MmuINT0075623 @ mm9
Intron Retention
Gene
NA
Description
NA
Coordinates
chr17:35458220-35460284:+
Coord C1 exon
chr17:35458220-35458495
Coord A exon
chr17:35458496-35460008
Coord C2 exon
chr17:35460009-35460284
Length
1513 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTCT
5' ss Score
1.07
3' ss Seq
TTCTTAAATCTTTCACACAGACC
3' ss Score
7.75
Exon sequences
Seq C1 exon
GCATTCACACCTTCCAGAAGTTGTCTGGCTGTGATCTGGGGTCAGATGGGCGCCTTCAAAGCGGGTACCTGCAGTTCGCCTATGATGGCCTTGATTACATCGCCCTGAATGAAGACCTGGAAACCTGGACAGCAGCAGATGTGGCAGCTCAGGAAACCCGACGCAAGTGGGAGCAGGCTGGTGCTGCTGAGAAACACAGGACCTACCTGGAGGGCAAGTGCCTGATGTGGCTCCACAGATACCTGGAGCTCGGGAAGGAGATGCTGCTGCGCACAG
Seq A exon
GTCTCTGGCTGGGGCTCAGTCCTGGGGAAGAAGAAACCCTCAGCTGGGGTGATGCCCCTGTCTCAGAGGGGAGACAGTGTCCCTGGGTCTCCTGATCCCTCATCACAGTGACTGCACTGACTCTCCCAGGGCTCAGGCTTCTCCCTGGACAGTGCCCAGGCTGTCTCAGGAGGGAAGGAGAGAATTTCCCTGAGGTAACAACAGCTGCTCCCTTCAGTTCCCCTGTAGCCTCTGTCAGCCATGGCCTCTCCCAGGCTGGGTTCTCTGCCCACACCCACTGTGTGTGGACACTGACTCCTGTCCTGCTGAGTGTGTCAGTCCTTACACCTCAGGACCGGAAGTCTCCTTTCCCTGACATGGACTCCCCTACACTAGGCTGGTTGCCCCAGTTTCTAGAATTTTCTAAAGAATACATTCTCCCAGATCCCTCCCTGTCTGTGGGGTTTGCACCCCTTCGACAACCCAATTCTCTTTATTCCTACACTGGTGAATGGTCACATGAGGCCTTATTGGGAACCCTGGAGGAATATAAATCATGGAATTTCTTTTTCTTTTTTTCTCTCTTTTCTTTTTCTTCTTTCTTTCTTTTTTCCTTACTTTTTTTTTTTTGTGGAAGGCATTATTTTGCTTGTAGTCATCTTTTGTCTGCACTGGAATGATCCTGTTTCTCCCTGCCCTTGTATTATCATGTGTATCAGTCTACACAGGTGCCAGGGAAGGCTGCTAACCTGGATAATTTGACAAGTTAAATCAGGGTTCTCATTAAAGGAGAGATTCCTGTGAACTTAGAGTGTTTCCTGTCAGAACTAAACACCCAGAAGCCTCCTGCTCTTCCTCTGCCCCCCACAAGTTACAGTGCCCCCCCCCCCCAGTGAATCAGGACTTGGACTCTGAGAGACAGGGTCTACTGCAATCCAGGGCTGGAGTGAGAGGGAAGACCACACACCCCGTGAGCCCACTGTGTTCCAGTGAGTGCTGCACTGGGGTCCACAGCTCACTCCAGGGATCCTGTGTGACACACCTGTACCTTGTCCCCCAGAGTCAGGGGCTGGGAGTCATTTTCTCTGGCTCATCACTTAGTGATGGCTGTTCACTTGAACTGACAGTTAATGTTGGTCGACGAGATGACAACAGTTGTAGTCTCAGTTTTAGCACCCTTTCAGTAGCATATGTGCCTAATATCTGATTTTGATATGAACTCAAACACATAATAAATTACTTATTTTCCATTCCCTCTTCCATTCTTTGACTACGTCTCTCATGCTATCTAACATTACATAAGGATGACCATGGTGATCCACTGGCTCATGTGGATTCCATCATAGCTTCTGAGTCCCAAAAGAAAATGTGCAGTTGTGTGCTCAGGGACCAGCTCTGCCTACTGGTCACTAGTGTGATGACAGTTGAAGTGTCAAACGGACACGTAGTTCAGTGTCATCATTGTTTTACCTGAGTCTTGTGTAGATTTCAATTTGTCTTGTTAACCCTGTGATTTCTTAAATCTTTCACACAG
Seq C2 exon
ACCCCCCAAAGGCACATGTGACTCATCACCCCAGATCTCAAGGTGATGTCACCCTGAGGTGCTGGGCCCTGGGCTTCTACCCTGCTGACATCACCCTGACCTGGCAGTTGAATGGGGAGGAGCTGACCCAGGACATGGAGCTTGTGGAGACCAGGCCTGCAGGGGATGGAACCTTCCAGAAGTGGGCATCTGTGGTGGTGCCTCTTGGGAAGGAGCAGAATTACACATGCCATGTGTACCATGAGGGGCTGCCTGAGCCCCTCACCCTGAGATGGG
VastDB Features
Vast-tools module Information
Secondary ID
-H2-Q1:NM_010390:3
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
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
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAACCTGGACAGCAGCAGATG
R:
AGATGCCCACTTCTGGAAGGT
Band lengths:
347-1860
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: