MmuINT0179160 @ mm10
Intron Retention
Gene
ENSMUSG00000037001 | Zfp39
Description
zinc finger protein 39 [Source:MGI Symbol;Acc:MGI:99183]
Coordinates
chr11:58888153-58893054:-
Coord C1 exon
chr11:58892962-58893054
Coord A exon
chr11:58891547-58892961
Coord C2 exon
chr11:58888153-58891546
Length
1415 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
GACTTCTTTTTTTCTTTTAGATG
3' ss Score
11.03
Exon sequences
Seq C1 exon
GCCACTGCATTACCAAACCTGAGGTGATCTTTAAGCTGGAGCAAGGAGCTGAGCCATGGAGAGCAGAAGACGTCCCAAAGCAGAGCCGAGCAG
Seq A exon
GTGAGTGAGTGCCCCTCGGACAGACAGGCGAGGGTGAGTAGACTCTCACAGACACTGGCCGTGCCGAGCTGTTCACACTCAGGCGCTGTTCCTAGTCTTGGGCACAGCTGCTGCGCTTCCTCACATAATTCCTGTGTGCGCTCTCCAAGGAGAATGTTCACGTGAACTTTTGTTCTCCTTTTTACTTTGCTGCATATATTTTCTTTAAGTGCGTGGAGCGTTATAGACAGCTTTGGTTCGTTGGTTAGCTGCTGTCTCTACATTCTCAGCTGTCTGTGTTTTCTACCCGAAGCATTTTTGGCTGTGTTCTTTTATCACATGGTATTTTGTTATCTCCTAAGCATTGCACTTCTAAAATTAGACATGCAAATAATAATAAATATATCTGCACATAAAGAGCTTACATTTTGTTGAAAAAATTAAACACATATAATATATGGTTGTAAGATAAGAGTCACAAAGGATGATTTATCATAACAAGAAATAGACTGTTTTATTCCAGGAAAAGTCTAAAGGAAAGGGAATTTTAAGGAGACTATTATTCATCTAGTTTAATCTTGACACTTCTTTTTTTCCAATATTTGGTATATCTAATACTTGGGTGGGTATAAAATATAGATTTGTGTCTTAGTCCTTACAAAGAAGGAAATTGGCAGCTTAATATAGATATTTATATCATAGTTTTTCAGACATTAACTAAGGGGTTGGTAAGGGAATCAGACAAAAAGGCCCAGCATCAGGTTTCCTGTCCCACGGGGTAGAATGCCTGTGAGTGAGGGAGAGTTCTCAGCACGGGAAGGAAGGCGAAAGCGAAGCTCAACAGGAAGAGTAGGGTCCGCTGTCACGGAGCGGAAGGGAAGCAGGGCTTTCGTGTTGACAGGCTGCAGTTTCTCTGTCGGTGTGGAAGCTGTCATCTGCAGTTGTCTGTAATGTAGAAGACAATAGACTTACACAGAAGACCTCATTTATAGTGTAGAAGACAGCTTAATACAAAACAGAAGCTTCCAGAAGCAGAGAATTATAAAGTATAAATTATTTATAAATTATAAAGTACAAACCTCCATCCTCAGATAGCTCGCTGATGAGCATCTTCCTGTTACAGATCAGAAAGAAGGAAGGTGGGACGCACTGTAAGAATGAGAGTGAAGGGTGGGAGGTAGGGGGAATGGCAGATGGAAACGTGTGTTTCAAATGAACTAAACACCTTAAACCAGTGAAGTGATGTGATTTTACATTGTAAACTCTACGTTACAGATCCACTGGAGACACACACACACACACACCACACACACACACACACACACACACACATATATATTTATATTATTGCTAAATCATAATGGGATGAGAACGAGAAGTCAGTTCTTCATTTTTATGCTGTAACATGAGCTTGGCGACTTCTTTTTTTCTTTTAG
Seq C2 exon
ATGTACAGAAGATAACGGAACTGAACGAAACCAGCCAGGACAATGAAGAGAGACATCTGTGGCACCATGCAATTACCTACAGCAACAAGTCAACCGAGGAGAAAGTTAAATTAGGAAACATAGTTAATGTGAGCTCAAACTGTGTTTCAAATCTGACTGTAAAGAATGGAAACTCCTCAGGAATGAGGCCTGTGGCACTTACTGTGTGGCAGAGTGTCCTTCCCCCTAACAAGCCCGATGACACGAGGATTGGAGAGGAACTTGATGCCTCTCTAACTAGTGAGCCCCCCATACACGCAGAGCATCCTGGGTTGTATAGCAGAGCTCCAGGCACTGGACAGCAGTTTCAGTGTTGTATGCAAGAAGTGACCTGCAACACAAAGGCATTATGGACTAAGAGGTTTCACATTGCACATGGGTCCAGTAAGTTTGGCGAGTCCGAGAAAGTGCCTGATGAGGTAGCTCTTCATGCCCAAGACGTGAGCTGGGTACGGGCAGAAACTTTTGAATGTAGTATTTGTAAGAAAACATTCTGTACAAAATGTGAGCTCATGAAACACAAGAAAATACACAAAGGACAGCAATATTACACGTGTAGGGATTGTGAGAAAACCTTCATTAAGGAATCATACCACACAGACCAGAGGGTACATGCAGGAGTCGGGTCCCATAGATGTAAACAATGTGAGAAATGTTTTCACCAGAAGAACCAGCAAAATGTGCACGAAAGAGTCCCCAGAGAAGCCCGACTCTGGGAAGTTTATCAGTCTGAAAACAGCTTTGGCGAGAAGCCAAATCTCAGGCGCTATCAGAGGACCCGTGCCGGTTATAAGCCCTATGGATGTAACCTGTGTGGGAAGGCATTTTACCGCAAGTCACACCTTGGCAGGCACCAGAAAATTCACACGGGTGAGAAACCCTATGGTTGTGAAGAGTGTAAGAAAACTTTCTACCATAAGTCCTCCCTCACCATACATCAGAGGACTCACACAGGTGAGAAGCCCTACGAGTGTAAAAAATGCAGGAAAACTTTCTACTGTAAGTCGGACCTGAATGTCCACCATAGAACTCACACTGGCGAGAAGCCGTACGAGTGTGACGAATGTAGGAAAACGTTCTACTCTAAGTCACACCTTGTGATACATCAGAAAGTTCACACAGGCGACAAGCCATACGAATGTGAAGAGTGTCAGAAAGCCTTCAGCCGTAAGTCAAACCTTACCGTACATCAGAAAACACATACAGGGGAGAAACCTTACGAGTGCAATGTATGTGGGAAAACTTTTCACCGGCAGTCACACCTCAACATGCACCAGGGGACTCACACTGGCCAGAAACCCTACCAATGCGAAGAGTGTGGGAAAGCGTTCTACCAGAAGTCAAGCCTCAGAAGACATCAGAGAAACCACACGGGGAGCAGACCATATGCATGTGAAGAATGTAGGAAAACCTTCCTCCATAAGTCCTCCCTCACTGTCCATCAGAGAAGCCACACAGGCTACAAGCCATACTCGTGTGAGGAGTGCAGGAAAACGTTTTACAGTAAGTCACATCTCACCGTCCATCAGAGAACCCACACAGGCGAGAAGCCCTATGAGTGTAAGCTATGCAAGAAGGCTTTTCACCAGAAGTCATACCTTAACCGGCATCAGGTAACTCACGGAAGTGAGAAACGATTTGAATGTCAAGAATGTAGGAAAACGTTTTATCACAAGTCTTCCCTCACTGTACATCAGAGAATCCACCTGAGGGAGCTCCTGTGCGTCTGATGTGGGAAGCTCTGTCAGCAGGAACCATCAGCTGGCACCAGACAAGGCATGTGGAGGGCGTCTCCTATAAATGTGACAGTGTGGACAATGTTTTTGCAAGAAAGGACACCTTTGCAAGTGCTAACTTTACACAGGAAATTCTGTGTGGCACAAGTTGGCTGTCTTCTCTGGAACATAGTCCCCATTACTGAGGGTCTGTGTGATCATGTAACACACACACACACACACACACACACACACACACACACACACACACACACACACACACACTGCTTTCATTTCACTGCTTTCAGCCAGGCCCACAGAAATACTTTTTTCTTCCTCCCTAAGTTCTCATGAGCTCTGGGTCTGAGATAAATGTCACCCGTAAGATAGCCTTGACATCCATTGTCAGAAAGTCCCCCATTTAAGAGAAAAAGAACTGACTGGAAATCATTCATTTTTGTCCCCAACTACTCTTTTTTTTTTTTTTTTTTCAGTTTCAAGCTGTTGTGCATGGTGTTTTTGTAAGAATGCACTAACTCAATACAACTGGGAGAACCTACATGCTCTTTAATATTTCAGAGTTTGTACACAAGGGAAACTTTTACAAATTGAGAAAGTTTATCAAAGACGTTTCATTGAACAATTTGAATAAATCAAATGTGAATAAGTTAACAGGTGAAACTTTGAACAAAACTTCCATGTCAGAAGTTTGTAGTGAAGAAAAACCATCAGTCTTTGTAATTTTAATATTAACTTTCAAATGGAGCCACACATGTGCCAATAAATATGTGAGTGATATTATTGTCTGTCAGAGCACATTGTATCTGGGAACATTTGCGGTTATTGTAACTGGAGGCTGGAGTTGCTACTGGCATGCAGTAATAGGGGCCAGCCATATTTTTTAAACAACTTGTACTGCACCAAATATTCCCTCATTCACCTATATATTTTGGTATTTTAATGAAAAATTCCTTGGTGGGACCTAGATTAATTACAGGAAATGTGTTTGCTGTGTATATGTCTTGCTTTGTTAAACAGGGACTGAGGTACGCATGTAGCCCAGTGGTAAGATATATGTGTAACATTCATGAGACCCTGGTTTCAGCCTCACCACATACATGCATAAACTCAAACCTACAAATCTCCACATCAAATACCACTCTAGCATGTGTTCATATTTTCTCAAATATTGTCCTATGCACCTTCCCCACTTTGTGCCAGTGCAAATAAGTATGAGTGGGAATTGCTATTTTACCACCCCTCTAGTGTATGATGCTAATATAAAGCCTGCCAATTGATCTAATGGAAATAGTATTCATATAGAAACGAACAAATGAAGTCCCTGAATTGTTCACAGCTGACACTTAAAGAGCCACAAGCAACAGTTCTTATGTCGGCTTCAGTGCTCTTGGTGAGCAACAATTTGTTGTCCACTTATTTGTGCTCCCCTGGTCCTACACTCCATCCTCCATATGAAAGCGTTGAACAGAAGTGGTCTGTTTTAACTTACCTAGTTTGCACTGAACATTGCTGTGTCACCGACAGCCTAAGTCTTTTGTCACTACACATTTTGCTCTAGCTCTAAAGATGTTTTTACCCTATACATAACTGCCTTGAATAAAAGACTTTGTGTCTAATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000037001:ENSMUST00000102703:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.281 A=NA C2=0.156
Domain overlap (PFAM):
C1:
PF0135222=KRAB=PD(0.1=0.0)
A:
NA
C2:
PF079757=C1_4=WD(100=8.8),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF0013017=C1_1=WD(100=11.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4),PF0013017=C1_1=WD(100=10.2),PF134651=zf-H2C2_2=WD(100=4.4),PF134651=zf-H2C2_2=WD(100=4.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCCATGGAGAGCAGAAGA
R:
CAGGATGCTCTGCGTGTATGG
Band lengths:
353-1768
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