MmuINT0141285 @ mm10
Intron Retention
Gene
ENSMUSG00000027200 | Sema6d
Description
sema domain, transmembrane domain (TM), and cytoplasmic domain, (semaphorin) 6D [Source:MGI Symbol;Acc:MGI:2387661]
Coordinates
chr2:124660283-124667769:+
Coord C1 exon
chr2:124660283-124660344
Coord A exon
chr2:124660345-124664020
Coord C2 exon
chr2:124664021-124667769
Length
3676 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGA
5' ss Score
10.65
3' ss Seq
CCTTCCCGTGTCTGTTGCAGGTG
3' ss Score
13.06
Exon sequences
Seq C1 exon
CCCTGGAGGATATGAGCAGGACACGGAGTACGGCAACACAGCCCACCTAGGGGACTGCCACG
Seq A exon
GTAAGACAGACGCCTCCCTGGCCTCTGCTACTCCTTTGGACCGCATTTGCACGCAAACATTATTTTACAAGCAGCCTTGATAATGACTCGGGACACATAGCACCTAGCATTTAACGTAAACTTGGAAAAAGCTGAGCTCTTTGGTCATGGGGTCCATTAGAAGAGATTCTGACTTTTTTCTTTTCCTTCGCCATTTGCACTTTTGTAAATAAACAACAGTCTAGAGAAAGGTAGTGTAACCAGTAAACTTCTAGTTTGTAGTCTTTTCTTTGGACTTTTCTCTGTTACTTGGAGTTCGTGAACTTTTTTGCTTTCTTTCCGTTACTCTTCACTGATGACGTGTTCCTTTAATCCCTTTAGAAAGTTTGCCTCCTTCAACTACACCAGATTACAAAATATTTGGCGGTCCAACATCTGGTTAGTTTTTTTTAATTTTTTTGAATTAACAGTCTTTTCTTTCCTTCAGTTTAGCATTTTCTGCCCTCTTCCCCACCCCCCTCCTTTTGCGCAGTTTGGCAGCCCTCCATTTTTCTGCTTTGACTCATAACCCTCTGAAGGTCCTGAGAGATGTTTTCTTACTCAGCCCTCCACCCGTGTGTAGCATGGAATGGTTCATCATTGACCAAGGCACATCCTTAAGGAAAGTCCAATGGGGTGACATATTCTGCATTTCAATTGCACGCCAGCCACCCAGCTCCCTTCTCTCGACCCTTTGCATTGTGAATGCTCCCTCTGGCCATCTCTATCCCATGGATGACAGAATTGCATAATTTTCCCCTTCTCTCCCCACCTTTCATACAAACAAGGAATGAACAATACACATTTTTCAAAAATGTGTATTTTTAAGTTCTAAAGATCTTTTTTTGAATGTTTTTGTGGCAATCCCAGGAATCTCTGAATGTTGTGTTCTCAGTGGTGTGAAAGAAGCTAGCTTCAGTTGAATGAAGCTGGATTTTGATTTTCTAAGATGTACCGTGCACATCTATCTGTGTTTGTTTCGAGGTCTCTTCCTGTAACTATTAGGTCAGTCCGTACCATGTCTAAAAGCGTATGCTTATATATTCATGGACATCTACTAGGCTAAAGCTCGCAATAGACACGGAAAGGTTCAGTTGCTCCTCAGACTATGCTGCATTAGGGGTCACATCAGTTCCATCTCTCAGGGGGGAGAAAAGGATGGCCTGTCTCATGTATCCCAACATCCTTATTCAGTGTATACATACCATTGCTTGTGCATGGGTTACTGCTAACTCTTTGGAAGAAACTCCCCAAGTATTTCGGAGAACACAGCAAGGTTTGTGGATGGAGTCTCACGGTGCATTGAGAAACCTACAGATGGACAGAGAGGCCTTGGGGAAGCAGAATGGCGGCCTCTTAGGCAGAACAGGTTTATCAGGTCCAAGACCAACTGTTTACTTGGACCTGACCAGATATTTTCTAAATGTAATTCCATTATAGCTTCTCCGGGGAAGGAAAGCGTATAGAGACCCCAGCCGTTCACAAAGGTCCTCTGTACATTACACATCACAAATAAATGATCCCGAGAGCTAGCTGGAGAGAGCCAGAGTCTGCCCAAGTTGGGGCTTAGGATACTTTTCCACGAGGAGGCTTCATTAGGAATGTTCACCTGTCTTTTACTTTGGAAATCTGCATAATGTGTCTTCATTGTCAGCTTTTAGATTTTACACCTCTCTTGCAAGAAGAAAAAAAAAATCTGGTTTCGTTCCCCTGAGGGGGCTTTTACCAAATTCTAGGACAGGATTTCTGAGAATACGTACTTGACTTTCAAATGCAAGGATGCAATCAGAAAAGTCTTCTTGACGCTAGCCATGTTAATGGTCATCTGTTTGCCACCACAGACATGGAGGTATCCTCATCTTCTGTTACCACTGTGGCAAGTAGCCCAGAAATTACATCTAAAGTGATTGATACCTGGAGACCTAAACTGACGAGCTCCCGGAAATTTGTAGTTCAAGATGACCCAAATACTTCTGATTTTACTGATACTATATCAGGTATCCCAAAGGGTAAGGCCTGGCCAGGCACTTCATCTCTGACTGCATGGAAACCTGATCCCTAGCCTGGCTCTCAGAGGTGAAACTAAAGTCGAGCAGCAGTCCCTCTGGCCACAGTGACTTTGCTCTCCTGTGGTTTTTAAGTCTGAGTACATTCCTGCCCACGACATGGCTCCTGAGACAGCCACTCAGACAATCTAATCTGTATTGGGTTCTGCTGGCAGATGCTGAGAGCCTGCTGAATATCAGAGGATTCTGAGGGTCACCCTCTCAATATCAAAGGACAAAAGCTCGCAGATGACAAATACCTGTTACCAAATATTTTTATCTGGGAGGCTATCTCAGCCCCTTCTTAGCTTCATCTGCAGATGTAATGTGGAAAGGATATGCAGGGTGACAAGTTGTCCAAATGCCACAAGTGGCAAAGGGTGGCATAGTACTTGTCTGTAATTACTACGTTCAGCCCATAATAGGTGAAGTTTAAAAGCTGTATGATCAATTTGCTTGTAAGATTTAATACTCTAGGAAAAAAAAAGTGTCTGTCCCCTCATGTGTAAGCTATGGTATCAGGTTTCCAGCCAGTTCTATGGCACTGCCTTGTCATTTATGATTTACTTCTGTTGATTTTGTTTTGTTTTGTTTGTTTTATTTATATTTTCATTGCAAACAATTTTATAATCATTATTTCTGTTTTGATTTCTTTCAGTAATACCATTTCTTTGTTCTTTTCTCTCCTGGTCTTTCACAACACCATTAAATTCCACAGCTTTGGCAACTGATTGAAAGCAACTAATATTCAAGGGCCTTATTACTCACTTAATGCCAGAGAACCTTCCCAGTCCCTCTGACTCAGTTGGCTGCATGTAGAACATGTAACAGACTTGAAGACCTCTTCGCCTAACTTTCGCTAACCAATTGTTAGATGTCTGTGGTTGCATTAAAATTTCCAATAATTACAAACTAACTCACTCTTCCCTTTCTAGGTCTAATTTAAGTATTTCTCAAATGCCTCCAGATAATTTAAGGATATTTTTAAACTAATACATAGAGAATTATTTTCTTACCCTGTCCAGTGTCCTTACATAGTAGATACTTTATGAATATTTCATCCCAAGATGAAATTTCAAAACAGAACGTGAAGACAAATGCACGAGTATACATTTGTACTTAACACTGACCAAGTTCTTGCCTTGTGCTTGTGACCAGTTATGTTTCTGTCCCAGTTAACCCAACTGTCTTAGCATAGCTATTGGAGCGTGATGTGTGTGTTTGTTAATTTGGACCTCTGCTTAACCCCAGCAGCAACTCTTTAATCCTGGTTTAAGAATTAGGTGAGCATCGTAAGGTACATGTTTCCTGAACTGTTCTAACTCGCTCTCTAGATAGAAACTTAAAATTCCTAACAACTGCGTAAGAGATGGGGTGAAAGGAGAGAGAAGTCTACACCAAGGACTTGAACAGCAAGCATACGTGTTTCTGGAAATTTAATTGTGACTTCAGGGGGCGGGGGGGTGGAATACTGTGAAAGTTTGATGTCTTCTTGCTCTCGTAAGCTAGGCATATGGAGTTTGAAGGTAGTATTGATTCAATATAAGCTATTTTATATTTAATATATTTTTTAAAAAAGCATTTTGTTCAAAGCCTTCCCGTGTCTGTTGCAG
Seq C2 exon
GTGTACGGTGGGAAGTCCAGTCTGGAGAATCCAATCAGATGGTCCACATGAATGTCCTCATCACCTGCGTGTTTGCCGCTTTTGTCTTGGGCGCGTTCATCGCAGGAGTGGCCGTGTACTGCTACCGTGACATGTTCGTTCGGAAGAACAGAAAGATCCATAAAGACGCAGAATCCGCCCAGTCGTGCACAGACTCCAGCGGAAGCTTCGCCAAGCTGAACGGCCTCTTTGACAGCCCCGTCAAGGAATACCAGCAGAACATTGATTCTCCCAAACTCTACAGCAACCTGCTGACCAGTCGGAAGGAACTGCCACCAAACACGGATACAAAGTCCATGGCCGTGGACCACAGAGGCCAGCCTCCCGAGCTGGCTGCTCTCCCCACGCCGGAATCCACACCTGTCCTCCACCAGAAGACCCTGCAGGCCATGAAGAGCCACTCTGAGAAGGCCCACAGCCACGGTGCTTCAAGGAAAGAACACCCCCAGTTTTTTCCTTCTAGTCCTCCACCCCATTCCCCATTGAGTCACGGGCATATCCCCAGTGCCATCGTTCTTCCAAACGCCACTCACGACTACAATACATCCTTCTCCAACTCGAATGCCCACAAAGCCGAAAAGAAGCTTCAGAGCATGGATCACCCTCTTACGAAGTCATCCAGTAAGCGGGAGCACCGGCGGTCTGTGGATTCCAGGAATACTCTCAATGATCTCCTGAAGCATCTAAATGACCCAAACAGTAACCCCAAAGCCATCCTGGGAGAGATCCATATGGCTCATCAAACCCTCATGCTGGACCCGGTGGGACCAATGGCTGAGGTCCCACCCAAGGTCCCTAACCGGGAGGCATCTCTATACTCCCCTCCCTCCACACTCCCCAGAAATAGTCCAACCAAGAGAGTAGATGTCCCCACCACTCCTGGGGTGCCAATGACTTCTCTGGAAAGACAAAGGGGTTATCACAAAAATTCCTCCCAGAGGCACTCTATATCTGCCGTGCCTAAAAACTTAAACTCACCAAATGGTGTTTTGTTATCTAGACAGCCGAGTATGAACCGTGGAGGCTATATGCCCACCCCAACAGGGGCGAAGGTGGACTATATTCAGGGGACACCGGTGAGTGTTCATCTGCAGCCCTCCCTCTCCAGACAGAGCAGCTATACCAGTAATGGCACCCTCCCCAGGACGGGACTAAAGAGGACACCATCCTTAAAACCTGATGTGCCACCAAAGCCTTCCTTTGTTCCGCAAACCACATCTGTCAGACCACTGAACAAGTACACGTACTAGGCCTCAAGTATGCTATTCCCGTGTGGCTTTATCCTGTCCCTGCTGTTGCGAGGAAGCTGTGAGGGTACCTTCAGATGAGATACCTGCTTGTATTTTAAGAGAAACAAGTAGCCAAAGAAACTCTGTCACTTTGGTAACACCAGAACTTGCCACATGTAGCTACTACAGCAAGGCTTCTGTGTACTTGCCGGAAACGAAGGGAGGTCCTGCTCACTCCATTTCTTTCGTTTGAAGCAGAAGGGATGTGTAGCCAGGGAAGGCTCCCTTCACCAGTGTAAAGAGCTGATACAGTACTCAGAAGACTGAACAAATACTTGAAAATGGGTTCAATGTAGACTGCCATTCTGTGTGGTCTTCCCATTAAATGTGAACATTTTAATATGTATGCATTCACCTTGCCTCTTGCACAAATGTCAAAATGGAAAGATGGGAATGTCTCAAAACAAAATGAGCTTGGAGATTACCAAGCAGTTTGCTGAAAATTCAATCTTTGACCCAAACTGTAGCAATTTTTATTTTCTGAGTGTGGCACTGTTTTGTTTTATTTTTTTGTTTTGTTTTGTTTTTCAATGCCACCAACAAACTATGTTAAGAGAGGGGCGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATCTACCCATTAGAATTGATTTAGGTGCCCATTGCATCTTTTGTACTATGGAGTTGTTTACAGTAAGCATGACTGAACAAGCACTAACATCCTCCTACACCGGTCCATCGTGTTCGGCTCTGATCAGGAATAGACAAGGCTTCTTTGACTGTCAAGTGATTAACATATGGTACCCGGTGTCAGAACATTTAAGCGTTCTAAATAATTTTGTGCTGCTATCCATCAGAACGTCTATTCCAGCCTTGCCAGCTTAAGAACTTAGAGAAATTAAGAGGTATCTTTGATGTATCTACCAGTATTCAATAGTAACATTTACCTGTCCACTGTGAATCAAAGCCTGGGGCACGCTACTCAACCTTAGACACACTTACAGGCTTTTATTTTGATTGTGTTATTTTATTTTCCATACAGTAAAAAATGTCCTCTCTTAACTCCTCTCACCCCCAACTCCCAAGGCAAAAGAGAAACCAAAAGTAGGACAAAAGAAAGAGACAGACAGACAGACAGACAGAACAGGAATTACAGTTGGCTTAGCAGGGAGGATCTGTAGAGCTCTCGATGATCCTTCCTCCATGTGTGTCCTGTGAGGATTTTGCTCATGAGTCATGCAGGCAGTGACAGTGAACTGTAAATACCACATGTGAGTTTACCTGGATCTGTGCATTTTGTGCCTTATTCACTCGAGTGGTAGAAGTTCCGCGGTATGTTGAGTGTTTCCACTACAGAGCATCATTTCCCATGTGCCACTTGTAAATGTTTTGCAGCCAGCACCTGAGGACTTCTTATACAGTCATAAAGCCACCTAGAGCGATTTGTTGTTGAGCAACGCCGCCCCTTCCCTCCAGGATCAGAAGCAGCACCCACCCTTGCCATGATAAACATTCCATCCCCTGCTGTTCTGATAATGTGAAGTCAGATGAGGGTTCCCAGGTTATGTGGCACCTGCGGAAACCATGTCTAGAGTCGTTTCTATGTAGCTTGGCAGAGCCCACTGATGGCTGCAGGTGTGTAGCCTACTGACAGCTTTGGTTAACCCACTGCACATCACCCAGTCATTTACCCAACTTACTCTAGAAATGTCCACAGCTAAGGAAGGCTCCTGAGCCAGTCAGGCGGAGTTCAAGTGATATCTTGGGACAGTGACCATGGTCTGCATTACTTGGGGGAGGATGGGGTACAAGACACCAGATCATTTTTATACAGGATGTAGAGTACTGATGCGGTTGATCTTTTCCTTCAAGAACATTCTTTTCTATAGAAAAATGATTCCCTGTGATCTTCTGGAAGCTCCAAAGCTGAAACCCTTCAGCTTTGCAACTAAAAATATTACAGTTTAATAATCAATTAAACCAACCAACAATAAGCACTACACATCTGCCACCAACAATGTTGTTTGCATTTACCTTACCAATATTAATCCCAGCGTGGTAACTCTGTGTGACCCCGATAACATTTTGTAACATTGTGCTGCCTTAGAGTTTGTACTGTGAGTTCTATCAGTATTTATGTTGAAATTTCTAACATGGATTCTAGTCTCTATTCTGTTAATTTAATTTTAAATGCTTTATCCATTTGTGCAAAGGTAAACACAGATTGTATCTTTTTTAATGGTACGGCATAAAAAAATAACCCTAAAGTGAAGTGGCTCTATACTGTTTTATAGAGTACTTTAACGTGTATAGATATCTTGTAAACTTGTATTGTGGATGTGTAAATAATATGTACTTTGGGTTTTTAACACCGCATGTAAAGTCAAAATAAAATATCCAAGTCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027200:ENSMUST00000103241:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.782
Domain overlap (PFAM):
C1:
PF0143720=PSI=FE(31.3=100)
A:
NA
C2:
PF0143720=PSI=PD(14.9=2.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
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