MmuINT0148371 @ mm10
Intron Retention
Gene
ENSMUSG00000048304 | Slitrk3
Description
SLIT and NTRK-like family, member 3 [Source:MGI Symbol;Acc:MGI:2679447]
Coordinates
chr3:73047265-73056943:-
Coord C1 exon
chr3:73056543-73056943
Coord A exon
chr3:73051456-73056542
Coord C2 exon
chr3:73047265-73051455
Length
5087 bp
Sequences
Splice sites
5' ss Seq
TAGGTACTC
5' ss Score
4.68
3' ss Seq
CATCTTTATTTCTATTGCAGTTT
3' ss Score
8.84
Exon sequences
Seq C1 exon
CGGGCTCTCGGGAACCGGGGCGCTTGCCACTGAAGGAAGAGCATCAAGATCTTTGATCAGGCCATCCAGGTCCTGGGACACTTGCACAGCCTGCCTGCCATCCGGAGCAAGCACAGAGAGCAGTGGTCCTGAGCCCACGGTCGCCAGCTTCACCGCGCTAGGTGCGCGCTCGGCTCTCCCATCGCTATGCAGCGACCATTTCCCTCTAAGTCTAAAGGTGGACCACTCTGAAAGGATTACAAGCGTGATTTGGTAGCCTTTCTGAAAGTTGGTGGCTGGAAGAGGGGAAGATACTGGGCGACAGAATGACGGATACAATGCAGCCTCGCGGAGAGTTTGCCCCTCCCGCTGAGAAGCCCCTTGGAGCGAACCTCGGAGATCCTGAGCGCTCTGCACCATAG
Seq A exon
GTACTCATCGACATCCGTTCCTACTTTGCCTGATTGCAATCAGTGTATGTCTTATGTAGGATATGTACTGTAGAACGCATTGACTTTGGCTGCTGGATCTTCTATACACTCACAGGTGCTAGGATTTTTTAAAAATTATATATATATATATATATATATATATATATATATATAATTTTAAGAATTGGATTCAATAGATGTAAGGACGTTGATGAAAGAAGGGCTTCTGGAGACTAATATAACCTCAAACCTGTTTTTCAGGGGAAAGAAATCTTAACTCTAACATATAGGCCAGGTGGCCAAGAGGAAAACCCCTCCCCCCGTGGAGCGCTGGGTTGTATTTTAAGAGACAGAAGGAAAACGGGGATGGATATATATATATATATATATATATATATATATATAATTTTTTTCTAAAGAGACTCCTTGTATGCCTTGCCTGTCAGTAGCGGAGTAAAAAAAGATTCTATAGAAGGCTCATAGCTCTTCAGAAAATGAATGATGCAGCATTTTAATTATTTGTTCCAGGGAGATCGTTTCGCTTCCATATTGGAATATTTAATCTTAGATCTGGAATGAAGGGGAGTACTGAAGAGGGGGGGTAGGAAAGGGGCTTGCTGTGTAGAAAGAGCTTCTTGTCCTTCTCTGGACAAATCAATGGTGCCGGCGCTCCCAGCAGGACACAGAAGAAACCAGCCAGAGGGCCCAGCATCCCCTAACTTTCAGAGCCCTTCCCACCCTTTAAACATGCTATGCTAAAATAAAGGCAAGAGAACTCATGAAAGGCCTTTAGAACATGGCCAAAGTCCAGCACTAAGGACTGTGGTTCCAGAGACTACTGGGACGTGGTTGCAGAGGCCATTTACTGTGACTGTGAAGCCCAGGACAGCCTCCTGATTACCTATTCATTCCATTAGAGCCTGGGTTCCCACAGGATCCCTGAAGCAGCTGCTGCCTTTGCAGACTGGGTGACCAAGGAGATGGGTTCAGGGTACTGGAGAGGGAGGTAAAACTGGTCCGTCCCGAGCAGTTTTCAGTGTACACTGAGGGTTTTCAATGTAAGCTTGTTTCCTGGTGGAGACCTCTCTGAGAAAAGGGTGGGTCTGGGATGTGAAGGGTACAGAATGTTAAGAGACTCTTACAGCCTGCTGCTTACTGAGTTCCATTGCTATTTCCAATCTTAGTTACTGTGGGGTAATGGACAGATGCATGGATATTTTTAATGCAAGCTATCATCCAGATCTCAGACTGACTTTAAGCAATGCTTTGCTCAATTAGATGAAATAGATTTTAAAGTGGTAAGAAATTCATAGCTATGTTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCTCTTCCCTTTCCTTCCCCTTCCCCTTCTTTTTTCCCTTCCTCTTCCCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTCCTCCTCCTCCTCCTCCTCCTCCTCCTCTTCCTCCTCCTCCTCCCCCTCCTCTTCCTCCTTCAATTTGGTTGTGCAAAATACCTTAAGCAAATCATCTTCAGCACCTGCTAACTTTGAGACCCTGGCAATGGAGTTCAATTATTTAGTAGTCAGGAAACAGAAAACCTATGTCCCCTTATGAACTAAAGATAGGATGGGGGAAGGGTTCCTGCATTCTGGACACATTGCACAGTTCCCACTTAGCAGAACCCCTAGATGCTTGTTGGGTACTCCTCAATTCCACCATCAAGTTGTGCTTTCTCCTAGCATTTGATACCATTGAAAGGTCCTTTTAGAGGAGTCTGGGAGAGAGCTGGTCGCTTCCCCCTGTCAAATCTTCATTCAGTCGCCTCTCATCTGGACATTCCTTAGCATTACCTTTGGGGGATACTAGAGAGGAAAGAGAAAGAGAGAGGGAGAGGAGGGAAGAGGGGGGCAGAGGAAAGGAACTAAAGGAGGAACTAAAGGAAAAGAAAACCAATTTGAGCAATTTCCCTCCCTTGAGGCCTCCAGAGGAAGAGTGTGAATTGCCCCACTGCTTTTCAAGCTTCTCAGTCTCCCTACCAGTGGAGAAAGAGGGGAAAGAGGGTGTGAAAAAAAAAAGGGAAGGAGGGGGGAGCTGTAGAGAGGGAGCTAGGAGATAGGCTGGAGGGGAAGGTGGGAAGGAAGGAAGAAAGAAAGGAAGGAAGAGCAGAAAGTTGAAAGGAAACACAGAGTTGTTGAGTTAGAAGTTTATCTAAATTGAAGGAAAGGTTTTGGTGCAAAGAAATTGAAGCAGAATTCAAGAGAAAGTCAGTCCAAGTCGCTGAGGATGTTTTGCCTCTTATTTGGGACACCTAGCCAGTGGCAGAGAGTCTCAGATCTTTCCACCTGCAGGATGTGGGTAACTAGCTCATCCTGGCCTTGGACGGAAGTCTGTGAAGAGAAAGGCCCATTCCAAATATGGTTTCACTGTCCAAGGCCTCTGCACCGGAGGGGAGAAAGAGAAAGCAAAGGTCTAAGGGGCTGATACTCGCCCCCACCTCTATCCACCTCCTTCTGTCAACGGAATGTTTCCCTCGGGTTCTCTTCTCTTTCTCGGTCTTGCTTTATTCTTTTGAATACCTCTACTCTTGACTGCTTTACTTCTTTTAGCTCCCCTTCATGCTCCCACGAGCACACGCTATGCGCGCGCACGTGCACGCACACACACACACACACACACACACACACACACACACACACACAATTGTATAGTCAGGGCTTCTTAGTGCTCGCTCCCGACCAAAGGCTAAGCGTGTTCCCCTACTTGGAGCCCATTTTCATGACGGGAAATGCTGGAAGGTTTTCGGTACACGTTAAAAAACAAACCAAATACACAGCGAAAAAGAAATCTAAATCCCGCAGTGTGATGTGAGCCTGCCTTCCCCGCTGGTGCCCAACGGTGTAGGGTAACCGGGGAGAGCCGCTACAGAGGCGGCGGCGCGCCCAGCAGCAGCGGAGCTGGAAGCCTGCTGCAGCCTCATCTCCTCCCTCCTTTATTGAGGGTGCCAAGCGTCAGTCCTGCATCCTAAAGAAGCCCATTGAAGAGCCCATTGCATTCTCTGCACGTCTCAAGCTAGCTTTTTAATTTATTTTTTAGGGCCTTCCCCCCTCTCCTCCAGCCCCCCTAGCTTCAGCAAGAGGAGACTGGACAAGAGAGGATCCTTAAACTCAAGCTTTGTTTTCCTTGCTGCTTGTCTTTTCATTCTTTTCCATAGTCCGTGGCGAGAAACAAAAATAAAAACCAAAATCCAAACCTCCTGCAAAATAGGTAAGTCAATGATATCTGCTTTAGCCTGGTTGCCTGAAGCCCAGAAGTGTGAAAACCAAGAAAAACATTTTTATTTTTGTTTTTGAAATGGTGAGGAGGAATGTAATGTAAGATGTGTCTAATACTTTACAAGGAAGCCAAGGGAAGACTAAGTGGCACTATAATGTATCCTCATCTGCTTTCTCTGTCTCTTTTTCATTTAATTGTTTCTAAAAATTGACTATTACATGCCGGAGGCAGATTCCACTTTGCTTTCTCAAGAGTTTCTCCTTGCAGCTGTGTTCATGTTATGCCAGTGGAATGTAAAGATAAATTCTTCCCACTTTCCCTATAAATTATCTCCTTGTGTTTCAAGTTAAGAAATATTTCCTTGATATATGTATCTGATGTGGGGAGAAAACGTAGGTTGGAGACCCTGATTTGTTTTTATTGATTAAAATCAGCCATTCAAATTCAATTGATATTTCCCTGACCTGGGAAGGATAATGTAATAAACCTGGAATATTATAATGTATTTATGTTCGTGTGTTCATACACTGATGAGACTAAGCAAAGCGAGAAAGCCTTTGATGAAAGCACTGTATGTTTCCAGAATAGAACACTGAATTCATTTCTTCTCATTGGAAAAATAAATCTTTTTCTGAAATGTTTTCACAAGCTTGATAATGAGCAAGAACTGGCGATTCCACCCATCATGGCCTTTAACCACCTACTTCTTTTCTAAACAGCTACCTTTCCTTATAATTTTTTATGGTTCCTCAGTTGATCCCCAAAGCACAGATTCTCAGCCCATACTAAGCTCTTGCAAGTGTTTTGCTTCAGACACTCCCAGGCTTAGCGACCTTTAGCTGTCACTATCTTTAGCTCTGACAATTGCATGGGCCTGTTCTTCAGAAGAACTCATCACTCTAATGCTTTAAACATCCAGAATGAGAATATGTGCAGACATTATTTATTTAACTAAAGGATACTTGCATTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGGACAGAAAAGGTTAAGGGTTGGGTATGGACGTGGGCTTATATAGTAATTAAGTAGCTTTTCATGGTTTCTTAAAAGAAAGCTTAAGTTTCTTTTATGTTGACTTCTCACATCTCAACATCTCATATTGGGCGATATGTTCACTTTTCTTCATACTCTTTAATATCTTCTGGTTATAGCGTGTTTTAAAATAATAAATGTATACAATTTAAAGAACATCCCTTCCCCCCCACCACCAAATTTAAAGAACATCCCTCCCCCCCCCCACCATGACTTCCAGTAAGATCGACCATGGCAGACCTTAGTTTAAAGAAACGAGCAAGTATAATCACTAAGTCATTGTCTTTATAGCTGAGTCTGTCTGTGATCACAAGCCTGAGTCAGGGCTCCAATTCTGTTGTTGTTTGTTGTTGTTGTTGTTGTTGTTTTTAATCAAAGGAAATCAGTGCAAGTTGCTTTTGTTCTTGTCATATAGCACTTATTGAACAGGGTTCAGGAAAATTTCATTGCATGTTGCAATATGTCAGAGTATCTTAAATTGAAAACATAGGACACACTTTAAGCATTTAACACTTTGTTGCCTCATTTGGAGTATCGGTTTCATACCTGCTGAGGATTTCATACCAAAAACAACAACAACAACAATAAAATTACCCCAGATGTAGGAATCAATTAAAGTAGTACAAATGCTAAAAATCTGCATCTTTATTTCTATTGCAG
Seq C2 exon
TTTTGTAATCAACCAGGAATGATGAAGCCAAGCATAGCTGAAATGCTTCACAGAGGAAGAATGCTGTGGATAATTCTTCTAAGCACAATTGCTCTAGGATGGACTACCCCAATTCCCCTGATAGAGGACTCAGAAGAAATAGATGAGCCCTGTTTTGATCCATGCTACTGCGAAGTTAAAGAAAGCCTCTTTCACATACATTGTGACAGCAAGGGATTTACAAACATTAGTCAGATTACTGAGTTCTGGTCAAGACCTTTTAAACTGTATCTTCAGAGGAATTCGATGAGAAGACTATACACAAACAGTTTTCTTCACTTGAATAATGCGGTGTCCATTAACCTTGGGAACAATGCATTGCAGGACATTCAAACTGGAGCATTTAATGGCCTTAAGATTTTAAAGAGACTGTATCTCCATGAGAACAAACTAGATGTCTTCAGAAATGACACCTTCCTTGGCTTAGAAAGTCTGGAATATCTTCAGGCAGATTACAATGTCATTAAACGTATAGAGAGTGGGGCATTTCGGAACCTAAGTAAATTGAGGGTTCTAATCTTAAATGATAATCTCATCCCCGTGCTTCCAACCAATTTATTTAAAGCTGTTTCCTTAACGCATCTGGACCTTCGTGGGAACAGGTTAAAGGTTCTCTTCTACCGTGGGATGCTGGATCACATTGGCAGAAGCCTGATGGAGCTCCAGCTAGAAGAGAATCCTTGGAACTGTACCTGTGAGATAGTACAGCTGAAGAGTTGGCTGGAGCGAATACCTTACACAGCCCTGGTGGGAGACATTACCTGTGAGACACCTTTCCATTTCCATGGGAAGGATCTCCGTGAAATCAAGAAGACTGAACTCTGTCCACTGTTGTCTGACTCTGAGGTGGAGGCCAGTCTGGGGATTCCCCACTTATCTTCAAGCAAGGAGAATGCCTGGCCAACTAAACCTTCCTCTATGTTGTCTTCTGTCCATTTTACTGCTTCATCTGTTGAATATAAGTCCTCTAATAAGCAACCAAAACCCACCAAACAGCCCAGAACACCGAGACCACCTTCGACATCCCAGGCTTTATATCCTGGTCCAAATCAACCTCCTATTGCCCCCTATCAGACTAGACCACCCATTCCCATTATATGTCCTACTGGGTGTACATGCAATTTGCATATCAATGACCTTGGCTTGACTGTCAACTGCAAAGAAAGAGGATTTAACAACATCTCTGAACTCCTTCCAAGGCCCTTGAATGCCAAGAAGCTGTACCTGAGCAGCAATCTTATTCAGAAGATATACCGCTCTGATTTTTGGAATTTTTCTTCTTTGGATCTCTTGCACCTAGGGAACAATCGCATTTCCTACGTCCAGGATGGGGCTTTCATCAACCTGCCCAACCTGAAGAGTCTCTTTCTCAATGGCAATGATATAGAAAAGCTGACTCCAGGTATGTTCCGAGGTCTGCAGAGCTTGCATTACTTGTACTTCGAATTCAACGTCATCCGGGAAATCCAACCTGCAGCCTTCAGCCTCATGCCCAACTTGAAGCTGCTATTTCTCAACAATAACTTGCTGAGGACTCTGCCAACTGATGCCTTTGCAGGTACATCCCTGGCTCGGCTCAACTTGAGGAAGAACTACTTTCTCTACCTGCCAGTGGCTGGTGTCCTTGAACACCTGAATGCCATTGTGCAGATAGATCTCAACGAGAATCCTTGGGACTGCACTTGCGACTTAGTCCCCTTTAAGCAGTGGATCGAAACCATCAGCTCAGTCAGCGTGGTAGGTGATGTACTCTGTAGGACCCCCGAGAACCTCACCCACCGTGATGTGCGCACTATTGAGCTGGAAGTTTTATGCCCAGAGATGCTGCATATTGCCCAACCTGGACCATCTCCACCCCAGCCTGGAGATTACCACCCTAACGGGGGACCAACAAGTGCATCACCTTATGAGTTCTCTCCCCCAGGGGGCCCTGTGCCACTTTCTGTGTTGATTCTCAGCCTCTTGGTTCTGTTCTTCTCAGCTGTCTTTGTTGCTGCAGGCCTCTTTGCCTATGTGCTCCGTCGGCGTAGGAAGAAGTTGCCCTTTAGAAGCAAGAGACAAGAAGGTGTGGACCTTACAGGAATCCAGATGCAATGTCACCGGCTGTTTGAGGACAGTGGAGGCAACAGTGGTGGGAGTGGAGGTGGAGGGCGACCAACTCTGTCCTCGCCAGAGAAAGCCCCTCCCGTGGGTCACGTGTACGAGTATATACCCCACCCAGTAACTCAGATGTGTAACAACCCCATCTATAAGCCTCGAGAGGAGGAAGAAGTGGCTGCCTCAGCAGCCCAGGACACAGGAGCTACAGACCGTGGAGGTCCTGGTACACAACCAACAGGAATGGCTGAGGTGCTCTTGGGAAGTGAGCAGTTTGCAGAAACACCCAAGGAGAACCACAGTAACTACAGGACCTTGCTGGAAAAAGAGAAGGAGTGGGCTCTGGCTGTTTCCAACTCTCAACTTAACACCATAGTGACGGTGAACCATCACCACCCTCACCCTCACCACTCGGCAGTTGGTGGGGTTTCAGGGGTAGGTGGAGGGACTGGGGGAGACTTGGCTGGGTTCCGCCACCATGAGAAGAATGGTGGGGTGGTGCTGTTTCCCCCTGGGGGAGGTTGTGGTGGTGGCAGTCTGCTACTAGACCGTGAGAGGCCACAGCCTGCTCCGTGCACAGTGGGATTTGTGGACTGTCTCTATGGCACAGTGCCCAAATTAAAGGAACTCCATGTCCACCCCCCTGGCATGCAATATCCAGACTTACAGCAGGATGCCAGGCTCAAAGAAACCCTTCTCTTCTCAGCTGGAAAGGGCTTCACAGACCACCAAACCCCCAAAAGTGATTACCTCGACTTAAGGGCCAAACTTCAAACTAAGCCGGATTACCTCGAAGTTCTGGAGAAAACAGCATACAGGTTCTAACCGAAAGAAGAAAATAAATTAGTGGCTTTGTTTTGATTTCCAAAAGAAAAAGGAAAATAAAAAGAAATATATCCCCGGCTCCCATTATACTTGTCCCAATAACTACATCCTTACAGTTTCCCCTGCCTAGGACAGAACTGAAACGCATGATAACTAGAGAATACAAAAGTGTGCTCCCCCTCTCAGATGTGATTTTGAGGAAGGGCCATACTCAGATCATTAATCAATGAAGTGCCTTCGCAGACTTTTGCCAGCAAATGTTATCATTATTTTTTATACTGAAACTCGAGACTTTGACTGTGCCATGTGTGAGGTATACTGGGGATCGTTGTATTGATCCTAAATGAGTAAACTTCAATGTGTCTTTTTATTTTCAGTAACTTTTCTTCCCTTTAGTTGCAGTTATGTTTGAAAGGGAGGGGGGAGGTTGGCATTTATGGCTTTCTCTCCTTTTCCCATCATGGCACAGATTCTGTACATGTATTAACAATGCAGTTTGCTGCATGCTTGAAAACTGCAGGATGGGGAGGGAGGGGCGGGTCTTGCTCGAATGTTCTCACACTGTTGTCTCACACACATATTCATGTGCACACAGCAACTCCCTACATACACTTAGGTCCCTCAGCCTGCACTGGGTGCAGTACACACACACACGCACACGCACACACACACGCACACACACGCGTACACACGCGCGCGCGCGCGCGCACACACACACACACACACACCTCCCCTGCAACTTAATACGCTTAGTTCGGGTTTGATCTATTTCTTCCTCTACATAGCTCCACGTGCCCTTCACTCCTAGTGTACAGCTCACGGCATCTCTCCTACCACCCTGGGAAAAGTCACATTCGAGGCTGGATCCTACTGAAGTCAAGGCTTGTTCGTTTAACAGCTGGAGACACACCTAGGGTTGAGCCACCCTCCTCGTGACATTTCATCTTGATGTCAAGATTTTTGAGAACATCTGCACTTTCTTATACATATATATATAAATATAAATATATGATATTAAAAAATAAAAAAGCAACTGGGTATATATCACTAACAGCTTTGTAGGAAGCACTTTTAATGTTTTCTCTCTCACACACAAAGATTCAAAGGAAATGTGCATATATTTATTCTGTAATTTCAGTGATTATAAATTGTAAAGGTAATGTTTAATCATTGTATAGTGATTATGCGTCTGGTATAGCTTTCCTAATAAAAAGTTTTTGAAAAACATAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000048304:ENSMUST00000192477:1
Average complexity
IR
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:
PF138551=LRR_8=WD(100=5.8),PF138551=LRR_8=WD(100=6.1),PF0146213=LRRNT=WD(100=2.8),PF138551=LRR_8=WD(100=6.2)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
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