MmuINT0007875 @ mm10
Intron Retention
Gene
ENSMUSG00000028125 | Abca4
Description
ATP-binding cassette, sub-family A (ABC1), member 4 [Source:MGI Symbol;Acc:MGI:109424]
Coordinates
chr3:122116655-122120119:+
Coord C1 exon
chr3:122116655-122116720
Coord A exon
chr3:122116721-122120029
Coord C2 exon
chr3:122120030-122120119
Length
3309 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TTGGCGTCTGGTTGGTTCAGGTT
3' ss Score
5.99
Exon sequences
Seq C1 exon
GAGACTATGGGACCCCACTTCCCTGGTACTTCCTTCTGCAGGAGTCCTACTGGCTTGGTGGTGAAG
Seq A exon
GTAAGTTTGTTTTGTTTTAATTAAAACAGTCAGGCAGTGGAGATGCACACCTTAATACTAGCACCTGAGACGCAGAGACAAGAGAGTCTCTGTGAGTTCAGGACCAGTCTGGTCTATAGAGCGAGTTCCAGGACAGCCAGAGCTACACAGAGAAACCCTGAGCTGGAGAGATGGCTCAGTGGTTAAGAACACTAACCGCTCTTTCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTAGCTCACAACCGTCTGTAATAGGATCTGATGCTCTCTTCTGGTGTGTCTGAAGACAGCAACAGTGTACTTATATAAAAACAAACAAAAACAACAACAAATCAAGCAAAACAAAAATGAGAACAACAGAAACCCTTCAGGACTGAAACTACTTCCTTTCCTTGGGGTACATGTAAGATGTGTGGACCTTTGTCAAGGTGTCAAGGTGGCCCTTTGTCAAGTGCATGATCCCTGCTAGTCAGCTGCCTGCCGTGGGTACAGGGTGTCACAGTGTCACAGCCTCCACAAGTGTCCCTTTGATGAATCCCAGAGCCAGAGTAAATGGCAGAAACTTGACAGTTGGTCCTGGGAGATTGGATACTTGTTGAAAAGGGTGCACCATTTATTTCATAAGCCCAATACTCTTCCAACTTTCAAAGCAGAGATCTAGGAGGCACAAAGGGAGCTTTGCCTTCAGCTTTTGCTGCCTCCTTCTTCTCCGCCATGATGCCCCACATTCTCCAAACACACAGTAATTCACTCTTTGAAGCCAAGACGGAGGCTGCACGGTTGATCTCCAAGGCTTTCTTATGGTGGAAGAAGGCAAAAGGGACATTGGCTGACAATGCCTCCTAAGTACAATTTATCCTCCTTCCAAAAACAAAAACAAAACAAAACAAAACAAAAACCCAAAAAACAAACAAACAAACAAACAAACAAAAAAAAACAGGAGGCCTAGAATTTTCTAGAAGTCAGAAGGAAAACCTCATATCATAGTCTTGGAATTCTGAGAAGGCAGAGAAACTCCAGATCAGTGGCTGCCAACCTTTCCAAAGCTGCATCCCTTTATGCTGTGGTGACCCTCCCCAGCCATAAAATGATTTCTGATGCAACTTCACAACTGTAATGTTGTCACTGTTATGAGTTGTAATGTAAATATTTCTGGAGACAGAGAATTGCCAAGGGGCCTGGACCCACAGGTTAAGAACAATTTCTCTAGAGCTGTAAGCTACAGTCTCTCCCAGAACTGGGAGGCTCTGAAAGAAAACCCCCTGCTTTCCAGGGTTAGAGCTCACCCTTCCCCGTCCACACTTCACTTTGAATTACTGGGCCTGGGGCACGATTTAGCCTTTAAGCACTAACAAAGGGATTTAGTTTTCCTTTAACTTTAAATACCAGGTTAAGGCATTTAACCTGGAGCCTTTTAAAAGCTTGTATAAATTTTTGTTTGGCTGGTATTTTGAGGGTCTCCCCCACCCCCGAGGGGATATATATATATACATATATATATATTAATAGTTCACACAAACATTACTTTGACAGGCCAGTATTTTCCCATTATATTGTTTTGTGCATTGTGTTTATCTACAAACTTTTAAATGTCCACTATAACAAAGTTATCAACCTCTCTTAAATAAGCATATTTAACATCCCTGGAATGTTACTAATGTCAGTGAACCTAGGGGCTCATGTGCTCCCCAACCCCCACCCCACTATCCCAAGAGATACTCTGCTATTCAAGAAAAAAAAAAATCTTGAGAAACGTGTTCCTTGAAAACGAGACACATACACTTTCCTGACAGACGTAAAATACTTCTCACCTGTTTCATAGGCAAGAATAAATACAATCCCTCACACTATCTAAGATCAGAGAGCAGCTGAGTCACCCCCCTAACTCCCCTCTTCATAGTTGAAGAAATGGAGAGCCAGAAACATCAATTTCCTGTTGAAATCCCACTGGACACTGGGGCAAAATCTAGAATAGCCGAGGACGGTTCACGAGGAGAGTGTCACTCCAGTGGTTATTTAAAAAGATATTTGTTCTTGCTGCTGTATTACTCATGAGGGCAGTATGATAGCCGGGCAGTGTGATCGCCGGCACATTGACCTCGGAAATTGTGGAGAATAAAGTCAAAACTGCTTCAGGAAGTGGAGACAGAAGTACACCAGACAGCACTCCTCTCACCATTAAGCCTCAGCCTGCTGCTCTCCCACATTCTGCAAATCTAGAGGCCCTGTCGGGCACTGAGGATACTCCCTGGTGGTTCCCCATGTGTGCTTAAAGCAGAGCCCTAAGGGCTTGGTGCTAGTGGCTTTCTTTTCTTCCTGCTTCCTTTATGGCTGGGGCTCCTTTCTGCCTCTTCCTTTTCCAGGGTGTCCTTGACACCTCCTTAGACCGAATGCCATTAAAAAATAAAATCTGTGGTGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGGGGGGGTGTGGGGAGGAATAGCATACACCCACCAGGCTCCACCCTGGTATTACCGTAAGATTTCTGAATGTCCGAATAGGTGGCCTTTTAAAGGGAGCCATTTCTCCAGCTCAGATCTAAACTAGCTACCCACCATAGCACTACAGGTGGATTTTTGCTCAGGGCTCCCATGACTGACATGTTTTAGTTGGAGCAAAAAGGACCAGGTGGTAGGCTAAAGAAAACAAACCTATTCCAAATTTAATCCTGCGATGGATTTTTTGATTTGTCTGATTCCCCCACCCCCACCCCCTCAAGGGGACAACATTCAAGACAGGGTTTCTCTGTTTAGCCCTTGCTGTTCTGGAACTTGCTTTGTTGACCAGGCTGGCCTCGAACTCAGAGATCCACCTGTCTCTGCCTCCCAAGTGCTGGGATTAAAGGTGAGCACTGCTCAGCTTGTTTTTGTTTTTATTACAATTTCTGACATGAGCAGTCTGCCACATTAAAAGGAATTGCCGAGGACTGCGAATGTGGCTTAGTGCTACCAAGCAGGGAGTTCCTAGTTTGATTCCCAGTTCCCCCTAACAACAATGTAAATCAAAACTCTCCAGCTTCAAGGTTCTGATTTAAAAAGTCCCTGTGGGCCCTGCGAAATCGGCACAATCAGATTTGAGTCCCTCACGGCTGGGCAGCAGGTCAGAGCTGGAGGCCATGCAGGAGACGGGTCTCAGAGCTATGATGGCTCCAACCTCTGGAGGGAGCTGTCCCACCCTTGTGATGGGAAATGCATCTGTCCCCACTGCCCCTCCTCTTCTCTCCTGTCTCTCCTGAAGAGTAACGTTGGCGTCTGGTTGGTTCAG
Seq C2 exon
GTTGTTCGACCAGAGAAGAAAGGGCTCTGGAAAAGACTGAACCCTTAACAGAGGAGATGGAGGATCCAGAGCACCCAGAAGGAATGAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028125:ENSMUST00000013995:17
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=0.806
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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