MmuINT0068494 @ mm10
Intron Retention
Gene
ENSMUSG00000029275 | Gfi1
Description
growth factor independent 1 [Source:MGI Symbol;Acc:MGI:103170]
Coordinates
chr5:107716657-107720275:-
Coord C1 exon
chr5:107720110-107720275
Coord A exon
chr5:107717919-107720109
Coord C2 exon
chr5:107716657-107717918
Length
2191 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTGGTCTTCCATCCTTGCAGGTG
3' ss Score
11.49
Exon sequences
Seq C1 exon
GAACGCAGCTTTGACTGTAAGATCTGTGGCAAGAGCTTCAAGAGGTCATCCACGCTGTCCACACATCTGCTCATTCACTCGGACACCCGGCCCTATCCCTGTCAGTACTGTGGCAAAAGATTCCACCAGAAGTCAGATATGAAGAAACACACCTTCATCCACACAG
Seq A exon
GTGAGCTAAACCTGGGCTTGTAGGAGATGCTTGAAGGACATGACTCCCCTCTGATAGTCTACCTCCAATGAGTGGTAGATGAGTTCTCCCCCAGAGTGAATCTGGTTTGTCCTTGAGTCTGAAGGAGTATCTTCCTCTATGTCAACAGCTGTGCGGCATCAAGCCCTCCCAGAGGGTCAATGTAAATATTTACTAGAGATATGGGTATTCATATGTGTCAACTAAACTTCATTTTTATAAGAGCTTCCTTTGTTTGAGCAGGAAAAGAAAGGCAAATGTTACCAAGTTTCCTGCTGAGTCTGTGTTGACAACTCCAGAGACAGTAACTGTTTCTTTAGCCTCATTTTAAAAATGAGATGAGGAAATCAAGGCTCAGAACGTATCCAGGATTACAGGGCTCAAGTTCAGGTTTGTTGGTCTGAGCTCCCAAAATCATAGTCGAGACTTGTTCCTTGTGTAGTAGAGGTTTACAGCCGTGGGAGGTGGTTAATGAGGAAACTCCTATTCGTTTGTTGTTCTTTTTGAAATGCCAAAATTTTGTTCCCTAACAGTGACAATTCCTTAACTATACAATGCTTTAAGAACACCCAAGTGTTTCAGATTGCTCATTTCCCTTGGTCCTTTCCTCCTGCTCCACACAGTAAATTGGGATCCTCTTACTCAGACAGCAAGTCAGTTTCAGTAAATTTCAATTCTCTCTAGCTTCCAGCCTGGACGCCTGCCTTCCTTAACACTTCAGGAACAAATGTGCAGGCTTACTGTCAGGAGCTTGTCAACTAAAGTGATTCCCTTGCCCCAAAAGCATTTCCTGTAACCGTCAACATGACAGTTATATGAGACCACAACTTCTGACTTTAGGAACATTTCTTTAAATCAAATCACAGCTGGATACAGTGGCACATAGGAGGCAGAGACAGATGAGATGGAGGCTAGCCTCGGCTACATAGAGAGTCCTAGGCCAGCTAGGACAATACAGCAAGATCCTGTATTTAAAAAAACACAGTGCCTTCCAGGATCCCACAATTAATGTTTGTAAATATTTGTGAGCAGTGTAGACATTTGTATCAGAAAACTCAGGAAAAAAAGCCTCACTTTAATCATGCCCCCTGTCTGAAATGTCCATGTAATTCACTCTTTATAAGTTGTTTGAGACACTTATCAAAATGCAAATAGAATCTTGACTGAATGACACATTTAAGTCTTTACTAAACATTTATTTAATTAAACAATTATTAACGCATTTTATTAAATCTTGGCTAGAATTAATTTCACAGACATATTTGACTCTAGAGGGACAGGGTAATTTTTGTGAAGTGAGTCTTTATCAAGAAATCTTAAGCACAAGGAGAGATGGAAGTTCCTTAGAAACAAGCAAACAGATACTTGGTTGTTGTTGATTTGTTTGATCCCATAAGGCCGAGTACCAACCGGAGAGCCATGAGGGGATTAGTTGGGAATGTGTGCCATTTACTCACATTTTAACCAGAGCACAAGACCAGGAAAGACAAAACCTGTTGGTTTTCTTCCTGTTGCCTGCTTTAAAAATTTTTTTAGTTTATTGTTCTGTTGTGAAGTGTTGGCATATTAAGAATCCTGTAGTTTAAAACCTCAAAGGAAGAAAGAAAGAAGTAAAAGTTAGAATAGACAACCTTAACAAATTATTTGTGGCTCGAATGTGGATTTAAAAAAAAATAGACATTGGACAAACCTGTGTTCTTCAAGAGCAAGAAGGAAGACAACTTCAGTGGCCACACAAAACAACACCCACTTGGAAACTCAGATTTGAAAACTTCCTCTGACGAAAGCAGTCATAGGGTCTGTAGGACAGCCCCTCCCACCTCCTGCTGAACATCTGCTCTGGGGGCCCTGTGCTTCTAAAAGTCAGCAGGCTAGTCCTCGGGGGTGAATTCAGCTGGGGAGGGCACGTGGCCTTTACTCAGTTTCCGTTTAGCAGGAAACCGTTTGAGACCTTTGGCTGGGAGCCTCCACTCAAAAAGTCTCCCTTCCACCTGGTATACCCGTGGCTTACTGGTACCAAGTTGCAGGCCAGGAGTTGGTTCGTGTTGCAACCTATCACTCCCCAGCGTGAAAGTCTTAGCCAGCTGTTAGCAAGAGCATGTGGGTCGCAACGGGTCTCTCCCAGCTTTATCATAGGCTCATACTTCCTGCCCTTGGTCTTCCATCCTTGCAG
Seq C2 exon
GTGAGAAGCCCCACAAATGCCAGGTGTGCGGCAAAGCCTTCAGTCAGAGCTCCAACCTCATCACTCATAGCAGAAAGCACACAGGCTTCAAGCCCTTTGGCTGTGACCTGTGTGGGAAGGGCTTCCAGAGGAAGGTGGATCTCAGGAGGCACCGAGAGACTCAGCATGGACTCAAATGAGTACCCTGGCAGCCCGCAACACCAGCTGTGTAACACTACCGTGAGGGATGTCTTCCCTGCCTCCCTCCAGCCCCTTCTCAGGCCCTGAGTCCAGTGTGCAAAGCTCATCATGGTTAGTCCCCTTCACCTTCCTTCCCGGAGCTGCTGGAGGAGATGAACTCCCGTTTCTAAGGTCAACCCAGAGTGGGAACCGCAGCAGCAGCAGCAGTCGTCTGTGCTTTGGGCTTCCCTACAGCTGAAGATGGGGATCAAATGAGATCTTGCACCTCCCAGTTCTTCCCTTTTTTGCTGTCTCACAGGCCAGAATGAACTCTGGGCAGCTGCTACAAGAGGAGGCATCACCTCTTAAGCTTTGAGCGCCACTGATGCATTTATTGAGAACGAATGAACATTAATTTTCTCTTCTGGGGAGACTGCTGACTCCTTTATCCTCCACCAGACTCTGGTTTAGGGAAGGAACCTCGTTCCTTTGAAATCATCAGATGCACCATCAAGCCTGCCACGAGAAGAAGGGGACTTGGTGATGAGAGGGAGTCAGAGGTCCTGTGGTGCCATCAGAGGAGGTGAAGCTGTGGAGCAGCTCCGGGGAACAGGGTCTTCACTTACTCAGCGAGTGATTATTGGCCGCAGGTTATCAGAGTAAGGAACTGTGCTAGGTATGGGAGAGCCAGAGATTAAAGTCATAGGCCCTAACCCCCAAAAGCTATCAGTTGGACTTCAACATAGCTAGAGCCTGTGTTCTGTGCTTCCAAGGGAGTTCTGAAGAAGGCCACACAAACATTGGGACTTCTTTTTGACACTTACGGAGTTTTTCAAGTGTAAACAAATAGGAACTGGAGGATTATTTCTAAAGTTCATGAGTAAATCCAGCTTTTATTGTTAGGTGGGACTTTATTAGATGCCTGCGCTGGGAGATGTGGGGTGAAGGCTATGGCCTCAGCTCCTGCCCCTTATCATCTTAGGAACAACTTATTTTTCCTGTGAGGGTTGTAGACGTTCCTAAATCTTCTTGAGTGCATTATGTATTAGCATAATCATATTTATTAGAATGTTGTTTTAACTTAATAAAGTATTAAGATTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000029275:ENSMUST00000159164:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.186
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=41.1),PF134651=zf-H2C2_2=PU(38.5=17.9)
A:
NA
C2:
PF134651=zf-H2C2_2=PD(57.7=25.0),PF134651=zf-H2C2_2=WD(100=41.7)
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:
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