MmuINT0178661 @ mm10
Intron Retention
Gene
ENSMUSG00000063488 | Zkscan7
Description
zinc finger with KRAB and SCAN domains 7 [Source:MGI Symbol;Acc:MGI:3040678]
Coordinates
chr9:122888471-122890806:+
Coord C1 exon
chr9:122888471-122888949
Coord A exon
chr9:122888950-122890658
Coord C2 exon
chr9:122890659-122890806
Length
1709 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TCCTCGTCTCTAATCTCTAGGTC
3' ss Score
10.57
Exon sequences
Seq C1 exon
GCAGTTTGAAGCAGAGACTCATTTTCAGTGTGCCTGCTGTAGCTGGAACCAGCTTCTCTTTTGGGATCACAATGACCATGGAAGGCAGGGGGACATTAGATATCATCCCCAGGACTGCCATGTATCAGAAGCAGGAGGGGAACTTGACTGTGAAGCAGGAACCAGGAAGCCAGACATGGGGACAGAAGAACTACCTTCCCGTCTGTGAAATATTCCGACTGCACTTCAGGCAGTTGTGCTACCATGAGATGTCTGGGCCTCAGCAAGCCCTGAGCCGGCTCAGGGAGCTCTGCCACTGGTGGCTGATGCCAGAGGTCCACACCAAGGAACAGATCCTGGAACTGCTGGTGCTGGAGCAGTTCCTGAGCATCCTGCCCAGGGAGCTTCAGACCTGGGTACAGCTCCATCACCCTGAGACTGGCGAGGAAGCTGTGGCTATGGTGGAGGATTTCCAGAGACACCTTAGTGAGTCAGGGGAG
Seq A exon
GTAAGCAGTCAGTCTATAGGAACATCTAGAGCCACTCTCTAAACTTGGGCTAGCCTGAGAGCAAGTATTCACCATTCCCCACACTTTTGCCTGGTTTGCCTTTAGGATTCCTGAACTTGCTCCACTGATAGATGGAAAATAGTTTTCTGCTATAAGCCATAGCAGAAACACAAATCCCAGCACTCTTAGTCACTGTTTTATTGCTGCAGAGACACTGTGACCAAAGCAACTCTTATAAAAACATTTAATTATGGCCTTGCTTCCAGTTTGTAGATGTTAGACCCTTATGGCAGGGAGCTTGGTAGCTCATAGATTTATGTAGTACTGGAGAAGTAGCCGTGAGCTCTATATCCTGACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAACTGAGAGACTGAGAGACTGAGAAACTTCAAAGCCCACCCCAGTGGCACCTTATCTAACCTTTTAAGTAGCACTACTCCCTGGTGACTACGCATTCAAATCTATGAGCCCGTGGGGGTCATACAAGCCAAGGTCTAAGTCAGGTGTGTTTCTGTGGAGGGGAGGTGCATGTGCAGGGGTGTGTACAACCTCAAAGTGTTGTTCCTCTGGTGCAGAAGATCTCCCTGACCTGAATCAGTGGTTAGGCAGGTTCCTGGCCTATGATCCCTAGGGAGTCTATTATGCCTCTCCAAGGCTGTAATTACAAACATATGCTATCATGCCTGACTTTTTAACATTAGTTCTGGGAATCCCATCGTAGGTTGTCATGATTGCATGTAAAGCACTGTACTGACTGAGCCAACTCCCCAGTCCTGGTTGGTTCTTATAATAAGTGCAGAGGAAAGCTCTTTAGGATAGTAGCTGTAGATATAGGCAAAAGATAGAATTTAATACACTGTAGTAACCTAACCTTCTGATCTGCTGGCAGTTAAATCCTGCTAAAGTTTGAGTATTTTACCTAGGACTCAGGCACATGGGTTTCTTTCCCTTAAACCACCACATGAACCATTTACAGGCAATAAGCCTCATTAGAGACACACATCTCCGACAGTTCTGCTTTCCTGCGTGAACATGGATATGTATGGCTGTTTTGGGGTTTTTCGAGACAGGATTTCTTTAACCAGGGAACCAGAGGTTAGGCTAGGTTTCTGACCTATGACCCCTAGGGGATCTGACATAGACCTAATCAAGGCTAAGTAGGCCACTTAGCCCTGTGGTTCTTAGAAAACAGCTTTTGCAAAGTGTCATAATTCTTACACACAAACATAGATACAAAGTGGCTGGTGCCTAAGCAAGAGAGACAGCTGAAGTTGTCCTCCAGCTCCTACACACTTGTGCCGATGCACCTGCACGCACGCACGTACATACCTACATTCATACACACAAGGAACCATTCAGTAAACTTGGGAACTAAGGTCCTCAGGCTAAGCAGTATTTACCACCTGAGCTATCTTAATAGCTTCACGTGGTTCTTAAGCTAATGTACCTCCAAAGACCTGTCATGGTGGAGCTGGCTATCGCATCTGCTCTTCTAGCTCCTACAAGGAGAGTCTGGGGAGGGATGGCAGGGAAGATCGCAAGCTTTGAGATTAGTGGAAAGATAGTCCGGTCCTTCATTTCCTTGGCCGTTTTCCTGTGTGGGTGTCTTTGAGGTCTGGGCTCTCTGCCTTCAGAATGCACTTAGTACCCAGTTCTTTTTCCTCGTCTCTAATCTCTAG
Seq C2 exon
GTCTCACCTCCAGTACAAGAACAGGATGTGCATTTAAAGAAGATGGGAGCACTGAGTGCAGCTGAGCAGTCGCCTACCTCAACCTCCAATCAGGGCTTGGCCCCTGGTGCACTCTTAGATCCTCCCTGTGACCCAGGAGCTGGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000063488:ENSMUST00000063980:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.153 A=NA C2=0.940
Domain overlap (PFAM):
C1:
PF0202312=SCAN=PU(96.9=68.4)
A:
NA
C2:
PF0202312=SCAN=PD(1.0=2.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
CCATGAGATGTCTGGGCCTCA
R:
ATCTAAGAGTGCACCAGGGGC
Band lengths:
358-2067
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