MmuINT0067612 @ mm10
Intron Retention
Gene
ENSMUSG00000038860 | Garnl3
Description
GTPase activating RANGAP domain-like 3 [Source:MGI Symbol;Acc:MGI:2139309]
Coordinates
chr2:32992123-32995165:-
Coord C1 exon
chr2:32995047-32995165
Coord A exon
chr2:32992262-32995046
Coord C2 exon
chr2:32992123-32992261
Length
2785 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CGCTTCCTCTTTCTTTCCAGTCA
3' ss Score
9.84
Exon sequences
Seq C1 exon
TCTGCGCCTTCCCATACCTCCTGGCCTTTACTACCGACTCCATGGAGATCCGCCTGGTGGTGAATGGGAACCTGGTCCACACGGCAGTTGTGCCACAGCTGCAGCTCGTGGCCTCCAGG
Seq A exon
GTGAGTGGAATGCAATATGGCCTTAGCATCCTGAGCGACCTGCTCATCACACCAGGCCAGCTGTTCTGTGTGTGGATGCCAAAAGGGAGGTGGAACTGCTGTGTGGATTGGTCAGCAGGGTTACCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTTTGTGTGTGTGTGTGCCCTCCTTGTAGGGTTGGTGAAGTGGCTCAGCAAGGGAAGCACTTGTACACACCTGATGACCTCGGCTTAGTCCCTGGAGCCTATGTGGGAGGTGGAGACAGGACAGCTCCACACAGTTCTCTCTGCTTCAGGAGACCTACTGGTCCCAGGGCAGCTCAGGCACTCAACTGTGTAATTGCACCTTCTTCTCTTCATCTAACTATGATTGGTGGTGTGTCTTGTCTGTCTGTCTGTCTGTCTATGACTGTATATGTATGCATGCACCACCTGCCTCAGTCAGCTCCTTCCTTTCACAGTGTGGCTCCCAGATCTGAAATGCCAGCTGCCAGGCTTGGTGGCAAGCCTTTACCTTGGTGCCTTTACCCGGAGCTTGCACGTTCCTCCCTGCTCACTGCCAAGCTTCAGTTTCAGGTGTTTCAGCCATGTGAAACATGTCTCATCTTCTAACCCACACCAGTAACTCAGAGGATGCGCAAATTGGAAGGACACTGGAAAACATGACCCAGGGTGTCTTTGTCTAGTGTCCACACCGTGATTCCACCCCACAAAGGCCCCTCTCACTCTTCCAGGCCATGCCCCTGCCCCCTCCCTTCCGGCTCCTTCCCAGTCCTGGTCTTAGTCATGATGGTTGGAGACAGCTGCTGCTGTGCCTCCCTGCTGCACCACGGCTGTGACTATGTACCTGTGTGTAGACCAGTGCTTCCAAAATATGGACATGTTAAAAACGTGTGTGCATGTGTGATTGTGGACTGTGAGTTTACTGATGTAACATAATCTTAGTTTACAGATAACAGTATAATATGCCCATCTCCATAAAACCTAAAACCACTTAGTTCTCAGAAGATACATTTTTTTTTTCTGAACCCTTGCATCTATAACCAAGCCACGGGTTCAACTTCACCCTAAGTTTACAGTTGGCATCCTACCTTGATCCACTCATTATTGTCCCAGTGGGTTTATGTCAAGAGATCTGTCCTGAAACCAGATGTGAGCTAGATATGTGGCTCACATCTGCAAGCCCAGCACTTACAAGCTGTTTGGAGGATTGCTGTTGTGCTTGAGACCAGTCTGAACTGCCTAGTGATGCGCAAGCTAGTCTGCGATACAAGTAAAACTGTAACTCAGAAATAAAAACACCTAATGTGTAATCAACTGTTGAATTAACTTCTGGGCTGGAGAGATAGCTCAGTGGTTAAGATCCCTTAGTATTCTTGCAAAGGACCCAGGTTCAATTCCCAGTACCCGTGTGGTGGTTCACAATGTCTGTTCCAGGGGATCTAGTCCTTCTGCATGTACATGGTACCTAAGACATATATTTGGAAACACACACATACACATAAAATTAAACAAGTTTTAAAAAAAATATATTTCTCACCAGAAACAAATCACACCTCTTAAACTAGAACTTAATCTGGCTGTTGCCCTAGACTCAATACATTTTGGGTTGGGTTGGGTTGGGTTTTTGGTTTTTCGAGACAGGGTTTCTCTGTAACTCTGGCTGTCCTGGAACTCACTCTCTAGACCAGGCTGGCCTCGAACTCAGAAATCCACCTGCCTCTGCCTCCCAAGTGCTGGAATTAAAGGCGTGCGCCACCACTGCCTGCTCAACACAGTTTTATCTAACTTCATACTGGTATCTGATGCTGAGAGTCCATCCATTGGATATGATGACACCAGAATCAGGAAAAGCCAGAGGGGAGTTCCCAAGTAACAGTAAATATAGCCAAATAATTAAGAATGGTTAGATTCTGATGTTAATTCTGACATATTTAAGTTTATACCATTTGTTTGGGGAGAGGGTTCAACATGTAAAAGTGTTTGCAGAGCAAGCATGAGGACCTGAGTTCAAGTCCCCAGCACTCATGTAAAATTCCAAGTGTGGCCACAAGCATGCCTATTAATCTGGTGTGTGCAATACTGGACAGAGGCAGGATGGTTACTGGGGGTTACTGGCCACCGCCTAGCTCCAGTTTCAGCGATACCCAGTCCTAGGGAAGGAAGGTGCCGAGAGATGGAGCAGGATACTTGCCTCCCTCCTCCGTCCTCCCTCCTCCCTACTCCTCCCTCCCTGCAGATACACAGTCATGCATAAGGCACACACATGTGGATAAACAACACAAAGCTAATTTTATAGCTTTAAATTTTTATTGATAGCCATGTTTAAGATCAGACTTGTGAAATTCCTGAGAGCTGGCTCTCAGAGACACATGTAATGTCCCATTACTGTGGTCACCAAAATCAGCAGACAGACAGCTATGCTGGCGTATCTGCTGACTGAGTGAAGCAAGCATCCATTTTTCTCACTGCAGAATGGTCCTGATGGAATCCCCGAGGTCTGTCCCAATCCTGAGACTCCTGAGGGAAGTGTGCGTGCCTTGTGTTGTGTTTGTGATGTGAGGCAAGTGCAGAGAGAAGGAAAGCAAACCTTGGGAAATATGATATGGCTGGGTCAGATGCAGACCTGCACTGCATGCTCTGACGGTCAGGAAGTCATGCTCTAGCCTGGGAACCAGTCAGGGCCTTGGCAGGGGTGCAGGACAGCCAGTGTGTGCAGAGCCTGGCACACAGGGCAGCTGGTAACGCTTCCTCTTTCTTTCCAG
Seq C2 exon
TCAGATATATACTTCACAGCAGCCACGACTGTGCATGAAGGCTCATCTGGAGGCAGCTCAAAGGGAGCCAGTGCCCACACGTCTCCTCAGACACCACCAGCCCGGGACACTCCACTGTTTCCTTCTTCCCTGGGGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038860:ENSMUST00000102810:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.596
Domain overlap (PFAM):
C1:
PF0078017=CNH=FE(12.7=100)
A:
NA
C2:
PF0078017=CNH=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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
- Pre-implantation embryo development
- 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