MmuINT0178799 @ mm9
Intron Retention
Gene
ENSMUSG00000042097 | Zfp239
Description
zinc finger protein 239 [Source:MGI Symbol;Acc:MGI:1306812]
Coordinates
chr6:117813095-117819291:+
Coord C1 exon
chr6:117813095-117813160
Coord A exon
chr6:117813161-117819235
Coord C2 exon
chr6:117819236-117819291
Length
6075 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TATTTTTTTTTTTTTTTCAGAAC
3' ss Score
11.21
Exon sequences
Seq C1 exon
GTAGTTCGAATCCTCGATGATGCTCGGGAGTCCTGCGTTACCAGGTGTGGGTTCTACCTACAAGAG
Seq A exon
GTGAGCAGAGCTGGGCTGCCCCAGGGGTGGGCAGCGGTGTCCTGGTCCAAACTAGGGGGCATTACCACTCGGAGCCAGGCTCCGAGGCTGGGAAGGCTCCTTGCGGCTGCGATCCCACGTGCTAGCAGCCACGGTAACCCCCAAACCCCCAGTAACACCCCGTGCACCAGGCCACCCTCACGGAGGGCCAGGCCCCTGCAGCAGAGCAAACCGCAGCTCCGTAGACACCCTCCTCTTGCTTGACCAAGTTCTGACCTGGGTGGGTCCAATGATGATGTTGCTGGACATCAGGAGACCATGAGAGAGGCTCCTAGAAGAGACCCCTAAGAGTACTAAGGTTTCCGCTGCACAGCCCTCCCCTCTGCGACCTAGAAACCAGTCAGATTTCTGAGAGGACGGTCTGGCAAGGGATACTGGGTAGCTGTAATGCACGCAGTGAGAAGATGCACAGAACCTGAGAACACCCACTCCAGAACTTCAGTATTGAAATAGGTTGGTCTGAGGAGATGGGCATGTCAGAACTACCCTAGGCAGAATCTGCCCCTCCCTGAAAATATGACCATGCTTCAGGTGACTTGCAGTTTCTTTCACCAAAAATGCCTCATCTCTGAGCTAGATACAGCTTTTCTTTCTTAGAACAAACTAGGAAATCAGCATTGAGTATTTGCCTAGAGTGAGGTCCTTGTGGTCTTTCTCTTTATTGCCAAGCTTCATTGTGAGATTGGTATTTTATACAAGGGAACGAGAGCATTTGGGACCTTACAATATGTATCTAGCAAACGGTATCAACTGGTTCAGCATTGGGTCTGCTGACCCGGAAGTTCTATGTTAATTCTCACTACACTGCCTTGCCACCTTGTGAAGTACTCAAAACATCCAACCAAGCTCTTCTGAAAGGCTCTATGGAGCATTTTCTCCCTGTAGTCTGGAAGTCGGCTCTCCTATCGTACATTTCACTCGGTGTATGTTCCACGAGTTACTCTTCGTTGTTAAGACCAAAATATCTTGGGTAATGAGTTTGTAAAGAGCAAAGATTTGTCTGCTCAAAGTTCCATCGTTTTAGTCTGTCATTACTTGACTCAGTTTTGGACCTATGAAACAGAGTTTGGTTCACCTCATGTGGGAAAGACCTGGATCCCAATATCACTTTAAGGGTGCATCCCCAGTGACCTACATTCTTCCTACTAGGTCCTACCTCCTAAGGATTTGACCTCCTTACGTGAGATCAAAACTGTAGCTTGTTGGAGATCATTCCAAGTTAGTATATGCCCAGTCTAATGCTAAGTAGGAAAAAAAAAGAATATAAACTGAAGCTTTTCATCAAAGAACTCATGTTCTTGGTGAGCAGATTATATGTAGCCATCATACATATGATGATTAATCTTGACTGATAATTGAACTGAGAGATTCCTAGGAATTAGTGAAGCACACTTCTTCCTGAGTCTCTAAAGGTGTTTCCAGAGAGTATTGGATCACTAGGGCTCTAGCCTCTGGGATGTTTCATTGTGGATTAAAACCTTGAGACTAGGGCTGGTGAGATGGCTCAGTGGGTAGGAGCACCCTACTGCTCTTCCGAAGGTCCAGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACCATCCGTAACGAGATCTGACTCCCTCTACTGGAGTGTCTGAAGACAGCTACAATGTACTTACATATAATAAATAAATAAATCTTAAAAAAAAAAAAAAAAAAAACCTTGAGACTAGCCGGGTGTGGTGGCACACGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGCGAATTTCTGAGTTCGAGGCCAGTATCCTAATTAACAAAGTCAGAAATGAAAAGGGAGACATAACAACAGATCCTGAAGAAATCCAAAACACCATCAGATCCTTCTGCAAAAGGCTATATTCAACAAAACTGGAAAACCTGGATGAAATGGACACATTTCTAGACAGGTACCAGGTACCAAAGTTAAACCAGGATCAAGTTAATGATCTAAACATATCCCCTAAAGAAATAGAAGCTGTCATTAATAGTCTCCCAACCAAAAAAAAAAAAAAAAAAAGCCCAGGACCAGATGGGTTTAGTGCAGAGTTCTATCAGACCTTCAAAGAAGATCTAATTCCAGTTCTGCACAAACTATTCCACAAAAGAGAAGTAGAAGGTACTCTACCTAATTCATTACTCTGATACCTAAACCCACATAAAGATCCAACAAAGATAGAGGATTTCAGACAAATTTCCCTTATGAATATCAATGCAAAAATACTCAATAAAATACTCTGTCCTGGTCTACAGAGTGAGTTCCAGGACAGCCGGGGCTATACAGAGAAACCCTGTCTCGAAAAAACAACAACAACAACAACAAAACCCTTGAGACTATTGGAAGGTGGTAGAATTGTGTGGAAGGTGGAGCCTGGGTGGAGGAAGCAGGTCACTGGCTTGAAGCACAGCCTTGAGAGTCTTACCTTGACCTGGCTCTCTCCTACTCTTCCACCCTACTTTATGCCTGCCATCAGCTGAACAGCATGTTTCTCACAATGCCCTACCACGATGGGGGTCTAGAATTGTGACTCAAATCTCTCCTTAAATTGTTCATTTGGGTATTTGGTTGCAGCTACGCGAAAGCAAGTGTCATGTGTGTTAACAGTGATCATTGTTCGCTGTGAAAGTGAAGGACATGAGGAATTTAGTTAAACAGCTGCTCAGTGGCCACAAAGTCATGCCTGAAAAGGTGCATCAAAACCAGGTGGTGGTTTTTAAAACTCCTGATCCCTAGCCCTGCTGGAAAGAACACACAACTCCTCTCTCATTCTCCCGATCTCCATGCACCCAGTGTTATTGTGAAATATCTCCACATATGCTTACTGCCGGTGATTCTAATGGGAGGTAAGATGAGTTGCCTAATTAGATCTTTTATGCTCTGATTGTCCTGTCCTCTTTCATCAACATGTCTGCATATGTAGTTATAATAAAATTTTAAATTGCCAAACAGTTGCCAGGCGGTGGTGGCACACTGCTTTAATCCCAGCCCTTGGGAGGCTTAGGCAGGCAGATCTCTGAGTTCAGGCCAGCCTGTTCTAGAGAGTGAGTTCCATGCTAGACAGGACTACATAGTGATACCCTAGCTTGAGAGACATGCAGGCAGGCAGGCAGACAGACAGACAGACAGACAGACAGACAGACAGACAGTGATAGTCTTTTCGACTTCAGGCCTTCCCCAGCTTTCCATTTTCTCCATAAAACCACAGGTAGAAAGTCCCTCAAGGTTGACGTCCGGGTGGTGGATGGATCGTTCCTGCTCTGATGCTGGCATTTCATGCCACTGCAGAACTGTGATGACTAAGGAAGAACTGTGACTAAGCTGCAGAGAAGGGCTGCAGCGGCAGAAGTGAACCTTGTATTTTCTAGATCCAGGCCGTTCTTCATAAGTAAGTAGTGCATCCAGGAGTGGTGGCAAATGTCTATCCTCCCAGCACTCAGATGTCGGCGTAATCACAAGTTCAAGGCCAGCCTGAGCTCTATAATTAATAAGACCCTATCATGAAAGAGAGGGAAGGAGGTCATTATCCCGGATTTAAGCTGGATTTCTTCTCTTCTCCCTCTTCTTAATGAGATGATATCTTGGGACCCTCAAACTCATGGATTAAAGTTAACTTCCTGCCTCCACCTCCCAGGTAGCTGGAAATACAGGTCCACACCACCACACCTCGTTTGGGCTGGATTTAAAGAAGAAGGGGTGTTTCTTAACATCTCCAGCAGCAACGCTCTGGTCTTTTTTATTTGGCAAATCCAGTCCTCCCACAGAGAAAGAAACTCTTCACCCAAAGGATGGTGAGCTCCCTCAAGGCACTGAGGGATTGGAAAATAATAAGGACTTCACGAAGACGAACAACGTGTGTAAGGCCCTGGTTCAGCACATTCCCTTCCCTTCCCATCTGTCAGTTTCCTGGTGGTTATTTATTCAACATTGACACAGTTTTTGGTTGCAGGCATAGTAGATTCTTGGGTCCTGAAAGCAAGCTCAGAGAGTACAAGGCACTTGCCATGAAGTTTGATGACCTGAATTCAGTCTCTGGGACCTACTCCCCCAAGTTCTCCTCTGACCTTCACACAGACTCCGTAGCAAGCATGTGCTCACCAACACACAATGTGCGCACACTCAATACATTTCTTTTAATGTAAGGGCACTATTTTTTTTTCTTGGTTTCTTTTTTGTTTGATTTTCGAGACAGGGTTTCTCTGTATAACCCTGGTTGTCCTGCAACTCACTTTGTAGACCAGGCTGCCCTTGAACTCAGAAATCTGCCTGCCTCTGCCTCCCAAGTGCTGGGATTAAAGGCGTGCGCCACCACCACCTGGCTACCAGTACTCTTCTATGTACCAGAGTTTGTCCTTGATTTCTGCTTCATTGTCCTAACCTTGGTTTCCTCACCTGTAGAATGAGGCATTAGCTGTTGGGAATTTTAGGTTCTCTCTTAGTTGTATCATCTCATTGTTTAAACTGAGTCTTTGTCAACTAGATTCCAAGTCAGTTGTGCTAGGTGCTGGAGCACTTAAAGCTCAGATGAGCATGTCCCTGTCATTTAGTGCTGAACAGTCTGTCATAATAAAGGTGTGGCAGAGGAAGGAGAATGTCCCTGATGCATCCTGATGCTTGAGAAAGAGACTCGTGAGCTGGAGAGATGGCTCAGCGGTTAAGAGCACCGACTACCCTTCCAAAGGGCTTGAGTTCAAATCCCAGCAACCACATGGTGGCTCACAACTACCTGTAATGAGATCTGATGCCCTCTTCTGGTGTGTTGGAAGACAGCTTTCGTGTACTTACATATAATAAATAAATAAATCTAGAAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGGAAAGAAAAGAGACTCGTGAGTTGTTCTGAGGCTGGAAGTTCTAGGATGGATAGAAATGAATGAATGGGCCGAAGCAGTGTGGAAGGAAATCTGCCATCTGCCATAGTAGACTATGCCATGTTTAGATGACTCCAGGTATGGCGTCATCAACGTCTGCGTTACTGTGTCCCACAGTAAGTGAGCCACATGTCCTGCAGGCTGTTCTGTTTCCCCAGTCTCCTCTGCCTCGGGTGAAGGCTGCCTTTGCTAATCCAGGCTATAAGACAGTGCTACCATCTGAAGAGATGGCTACTGAGCACTTCCTTGTTGTATAACTGAACTTTGGACTCTATTTGGCTCCTTTCGTTCTTAACGTGTTCCATCACGCCGACTTTGCAAATTGGGATTTCTTTGCTAGTGTCAGCCCATGAGCCCAAAAGGCCTAAGCAATAGACACTGAGAGCAAGCTCTTACCCTCTTATGCTCTTGCCTGTCTCTTGCCTCTTGCCCCCTTACTCCCACTTCCTTCCCCCCACTCCCACCCATGTGGCCATGGACGGCCTCCATTACTCTACTCTCTCCTTTTCTTTGCCTTTCTCTGCCTCTGTTACCCTCTTAACTCCCCTACCCATCCCCTGAATAAACTCTATTCTGTACTAAAAAAAAAAGAAATTGAGAGCAAATGTTTATTAAACAACATAACCACAGGTAGTTTGAGAAATACTGCTACATCAGACAAAATTCTAGAGAGGAGACTTGTGAAGTTAAATGAATAAATAACTGGACACCTTTCGTGTGCCACACCCTGCTCGAGGCCTTGAGAAATAATGTCGGCCTCTGTATGAAGAAAATAAAACCAGCTGCATGGTAGTGAGCGTGAGATGATCAGGGAACATTTCTCCTGGTTGGAAGGGCAGCTTGGCTGAGACCTGATGCTAAGGAGCCAGGAGTGAGAGGTGGGATGGGCAGCAGCTAAGTCTGCAGAATAAGTTTGATGTGACTCAAGGACCACAGTCTCCAAGGCCAACTGTCACAGAGGAGTGACTGAGGTTGGGGCTCACACACCTTCAAGGTGAACTACTTTCACTTTTCCTAAATGGGTCAGTTTCTTTCTTTATTGTACCTTTCTTCTCTATTTTTTTTTTTTTTTCAG
Seq C2 exon
AACTCTGAAGGCATGACGGTTTGAGCTCTCGTGCCCGCAGTCTGCTTCCACAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000042097-Zfp239:NM_008616:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.118 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
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:
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
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: