MmuINT0083813 @ mm9
Intron Retention
Gene
ENSMUSG00000025348 | Itga7
Description
integrin alpha 7 [Source:MGI Symbol;Acc:MGI:102700]
Coordinates
chr10:128378878-128380071:+
Coord C1 exon
chr10:128378878-128378997
Coord A exon
chr10:128378998-128379863
Coord C2 exon
chr10:128379864-128380071
Length
866 bp
Sequences
Splice sites
5' ss Seq
TAGGTTTGT
5' ss Score
4.07
3' ss Seq
TAATCGATTCCCTCCCCTAGGTT
3' ss Score
8.63
Exon sequences
Seq C1 exon
GGTTGCTTTTTGTGACCAACATTGATAGCTCAGACCCTGACCAGCTGGTGTATAAAACTTTGGACCCTGCTGACCGGCTCACAGGACCAGCCGGAGACTTGACCTTGAATAGCTATTTAG
Seq A exon
GTTTGTAAGCTCCTGCACCCTGGGCCCTGGGGTTTGGCCCTGGCCTTCCCACTTCCCCTTTAGGGAGTATCCTTTCCTTCCCTGCCCTCCCCCAACACATGCCCAGGGAATCGCATATTGGGCACAAACTGCAGAAGAGAATTAGGTCCATCAATAGGCCTGAGAAGAATAGGTCTTGAAGGTGATAGTCTTGGGGGATGTAAGTCAAGGGTCTCTAAGGAAGAAGACCCAGGTAAAGTGAGAGGACCAGGGTCAACCCTGCTTGGAAGGACAGTATTGACCTTTAGGGAAGTTCCTCTGAGGGGTGGATGGTGACTTGGGTTGGAGAAAGCTCTAGCCTTTTGAGTAAGCCCCTCATAGCCATTTATAGCCAATTCTGCATATCAACATGGATGAAACGAGGTCCAGGAGACATTTGGGTGAAGCAAGTTCTTCCTTGACCCCTGGTTTTCCTCCCATCTATGTAAAGATTGCCTTCTCCTTGGCAGGGTAGAAAAGATAGGGAGGGGATGCATTGGATGTCAATGGACCTTCTGGGTGTGTAAGATGGGAGGAGTCTCCCTCTTCTTCAGTTCCCCAGGTTGGGCAGGAATGGTTGGCTCTTGTTGCTATGCCCAGCCCCTCTTACCAAGTCACCAAGGCTTCTCTGTCAGTGCCTTTCTCTCTGCTCCATGACACCTCTGTGTCATATCCCGTGTCTCTGACCAGGAGGGCTGCAAAGATTTCTAGGCCCTGGCTGGGGAGGAGGAATAGTCTAGCCACAGTGGTGGGGACTGGGGAGAGGCAACTCTTCCTTGTGGCTCCAGGGGCTTACCTGGCTTCTGAATGTTGGATAATCACTCACAGTAATCGATTCCCTCCCCTAG
Seq C2 exon
GTTTCTCCATCGATTCTGGGAAGGGTCTTATGCGCTCAGAAGAGCTGAGTTTTGTGGCAGGGGCCCCACGTGCCAACCACAAAGGGGCTGTGGTCATTCTGCGCAAGGATAGCGCCAGCCGCTTGATACCTGAGGTTGTGCTGTCTGGGGAGCGCCTGACCTCTGGCTTTGGCTACTCACTGGCTGTGACTGATCTCAACAATGATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000025348-Itga7:NM_008398:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF135171=VCBS=PU(6.8=7.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTTGCTTTTTGTGACCAACA
R:
ATCATTGTTGAGATCAGTCACAGCC
Band lengths:
326-1192
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: