MmuINT1022606 @ mm10
Intron Retention
Gene
ENSMUSG00000028649 | Macf1
Description
microtubule-actin crosslinking factor 1 [Source:MGI Symbol;Acc:MGI:108559]
Coordinates
chr4:123360910-123364074:-
Coord C1 exon
chr4:123364057-123364074
Coord A exon
chr4:123361028-123364056
Coord C2 exon
chr4:123360910-123361027
Length
3029 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAG
5' ss Score
8.68
3' ss Seq
GGGTTTCCCCTTGATTCCAGTTT
3' ss Score
5.3
Exon sequences
Seq C1 exon
TTCTTCCTCGGCAATCAG
Seq A exon
GTACAGTGTGCCTTGCAATGTCCTTCTTGGTGGATGTGGTCTTTATAGCTGGTGTTGCCTGATCTTTGCTTTGGGGAAAGGACACAACTGGAAGCATGCCTGGGTCACATTGGGTTGTCTTGCCAAGTGGAGAAACTACTAGCAGACTTTTATTACAAAGCTATCTTAACAGCAAAAAGATACAGCTTTGTAATTTTAAAACGCCAACAATGAAATTTTCCATTCCAAATTGGGCTAGCTAAAGGCAATGAGCTATAACTGTACTGAGTTATAACTGTTATGACTCAGGGAAAATTGAGGCTCTGACATCAGCCCATTTCACCTGTGAAGACACAGTCTTACACTTCCGTATTCGGGGTCAAAAATACCATTGGCACGGTTCTGTTTCATTACCAGTCTTTTAATAGTTAATAGAAATGTTGTAATATATACTTGAGTCAGAATCCCTAAATAACCTTAATATTATCTAAGAACTAACTTAATAGATACAGGTATTTATAAAGAGGTCTGAGATGTACAGAAAACATAATTGACTTCTGCCTAACATTTTAAGATTATAGTCAACCGGTCAAAATGAGATGCGCTTCAATTAGAGGGAAGTCTAGACTCCACTTGGCAACTCTAACCTTGGAGATCTCTTGAGGGTTCTTGGGTGCTGTCTCTCAGATGTGAAAGGAAGTTGCATGAGTAAAATCAATCTGTCTATCAGGAAGTTAGAAACACGAAGAGTTAATCTGAAATCCTCAATCAATGTTAAATTTTAGCTACTCCAATAATTACTAACTACAGTAATATTCTGGGCCAGTGGGAAGAACAAAGGCTAGAAAAATGTAAAGCTGAGAACAGTCAAGTTGGCTTTAAGTAAACCATCACAAGCTATACATGATACCTCCCTCAGACCTATGCTCCTAGCTACTCGGGAGGCAAGTTTGAAACCACCTCTGGAAACTTAACAAGTCCCTGTTTGAATCTTTGAAAATAAAAGGGTTAATAGTGTATCTTAGTGATCGAGCACTTGCACTGCGCATCCATAGAGTCTGCTCTCAATACTACGAGACTAGTCAGTGGTGATTGTAGTCAAGTGCCCAGCATGCCTCCTCCCTTCGATGACTGTACCTACTGGGGTCCCTTTAATGGGGCACTAACACCCTCCTCCACTGCTCCATTGACCCGGGGAGGATTTGATGAATCATTCTAATACTGTGAGTAGAATTATGAAGTCCATTTTGTATATGTAGTATTGGAGGCCTGGGGGGCGGATCACAGGTCACACTCATACAGCTAATGTCCTTAGACCCTCAGTTCCTGTGAGAGAAAGAAACGGTGGCATGAAAACTCTGCCTCTGAGTTCTCTGGCTCTCCCACAGCCTCTAAGCTAAGTCTCACTACCTGAAGTGCCACCTTGGATTTCTGCAGCTCAACACAAACAATTTAGAATCCTTCAGACAGCTGTGGGGTGATATTAAGGAAAACAACCATGAGATCAGTGGATAGCAAGCTGTAGGGTGTAGTATTCTAAGAAAAAAGTAACCTTCCCTTCTTGACCCTGGGAAGCATGCCGGTGCATAGCTTTCTGTTCCTTAGCTATCCAGAGAAGACCCAGACTCGTGCCTGAGGTCACCTGTGGTCACCTGAGGTCACCTGAGGCCCATCAGTCATCCCCAGAACCTGTTTTCTCCCCCCAAGGCAGGGACGAGCTTCCTTCTCAGAAAGTCTCTTTCCATGCAGCTGGAGAAGGGTTGACACTGCTCCACTGGTGTCAGTCTGGCCACTCTGTGTGCACATTTAAGTGCTGTATGAGACAATGGTGTGAGACTATTTAACTTTTGAAGTAATTGGGAAGGGAAGAGAAAGCACCTTCCAGACTTCTTCCAGTGCACACAGTGCCTACGGAGAAGGACAGCTGTATGTCCTCCTCAAACATCCTTTCTTGCAATTTCAGGTTTTTTCCCTGTTTCAAAGTTATGACTCTCCTATAACTTTGAAAATCCTAATTAAGAGGTTAAGTCCTTCTCTTTACCTCCCCACCCCCAACATTCTCCTTAAATAACCTTAGGAATCCATTTCTTTAATGCTTGGGTTGGTGTTTGTTTTGGAATCTTGGTTTGCTTCTCTTTTGTTGCCTCTTCATTTTGGGGAAAGGACAATTTATACAAAGGGAAGCTCCAACTGTTAAGGTTAACTGGGAATAGGCAGTAGGAACAGAGACAATAAAAGCTCATCATATTTGTTCTAAGGTCCAGAATAATTATTGAACCGTTTCTAATCATGATAAGAGATTAAATTTCTGTTTCTTCAACTAAACTTTTAATTCTATCTAATCGTGTGTTCAGCTTGACTTTTTCCCTTGGTGACATCACAGTCAGAACATTTAGGGTGTGCTTGTAAGGACCGGACGGACGAAGAGACTCCATTCTTCCTAAGCTTGTGAAGCTCGGAATGAGGACGCTTCGCACGAGTTTCTCTAACGCTTGACTTAGTCTTCACTGGGGTCCTCTTAACTCTCCAGCACACTGTATTCAGAAGGTGACCCCTTCTTTAAGGAGATAAACATAGCCGGGCAGAGGTGCCGCACGCCCTTAATCCCAGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGAGCCCGAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAAACAAAAACAAAAAGGAGATAAACATCATAAGACTGCAGTGCTCACTTGGGCAGGGTCTTCAGAAGACTCCAAGTGAACAAATCAAACCCATCTTTCCTCCTTTACCCTTGGGACAGGAGTCAGAGTGTGGCCGTTGGGAGCTAACTTTACCCCAGCAGAAAGATTTTACAACATTGCTTCTTAGCTTAATCTTTCTGCTTTTCTACTTGCTAACCTTTTTATGACAATGTAAAAATATAAAATCAAGTTCAGAATTCTTCCCACTATCACGTCATTCCTGAATACAGTCTGCTTTCTAGGGGACTGGGGTTGTAAGTGTACATTAAGGTGTTCTCGCTAACTGGGTTTCCCCTTGATTCCAG
Seq C2 exon
TTTGGAGATTCTCAGCAGTTGCGGCTGGTCCGTATTCTGCGCAGCACTGTGATGGTCCGAGTTGGTGGAGGATGGATGGCCCTGGACGAGTTTCTAGTGAAAAATGACCCCTGCCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028649:ENSMUST00000082108:89
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=0.002
Domain overlap (PFAM):
C1:
PF0218712=GAS2=FE(6.3=100)
A:
NA
C2:
PF0218712=GAS2=FE(49.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
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
- 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