MmuINT1010790 @ mm10
Intron Retention
Gene
ENSMUSG00000029275 | Gfi1
Description
growth factor independent 1 [Source:MGI Symbol;Acc:MGI:103170]
Coordinates
chr5:107723724-107725805:-
Coord C1 exon
chr5:107725561-107725805
Coord A exon
chr5:107723887-107725560
Coord C2 exon
chr5:107723724-107723886
Length
1674 bp
Sequences
Splice sites
5' ss Seq
GAGGTTGCC
5' ss Score
-4.57
3' ss Seq
AATTTTCCCCCTTCTCTCAGAAC
3' ss Score
9.23
Exon sequences
Seq C1 exon
AAGCGGTGGAGCGAAAGATCTGGAATAGAGGGGCACACAGTTTAGCGGTTAGATAGCAGAGTGGGATCCACGCAGGAAGAAAACATCTGGTGGGCATGTGGCGGCAGCGGGCTTCTGGAGGCCTCCTTCTGAGCGCCTTGCCTTCAGCTCCCGAATTTCCAGCCTCAGATGACCAGGGGAAGCCTGGCGGGCCGCTGTGCCAGGAGCGTGCCGCCCCGCCCCCTGGACGCCAGCTGCAGCACGAG
Seq A exon
GTTGCCTTCCCACGCGCTGGGCCTCCTTGCCATCCCCTTACCCCTCCTACCCGGAACCCAGCAAAGCCCTCCGAAGCGTAGGTTTGTGGCCTGGGCGAGGACGCCACCTCTGTGTCTACCCTGTCCCGCGTGGTGCTGACGCGCAGACCCAGCGCGGGACCAGACAGCCCTGCTTCCCACGGGTCCCGTTCTTGGCTATCGCAGGACCGAACCTCATCGAGGCCTCCAGAACTCTTGCCCTGTTTTCTTGCTCTTCATGCTTGCTTTAAGAATTGTCCTCTGGTTGGAGCGTCTGGCTGTACAGACAGGGAGTGCGGGAAAATTAAAGCGCCGGAGCCTGGGTTCTGGGAGCCAAACCCGACCAAGGCGTGTGACTATACATTATGACTGGGAATCTGAAGCAGGAGTCCTTGGGCTCCTTTTAAGTGGGTACAACAGGGTGTGTTCTGTACGCGCTCCTGGGGGGGGGTGGCGAAGAGGCTCGGGTTCCTCAGTCTGAACTGCACGAAGCCCAAAGACCCGGGGCGTGCGCCGGCCTGTGCCCCAGTCTTTGAGCCCGCCGCCGCCGTTCAGCCTCTATTGCCTTGGACCTTGGAGGCAGGCGGATTCGTTTCACCCTAGGCCTCCCTAGGGTCGCCCCCGGAGCGGGCCAGGAGCTGGGACGCAGTCTCAGCCCCGCCTCCTGCAGGGCTCAGGTTTCGACCCGAGATTAGGTGAACTGATTGGGGGTTAAAGAGAGCGACGCCAGCTCTCGGTCATGCTCAGGGACCCTGGCCTCCTGGCCAGGCCTTCTGGCCACTGCTCACTCGTGCGCGCTCCGGTTTCATCTTGCTGGCCCGCGAAGTCGTTGGCACTCATTAAATTTGGGCACCGCGTGTTTGCCAGTAAGCACGCAGTTTAAACTCAACTTCCCTAGGACAAGATTTTTGGTGAGCAGATCAGAAAATAATTCTTTCTGGGACTTAGTTTCTGAAGCAAGGCCTACAGGTCTGGAATGTTTCTCAGTGGTCGCCGTCCTGGCCGGTGCCACACCACTATTCCAGTGGGCGTTTCTCCTGGGACAAGTGTTGGTCCTTTGCCACTCCCACCTCACTTTCCTGTGCCTCTGGCTTCCTGACTTCTGCTCCAGCCACTGCAGCACATAGTCCCTAGGCAAACCAGTCCCTAGTACGCCCCTCTTTCGCTTCTGTTCGTCGCGGGGCTCCTGGAGGTTTTGGCTCCAAGCCCCTTCCGGGTCCCAAACACTGATGCCCCCTGACTGGCTAAACTAAGCCACGCATCCCTGGCGTGAGCCACAACCCAGAAGGGAGCAGGTGGGCTTGCAGGGTTGACTTGGGATAACGGACCAGTTGTGGACTACTGCTCTCAGGAGAGTGATGATCTAGCTTTGGTAGGGAAGGGGAGGGGCTGAGGCGTGGGCAGGGCAGAGCAAAGGGACCAGAGCCAGAGCCTGGGGACAGGTTTTACCACTGAGCTGTTGCAGTGGCGGCGGAGGCCGGGATTCGTGCCACCTGTCCGAGTGCCACCTGGTGAGCGTGGCGCCTGGGTCCAGGCCCCTCCTCCCGCGGCTTCCCTCTCTCCTCCCTGGCCCACACTCTTCCTTGGCCTGGGAACCTACCACAACCGCCATCGGTGCTGACCCTCGTTTCCACCCAATTTTCCCCCTTCTCTCAG
Seq C2 exon
AACTCAGAGTATCCGAGGGTCCAAACATTCGTCCAGCGGCTGACCACCATGCCGCGCTCATTCCTGGTCAAGAGCAAGAAGGCGCACAGCTATCACCAGCCGCGTTCTCCGGGGCCGGACTACTCCCTGCGCCTGGAGACCGTGCCTGCGCCGGGCAGAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029275:ENSMUST00000159164:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.820 A=NA C2=0.869
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCACACAGTTTAGCGGTTA
R:
CTCCAGGCGCAGGGAGTAG
Band lengths:
353-2027
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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