MmuINT0007638 @ mm9
Intron Retention
Gene
ENSMUSG00000004668 | Abca13
Description
ATP-binding cassette, sub-family A (ABC1), member 13 [Source:MGI Symbol;Acc:MGI:2388707]
Coordinates
chr11:9331730-9334329:+
Coord C1 exon
chr11:9331730-9331910
Coord A exon
chr11:9331911-9334110
Coord C2 exon
chr11:9334111-9334329
Length
2200 bp
Sequences
Splice sites
5' ss Seq
CATGTGTGT
5' ss Score
2.6
3' ss Seq
CTGATTGTTGTTCTTTGTAGATC
3' ss Score
9.61
Exon sequences
Seq C1 exon
GGCTCTCACAGCAAAATGGCCCAGGAGAAATGGAAGGAGGTAACCCAGGAGTGGCTCTGATATCTGTGACCAAGGAGTATGAAGATCACAAGGTGGCTGTCCAGGAACTCACTCTCACCTTCCACAGAGACCAGATCACAGCCCTGCTGGGGACCAACGGTGCAGGGAAAACCACCATCAT
Seq A exon
GTGTGTCCCATTTTAGAGAATTTATTTTCTGTTCCCTTCCCCCTTTCCTCCCTCTTTTATTTTATCCCATTCATCCTTACTCTTTCCTACTTCTCTTTCCATTTTTATTTTTCCATTGTTGTTTTGCTTTAATCTTAACATAGAGCTTAAAGGTTCAATAGAAAGAACAAGTTCTCTCTCCAAAGACCCTCCCCCAGTAGTCCTCAATTATGTTCTAGACCTGGGGTAAATTCCAAGGGGAGAGGTGGATGGATATTTTTTAATGCCCCAACAACTTTCATTTCCTACAAAATAATACATCGTGCTTAAGGAGCTGAAGGGGTCTGCAACCCTATAGGTGGAACAACAATATGAACTAACCAGTACCCCCAGAGCTCATGTCTCTAGCTGCATATGTAGCAGAAGATGGCCTAGTTGGCCATCACTGGGAAGAGAGGCCCCTTGGTATTACAAACTTGATATGCCCCAGTACAGGGGAATGCCAGGGCCAAGAAGTGGGAGTTGGTGGGTACGGAAGCAGGGTAGGGGGAGGGTATAGGGAACTTTCGTGATAGCATTTGAAATGTATAAAAAGAAAATATCTAAAAAAAATTTTTTTTTCTTTTTTTTTTCATCTTCTTTTCCTTTGGCTTTTTTCTTGCTAAGTCCTGGATTTTGGATTTGGATCCAATAGTTCCAGATTTGATTAAAGAATTCAATCATGTAGCCCTAGAGGGGGAAAAGAGTTCAATTATCCATAGCCTTGAGCTGGTTGTGGAACAGTGCCTTATTTAAGGCTAGCTGCCAAAATTATGGCATGTATCTTTTGAGCAAATCACTTCTTATTCTTTTTCTCACCAAATGTGCACAGGTCTAACATATGATTAGTAAGAAGGATGAAAACGAAGTGGCCTCAGCCTTAGTAAGAAAGAAAAATAATGTTCGTGGAGCTCCAGAAATCTCTCCCTGGAAATGAACCAAAAAAAAAAAAAAAGAAAGAAAAGAAAGGGTGGAATGTTTGCATTTGTACCTTGCAGGCTGAGATAGAACTGGCAGTCTCTCCTTTCTTAGAACTTGCAAATTGGGAATGTCTGAGTTACGCAAGCAATAACTCAGCAAACCTTTGCTAACACACATATTTTATGAGGAAGTCTTGGTGTGCTCGTCTGGCTGAATGACGAGAATGAAATACGAAGGTTCTGGGTGTTTCAGGGTTCAGTAACTACTTGGCTTTTAGTGACATTTGGAGTACATTCAGAGTCATCTGAAGTGCTTGCTTCTTGCTTATTAGCAGTGCTTGGAGCCTGAGAGCAAATTACTCACCTGGATCTTTACCATTTGAAACAAAAGGCTTTGAGAATCACACAGATTGATACAGTTGAATCTCTGTGTCCATGGATTCCATTTCCAGGGACTTTCCTAGCATAGATCAAAATTCTCTGAAAAGTATTGTATCTACCCTATGTACAGATATTATTTTTCTTTGTCAGTATTTGTTCAACAATATAATATATAGATGATTTAAATACATAGAAAGATTATATAGACTGCATGTATGCTGTCATTTTTGTACAAAAATCTGGACTATCTGAATTTTGGTATAAGAATTGTACTGAATCCAATGCCCAAAGATACTGAGAGATCACTACATTTATTACCTTATTATATTCCCTAACTAGGTTTGGAAATGGTTATAACAATGAGTTGCTAATTGAATAACTCAAGGCATAGTTTTTGTATAGTGTCACATGGTTATGCAGGTAGTTCAGTGAGGGTTGACATATTTATCTAATGTCAGAGCAAACACCATGGTGAAGATATGGAGCATTTCTTTTCCCTTTTAATATGTACTGTGTCATCTTTTAGCCCAAGCTCCCAAGTGGCCACTGACCTGTTACTTACTAATTTGTTTACTTATTCTAGAATTCTATATAAATGGAACCGTGTCTACCTTCTTACACTTGGATCATTCCCCAAGTCTGACACACTGTAGAGGAATAAAATCATACTCTTTCCTCTGGGAGGCAGGGCACAGCCATATGCCCACTTTTCATAGTTGGATACCCCAACATCCCCATGAATTCACTACATTGTAATGGACCATGTAGAAAGCTGGTCAACAGTAATGAGTTCCTTATAGGCTGTATAGCCACCTGGGATTTATGGGGCTCAATGTTTACAGCATCCAGATGTTGTTTATACTGATTGTTGTTCTTTGTAG
Seq C2 exon
ATCCATGTTGATGGGGCTCTTTCCTCCTACTTCTGGAACCATCACCATAAATGGCAAGAATCTGCAGACAGATTTGTCCAAGGTCAGAGAGGAGCTGGGGGTGTGTCCACAGCAGGATGTTCTCCTGGACAACCTCACTGTGCGTGAACACCTAATGCTCTTTGCCTCCATAAAAGCACCTTGGTGGACCACGAAGGAGCTACAGCAGCAAGTCAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000004668-Abca13:NM_178259:37
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.131 A=NA C2=0.014
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.4=44.3)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: