MmuINT0005449 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr9:20311172-20312629:-
Coord C1 exon
chr9:20312463-20312629
Coord A exon
chr9:20311327-20312462
Coord C2 exon
chr9:20311172-20311326
Length
1136 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGA
5' ss Score
10.06
3' ss Seq
TTAATGATTGATGTGAACAGGAC
3' ss Score
5.35
Exon sequences
Seq C1 exon
GACTTCTAGATCTGTACAGAACAGGATATTTTCTGTGTCCTTCCCTGCTCTGCTCATGCCTACCACAGGAATAGGACTTCCTAATAATTTGCTGAAAGAATTAAAGAATAAGCCAGACCTGAAATAAACCAGTACCTCCAGTACCTCCAATAAATGAAATAGAAGAG
Seq A exon
GTAAGATGATTTGTAATAATGTTTTTATTTTAACCCATATATTGAAAATACCATTCTAGTACATAATAAAACATTGGGATGCTTACTTTTTTCCAGACATGTTTGATTTATGTTTATAATAAATGAGATGAGTAGTTTTTAAAGATTGAGAACCTGGGGTGTAGGTTAGTGGTAGAGTGTATGTTTAGCTTGAGGTCCTGGATACAGTTCAAGTCACACACACAGGGCAGGGAATTTAGCCCCATGGTATATATAGTTCTTGGCTCATACACAGAGCCCTGAATTCTATCCTCAGCGCCACATAAACCAGGCATCGGGGAACACATCTGTAATCCTAGTAGTTGTGAGAAGAAGGATCAGAGGTTCAAAGTCATCCTAGCCACATGGTGAGTTCAAGGCCAACCCTTGTATCACAGTATGACATTCTGTCCTTAAAATAAGAAAGAGGGAAAAGAAATAGATTAGCAAGTTCAAGCTTGTTTTCTGTTTTGTTTTTAAAGAAAGGTTGTCTTTCTGTAGTTGAGCTCTAACTCACAGTCTTCCCGCCTTGGCCTCTTCAATGCTAGTATTATCAGTGTGCACTCTCAGGCCCTGGGCCAGATGTACTTCAGAGCTGTCAGACAATAGTCATGTTGACTTTAAAAATATTTCAACTTCAGTTTTTTAAAAATTAAGTCATAATATGTACATGTCAGTAGTCATTTACATGTGGAACTTGTGACTCCTGAATAGTTCTGTGACGGGTCCCTATATTCTCGTCATGTTAGGGAGCAGTAGCAATCATAGAAAATCAAGCTTTTTGGACAAACTGAGCTTCATCAGTTCTCAGTTCATTTCCAAACTGGGTAATTAATACTAGACGGATTACTAATGCTGCCTGAATGTGGGTGTTTCAGTGTGGGTAACTCTATCTTCTGGTTAGGATGCTTATGATAGCAGGTGAGCGTATATATGTAAAGGTCCTAGCACAACTTCTGACAAAAGTAGTAAAGGTTAATTGGTATGCGTATGGCTACTGTTAGTGAGTAGACGTTTGTTGGTGGGTTTCACATATATTATCTGCAGAGAGTGAGCACTACTGTGTGATGTTTGATGACTGATGTTCGATGTTGTTGATTAATGATTGATGTGAACAG
Seq C2 exon
GACTCCATATAACCCTGTATTAAGAGGAATGGAGATTGCCTCTGTCCACTTAGATTCATAAGCTGTCCCGAAGTGATCTTGGCATCAGGGAAGGGAGTGTTCAGGCACATTTCACCATCAGCATCACGGGATGGCAGCCATTGATTTGTCCCATG
VastDB Features
Vast-tools module Information
Secondary ID
-5730601F06Rik:NM_001082485:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
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
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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:
ACAGAACAGGATATTTTCTGTGTCCT
R:
GGGACAAATCAATGGCTGCCA
Band lengths:
304-1440
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs: