MmuINT0007786 @ mm9
Intron Retention
Gene
ENSMUSG00000035435 | Abca17
Description
ATP-binding cassette, sub-family A (ABC1), member 17 [Source:MGI Symbol;Acc:MGI:3625331]
Coordinates
chr17:24454059-24455273:-
Coord C1 exon
chr17:24455101-24455273
Coord A exon
chr17:24454185-24455100
Coord C2 exon
chr17:24454059-24454184
Length
916 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
TAAGTTAACTTCTCGTGCAGAAG
3' ss Score
4.57
Exon sequences
Seq C1 exon
GCACAGGCATCCAATGGAGGAACATAGGCAGTGTCTGGGGAGACTTCAGCTTTGCTCAGGTGCTGGGGATGCTCTTGCTGGACTCCTTTTTGTACTGTCTGATAGCCTTTTTGGTGGAGTCTCTCTTCCCAAGAAAGTTTGGAATACCTAAGTCTTGGTACATCTTTGCCAAG
Seq A exon
GTAAGTTCTGATTCTGCTATTTTAGAGACATATGTTACATTTTTTTTTATATCTGTCATCTACGTTCCTCTGTCTCCCAATAATGTACTAATTAAGATCTCGGACACCAGTAAGTCTGTACCCTCGATTCACCTAACTATCACCCTGTAGTTGGCAGCGGAGCATAATTACCAGTGAGTCTCGGTTTCTCTGAACCTACCCCACATCTGACGCACTGGACGCACTGGACTCGAGGATGAAACAAGGAGGATCATTTCGTCCAGTGTATGCCTGTTGAATCCCAGGCCCTGCGTCATCCTACAGAACTCACCCCCTTGCTAACATCAGAACCCAATCTGCTAGAGTTCTCACATCCCGTTTCTCCACTGAGGCCTCTGTGATCACGGCAATGTGCCAATAGCAGTGCCACAGCTTTTCTAGACAACCCCAGAAATCCACAGACTACTTTTTCTTACAAATATGAGCTCCTTGTGCTTAGCTTCGCCTCGCCCGGTGGCCTGGAGATGTTTGCCTATGGGCCTAGTGAGGACCCTCTGCAGCATCTGCTCTGCCTTCTTTCTGAGAGTATGGAGAAGCAGGTAAATACTACACCAGCATCCCCATCCAGGTCACTCCCCCAAGACTACTGGTAAGGTGGCTTTCCAAGTGGAGTCAAGAGGCTGGAAATACAGCTGTTTCCTTAGCTCCTCTCTGAGGGCCTGCCAGGGATTATAGATGATCTAGAGTGAATCCATCAGGGATTATAGACAATCTGGAGTGAATCCATCATCGTGCTGGTTAATTTCTCCAGGTGCCATGAAATAATTGGTTCAGCAAATAAACTGCCTATGGGGCAGGGGTCTAATTCACCAAAATGTATCTCCTGGAAGAGAAAGATCACATGAACAGTTAGTGTGTAAGTTAACTTCTCGTGCAG
Seq C2 exon
AAGCCCGTTCCAGAGATACCGCCACTTTTGAATATTGGGGATCCTGAGAAACCGTCAAAAGGGAATTTCATGCAGGATGAGCCAACAAATCAGATGAACACAATTGAAATCCAACATCTGTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000035435-Abca17:NM_001031621:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.190
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(8.3=63.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACAGGCATCCAATGGAGG
R:
ACAGATGTTGGATTTCAATTGTGT
Band lengths:
294-1210
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: