCCAGTCTTCAGCAGTTTATTCTGTCTCTGAATTGAAATAGGAAGGATTGAGAGATGAAGGTGAATGGCAGATAATCCGATAGCCAGACAGAGAGGCAGATGTAGATGTATTTCCAATTAGAATACTGATCTGATTTTTCTACACTAGGTATAATACTCATCATGAAAAAGTACTTTAAATTAAGTAACTATGTTCGGTGGTTGTGGCATGATCCTTTAATCCAAGCACAGGGGTGGCAGGCAGATCTGAGTTCAAGGCCAGCCTGGTTTATAAAGTGAGTTCCAGGACAGCCAGGACTACACACACACACACACACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATTGAGACAGAGACAGAGAGACAGAGAGAGAGAAAGAGAGAGAGAGAGAGAGACAGAGACAGAGAGACAGACAGAGACAGAGAGACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAAACAGAGAGAACCAGAGAATGACAGACCTCGACAGAAAGTGAGACAAAGACAGAGAGACACAAAGATGGAGATAGAGAGACAGAGATGGAAAGAGAGAGGGAGGGAAAATGGAGAGGAGGGGTAGGAAAAGAAGGAGAGATGATGGAGAGGGAGTGTACCTTCTGTGTTGCAGAGATGGCTCAGTAGTAATAGCACTTGCAGCACTGAATTCTGAATCCAGCATTCTTGTAAATGCCAGGCATGACCAGAGGGTCTTACAACCCCAGTGTTGTGGAGGCTAGAGGCCGGAGAATTGCTAGGACTTCCTTCTGCCAATTTTGCTCCAAGATTATGAGGGACATTCTCAAGAGAATACGTTAGAAAGTGGGAGCAGGGCACTCACACCATCCTGTGGTCTCTGATGGGTGCACGGGTGTATGAACTTGCACACATGTGTGCATTACACCACAGTCACATACATGTGCACATACACCAAAAGTGAGTTAGTTGAAGAATTTCAGGGAGAATAATTGTCCTTTTGTTGCTTTAGAGTTTGAAGACATTTCCTGACTTCCTAAATCAATCCCAGGGGAGAAAGGGGAAGCAAGGAACTTCAGTTGTGCTTCTGACAGTATTCATTATCTGGAAAAACAGATGTGTGTGCAGAGATTATGGGTGACTTAGTGTGACAGGTTTCAGGGCTGCAAAAGCAGGAAACCTCACTGCTAAGCTTCATTTTCCTTCTCGCAG
Seq C2 exon
GTGGACCTGAGCTTCAGCTCATCTCAAAGTCTTCCCGCCTCACAAACCCGTCTGCAGGTCACAGCTTCTCCTCAATCCCTCTGTGGCCTGAGAGCTGTGGACCAGAGCGTGCTGCTCCTGAAGCCCGAGGATGAGCTCTCCCCTTCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
-Cpamd8:NM_008646:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
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:
GGCAACTTTGACTTGGAGATTCC
R:
CAGGAAGGGGAGAGCTCATCC
Band lengths:
287-2227
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: