MmuINT0040068 @ mm10
Intron Retention
Gene
ENSMUSG00000067158 | Col4a4
Description
collagen, type IV, alpha 4 [Source:MGI Symbol;Acc:MGI:104687]
Coordinates
chr1:82480482-82484465:-
Coord C1 exon
chr1:82484391-82484465
Coord A exon
chr1:82480590-82484390
Coord C2 exon
chr1:82480482-82480589
Length
3801 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
TTTGGCCCTTCCTTCTTTAGGAC
3' ss Score
13.34
Exon sequences
Seq C1 exon
GATACAAAGGTGACCCTGCCAGTCAGTGTGGTCCACCTGGTCCAAAGGGTGAGCCAGGTAGTCCTGGATACCAAG
Seq A exon
GTATAGCTCCTGATTTTTCTTATTTTAAGAAAGAAAACCTAATTTGAAACACAAAGTAATTACTTATACACCTATCACTGGGAATGGTTCTATCAACATTTTCTTTACCATTTGCCCATTCAGGTGTGTACCAAAATGATTTTGGGTGGCATTGTTATAGCATCCTTCACCCAGAACGATACCTGGACCAGGCACTGGGGACTTTCAATGTATCTCTGCTCAATGTATCTCTATAATGGCCCCTGTGACCAATGGCATTGACACAGCAATATACACTCTTGTGCTTGTATAATGACAAAGTGAATATTCAAGCAATTAAAATTCAGATTATCTTGCCATCTCTGTCATTTTAGATGGCCACGAGTTATTGAGGAACACCTCTTTCACCCATGGATAGCAAACAGCATACTAGCAGACATGGAGAGTTCAAATTTGCACTTTTGCTTTGAACCCTGAAGAAGTATGCATCAATATTTAAAATATGCTTGCTTTTTTTTTTAATGAAGGGATTCTTCTGCTAGGAACACATCTGAGATTAATAACCAGGGAAGTATAAACAGGTGCACACACAGGCTATACACTGCATGGACAGCGCAGACATCTATCTACAGAGACTTGATTATGTCTACCTATGCCCAAGTGCAGTAAGTCAGTAGGGGTAAGACTTGAACCGAGACTTGGATTGACATAGCTCTCTGATAAATTGAGATTTTGTATTCAGAATGCTATTGTCATACTTTGCTTTCTATTACTGTGACAAACACCATGACCAAAAGCAACTTGCGGAGGAAAGGGTTTATTTCATCTTCTAGTTTATAGTCCATCATGAAAGGCTGTCAGGGCAGGAGCTCAGGCAGTCACCTGGAGGCAGGAACCGAAGCAAGGGCCATGGAGGGGTGCTGCGTACTGGCTTGCTTCCCATGGTTTGCTCAGCCTGCCTGCTTTCTTGTACAATCATAGACCATCTGCCCAGGGGTGACACCATGTACAGTGGTCTGGGTTCTCCCACAGCAACCATTAATCAAGAAAATGCCTCCGGCCAGGAGTGGTGGTGCACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGACGGATCTCTGAGTTCGAGGCCAGCCTGGTCTATAAAGTGAGTTCCAGGACAGCGAGGGCTACACAGAGAAACCCTGTCTCAAAAAAACCAAAAAAAAAAAAAAAAAAAAAAAAGAAAAAGAAAAAAAAAAAGAAAGAATAAAATGTCTTCATAGTCATGCCCTCAGGCCAGTCTGAAATTCCCTCTTCCCACACTACAAAAATATGAACAACGACATCCATGCATCACCCTGAAATTCCATTTGGCAGGAACCATGTTTTGTTTCCCCAAATAGAATGTCTAATTAGAACACCAAATGAATGTCACTGTAAACTGAAAACTCCATACACAGCGTCACAGATGACCTCAGCATTGTGACGTCAGTAACAAATGTGCTCCTGCTTGTGGGTCTTTTTGTTATAAACCCCAATGATATAAACATTTCCATGCTCAAAGTAGCACAAACTGTGGGCATTTTACATTACCTAGTATTTAAAGTTGGAAATCATAAGTCTGAGGCTGCTTTGTGCTGAGTCAAGCTTTTCCAGATATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGCCTTACCCTGTTTGATCCAGTGTCCCGTGGCCATCAGTGTTTAAACTGTTCTGGCTTCTTATTTGCCATGGCTTAAGCTTAGAGTTTCAAGAGCTGTTCTGTTACTCCTCGGCACAGAGTTTAGATGCTCTGTTTGCCTTGGCTAGGAATCCGTGCTCTGCACTTGCATGAACTCAGTGAGGATGTATAGAGAGAGCATAGCGTGTTGCCTTCCAGGATTATGTAAGCTTGAACCAGGTCAGTCTAGTTCCACCCGTCCACACCTCCTCCAAGGGGAATGGGGTGAAGATCACTCCCGAAAAGGCACAACCCTAACTTTGAGGTATCGTTCTGAACCCCTGCTCTGGCATCTGGAGCTGCAGTGAGGTGCCATGTGTCCCTTGCAGGAAACTGTTTGGGAGCAATTGGATAATACAGGTTGAGAAGCCAGTACATTTGATTAGTTAATAGGCATGGGCATTGGTTACTTTAGTGTTGTAATGAATGCTACTTCTCTATGGATTTGGAAATACAAAGCTCTGATTTTGTTTAAAGATTCAGCCATTGATTTCTCAGTGTAGACTATTGGTTCACTATAACTTTGAATTAAAGCCACACATGTAAGGTCATATTTCTAGTAATAAAATAAATATAATTCAAAGTGTATCAGGGTTCTCTAGGGGAATAGAGTCAATAGGTTATATGTAATATAATATAATATAATATAATATATATAATATAGTAAATATAATATAAAATGATAATATATATTGCAAAAAATGATTTAATTGATTGGCTTACACTGGAGAGGCTGGGTAGACTAACAATACCTGTCTGATCTTTGAAGAGTCTGAGAACACCTTAGCTGCTCAGTTCATGAAGGCACCGAAGGCCTGCAGGATACTTGGAGAACCCTCATGATTTCCTCCTGTGCACTCAGTTGAAGAACCAGACCTTCCCTGAGACGGAGGACTGCTTTTTAATCAAGACTCTATGAGTAGCTGTGTTCCCTGCTCAAACCTCCAGACTAGTGGCAAATTATCAAAAAACAAAAAACAAAAAACAAAAACAAAAAACAAAAAACAAACAAACTAAAAAAACCACAAGACTACAAACCCAAAGTCTTTAGTAAGAACATGGCTTGATCTCAGGCTGCTGGCTGCAGTGTTGTTGGTGGGAGATGGGGGGCGCTGTTTGCAGGTGTAGTACTTCCTCCCAAACACAGGTGACCCATGTCAAGAACCCAGTGCTGAATGGCTTATTCTAGAAGACCTAGAGAGCAGCCAACAATTCCTTAGGAAGTCTCACTCATGAGAAATGACTGTTCGAGACCTTAATTTTTTGAAATGTTTCATTATTTTAAGAGGTACACACACCCATTAGGTACAATGTGCAGCTCTTGTGTAGAATTTAGTGAGGGACAACAGGGCAGGGGTGGGCCTGGAGTCAGGAGAGAGCAGATGGCTTTATGGATTGTTATTAATTTTCTTGGCTACCACGGTATATTTTTGGCCGCATGAGAAGGGTTAGTTTTCAGGCAGATGTCTTGAAGCCTTTTGAGATGGCATCCCACAATGGTTATGTTTTACTTTACAATCTTCTGGCATTAAAAAATTAAACATATTTTAAGATAAACCCAAACATCACACTATTTATCAAGAAATTCTGCTCCTGTGAAATTTTTCCTAAGGAAATAGTTCAAAAGGAGAGAGTGTGGTTAACAATCTACAAAGGGGGGAGGGGGAGTGGACATGATCAATACATACATGTATGACATTATCAAAGAATAAGTAAAAGATTTGCATAGATATCATTATGCATAACAACAAAAAGAATTACAAGCACTTTATGGATTCCCCCTACTGCTGAGTACGGGGAAATTAGATTGACTAGTTAAAGTAAGCTTGATTTAAAAGCTACAATCTAAAAAAGATAAACCACTGCAAACTTGAAAACTGTTTGTGATACAATAACAGTTTTAAAAACAGATAATTTGGTCATCAAAATTTTCTCAATGGTGTCTTCCTTACCGATCTAACACAGTGTAAATATGAAACCAATAAAAACACCCCCACATGACAGATAATGAGGCTGAGGTTGGCTTTTTGAGAGTCACTGTTTCAAAGAGCAATGTACAATGAATTGAATTTTGGCCCTTCCTTCTTTAG
Seq C2 exon
GACGTACTGGAGTCCCCGGAGAGAAAGGCTTTCCTGGAGATGAAGGACCCCGAGGACCACCAGGCAGACCTGGACAGCCTGGATCTTTTGGACCACCAGGGTGTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000067158:ENSMUST00000087050:35
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(12.1=30.8),PF0139113=Collagen=PU(25.0=57.7)
A:
NA
C2:
PF0139113=Collagen=FE(60.0=100),PF0139113=Collagen=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
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