MmuINT1007686 @ mm10
Intron Retention
Gene
ENSMUSG00000028199 | Cryz
Description
crystallin, zeta [Source:MGI Symbol;Acc:MGI:88527]
Coordinates
chr3:154604892-154606531:+
Coord C1 exon
chr3:154604892-154605015
Coord A exon
chr3:154605016-154606378
Coord C2 exon
chr3:154606379-154606531
Length
1363 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGAT
5' ss Score
3.56
3' ss Seq
GACGAGTGTTGTCATTTCAGGTC
3' ss Score
6.61
Exon sequences
Seq C1 exon
CCTCTAGGTCGCCATGGCAACTGGGCAGAAGTTGATGAGGGCTATTCGAGTGTTTGAGTTTGGTGGACCAGAAGTGCTGAAGCTCCAGTCGGATGTGGTCGTGCCTGTTCCACAGAGCCATCAG
Seq A exon
GTGGATACAATCATTGCCGTGGCTGACCAGAGCAGGGGCACAGTGAGCTACAGTTACTGAAACAGGGCAGTGTTCTCCTGTCTGTGTGAACTCTGAAAAAGTAAGGCACATGATACTTAGTAAAGTAGACACTTGAAAAAGAATAACTTCTGGCTACAAAGTTTCTGATGTGGAAAATCAGCTCTGTAACACAATAACAGAATCTTACTGCTATCATGGGAACTCTGCATAAGTTCTGCTGGTGGGAAAGTAGTTTCCCCTCTGCACTAATGCTTGGTCAGATTATACTTAAGGGAATTCAGCTGTGGAATTTAATTGTCTCTAGTGACTTTTATCAGTATCTTTTGGTACACTTATTAAGGCACGTTCTATATCCCTTAGTCTAATATCCTTTGAAGGCCTAATATGATTTTTTTTAATTTTATTCATAGCTCAACTTTCCAGGTTCATTTCTTATCACCCTCTCAGAGATTTTAATAACTTTAAGTTTATCCCGTTTCCCCAAGAGACTCTCACTCCATCTTTGTAAATATCTCCCCAATGAGCAAGAACTCAAATGGAACAGGAACCTGAAGATGGAGCTGATGCAGAGGCCATGGAGGAGTTCTGCTTACTGGCTTGCTCCTCATTCTTGCTCGGCCTGCTTTCTTACAGCACCCAGGACCACCAGTCTAGGGGTGGCATGGCCCACAGTGGGCCTTACACATCAATCACTAATCCAGGCCTACCTATAGTCCTATCTTGTTTGTGCATTTTCTCAATAGGTCCCTTCCACTCAGATGACTATAGCTTGTGTCAAGTTGATATAGAATTAGCCAGCATAATTCACCTGTGGTGAGCTTGACAAACACATCACTGTTAACCCACAACCTTTCTTGTTCATCCCCAAGACCACAAATCAATGTCAGCATCACATTATGAAATATTTTGCAAACTTAAAAAGTCCTGCAATCTTTAATAATTCAAACACTTTAAAAATCCAAAGTCTATGTAAAACTTAAAAACTTTAAAAACTTCAAAAAAGTGGAGCATCTTTTGGGTACATGCCCAGGAGTGGTAGTAGTCTTCAGGTAGGACTCTTACCAATTTTGTGAGGAAGCACCAGACTGACTTCCAGAGTGGTTGTACCAGCTTACAATCCCACGAGCAATGGAGGAGTGTTCCTCTTTCTCCACATCCTGAACAGCATCTCAACCTTACTTCCTACTGCATGCAGACTTAGAACACAGGCTTGCTAGAGGCAGGGGCTGGCTTGGTCTTGCTTTATTGTCTTGGTTTCTCCAACTCCATCAGTTTCCACACAGCACTATTGTAAGGCATTGTTTCAGTGCTCTGTACAAACTGACGAGTGTTGTCATTTCAG
Seq C2 exon
GTCCTAATCAAAGTCCACGCCTGCGGTGTCAACCCAGTAGAGACATACATTCGCTCTGGGGCCTACAGTCGAAAACCTGCCCTACCCTACACTCCAGGCTCTGATGTGGCTGGGATCATAGAATCCGTTGGAGACAAAGTGTCTGCTTTCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028199:ENSMUST00000029850:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.004
Domain overlap (PFAM):
C1:
PF082407=ADH_N=PU(2.1=5.4)
A:
NA
C2:
PF082407=ADH_N=FE(51.5=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTAGGTCGCCATGGCAACTG
R:
GACACTTTGTCTCCAACGGAT
Band lengths:
264-1627
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