MmuINT1006088 @ mm10
Intron Retention
Gene
ENSMUSG00000026928 | Card9
Description
caspase recruitment domain family, member 9 [Source:MGI Symbol;Acc:MGI:2685628]
Coordinates
chr2:26359364-26360918:-
Coord C1 exon
chr2:26360787-26360918
Coord A exon
chr2:26359560-26360786
Coord C2 exon
chr2:26359364-26359559
Length
1227 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
CTCCCCAATTATAACCGCAGCCT
3' ss Score
5.03
Exon sequences
Seq C1 exon
GTGCACAGCCTCCTTCATGGCTCCACCCTTCTCCAGTTAGGGAACCCCTCCACACTCCCAGAGACCCAGGCTCCTGGTATGTCCATAACCCAGACAGCATCTGCTGGCAGGTAGCTCTCACAAGACCCTGAG
Seq A exon
GTAAGTTCAGTACCCTTCCAGGAAGGTGGGTGGAAGCCTGTGGTGACTGCTGGGGATCCTGGAGCGCGTAAGTACCTACAGGCAGGTGGCATCCTCCATCCTCACGCCTTCATTTGATTAATCCTTGTACACTGCAGCATAGTCCTCCAGTGCTGGACCATGTGGCTGTGGGGCTGCAATGGCAGGCCATAGGCCCAAGGTTTAGAGAAATGTCTGTCCACTGGGTCAACCAGAAAGCAGCAGGAAGCCAAGAGATGCCTCTGAAGAAGAGGCCTGCCATGGCCGTGTCTCTAACTGGAGGTGCAGCTCCGCTGGGGTTAGGGACTGAGCCAGGGGCGCTCTATGGCCACCTTAACTCAGCCCTAAAATCATTGAAGCCATTCACTGAGGCTACACTTGTCCACATGAGTAACCCCCTACATACAACTGGCCTGGTTGATTCCCATCATGTGGCCAAAGGCCAGGGCTCATCTAGCGGCAGAAAAGCAAACTGGAGGGAAGCCACAGCAGATGTCTGTAGACTGTGGATGACATTGCCTGCCCTTCCAGTATACTCCAGCCTAGCAGGAAGGCAGACATGCTCCTGCGGCCAACCCTCCCAGCCCTCCCGGAATAGCACCGTGCCACAGGCTGTTGCATCACCAGCTGGCTACAACGGAAGGCCTGAAGGGCACGGGGCTGTCAGGGAAGGAGGAAGTCAGACATAGGCCTGGCCCCCTGCACAGTGAGAAAGCCTCCAGCCAACCTGACCCTCTTAGTCCCAATCTGGAGACTGGCCAGCAAGGGTCCATGCCACCCAAGAAGGTACTATGTAGGATGGCCACTAGAGGCAAAAGCTCCTACCTCCAGGGCATGCCAGAGCACTTTTGGGTAGGGGCAGAAGCTAGAGCAGGGCTGTTGTACAAAGAGTATTCTCTTAGACCCCAACCGGTCACTTCCCTACATATCCATATGAGAAAGCCTGAGATGACAGGGGCCGGGCAGCTGCTTGGGGGTGCTCAGTTTGACAGGTGGTCTGAGGTGGCTTGTCTATGGACCTCTGCTTCCCCTCAGAAACTGTCCATGAGGCTGAGGAGATAGGGCTGAGCCCTGAAATTTCCCTAGAACGGATCCCTTCTGACCCTGCCCAAAGCCCTGCCCTGACACTCAGGCCTGGGTCCTATCCTAGGCTGACAGGGAACAGAAGGTGGGCACTTCCTCAGCTGCTCTCCCCAATTATAACCGCAG
Seq C2 exon
CCTACAGAGGACATGTCAGACTATGAGAATGACGACGAGTGCTGGAGCACCCTGGAGAGCTTCCGGGTGAAGCTCATCTCTGTCATTGACCCCTCCCGGATCACACCCTATCTACGCCAGTGCAAAGTCCTGAACCCCGATGATGAGGAGCAGGTGCTCAGTGACCCCAACCTGGTCATCCGCAAGCGGAAAGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026928:ENSMUST00000028294:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0061916=CARD=PU(58.6=82.3)
Main Skipping Isoform:
NA
Other Inclusion 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:
GTGCACAGCCTCCTTCATGG
R:
CACTTTCCGCTTGCGGATGA
Band lengths:
327-1554
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