MmuINT0177499 @ mm9
Intron Retention
Gene
ENSMUSG00000079173 | Zan
Description
zonadhesin [Source:MGI Symbol;Acc:MGI:106656]
Coordinates
chr5:137883255-137885204:-
Coord C1 exon
chr5:137885110-137885204
Coord A exon
chr5:137883432-137885109
Coord C2 exon
chr5:137883255-137883431
Length
1678 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
CACTTTATCTTGTCCTTCAGGGC
3' ss Score
10.42
Exon sequences
Seq C1 exon
CTGCTTTCTAGTCGGGGGCAAGCCCTCCCGCTGCGCGGACAGCGACATGGATGATGTCTGGACTAAGAAATGTGCCATCTTGATGAACCCTCTTG
Seq A exon
GTGAGAGACATCTCCTCCCAGAGCCCTTTGTCCTTAGCCCCCTGGGCATGACCCTATGCAGTTATGATGGGAGAAAGTCAGAGTAGAAGCAGATAAAAAGGCAGGGAGGCCAGCAGGAGTACAGAATAGCCAAGTGGTTATCGTTTTAGGAGCCATAACTGATACAGCCATCATAGACATAGTTTCCCAATGCATCTGGGTTTTGTCATTGCTGTTTTGTTTTGAGACTCGATCCCAGGTATCTCAGGCTGGCCTTGAACCTACTGTGTACCCAAGGATGCCACTGAACTTATTATGATCTTCCTGCCTCTACCTCTCGAATGCTTGGGGTTACAGATGTTCACCACCACATCCAGTACATGTGGTGCTAGGGATCGAATCCAGGGCACGCCAAGTAAGCACAACTAGCTCCATCCCCAGCTCCTGTTTATTTTTTTCAGATAGGGTCTCAGTTTTAGCCCAGAGTGTTTCATGTAGCTCAGGCTGGCCTTAAAATCACGGTGATCCTCCTGCCTCATTCGCTCAAGTGCTGGCGTTATGGGCCTGTGATACCATGTCTGACTACATCCAGGCTTCGATGCAAGTGGATATTAAGTTAGCTGTGGAGGAGCTGAGAAGATAGATCAGTTGGAAAGTGCCTGTCTTGCTAGCACAAGACTTTAGTTTGAGCACTAGAGCCCAAATAAACTGAATGTGAGGCTGGAGAGAAGGCTCAGGGAGAAACGGCATTTACCATCAAACCTGGTTTCAACCCTTGGGACTCACAGGGAACCAACTCCAGCAAGTTGTCCTCTGCCCTCCACAGGTGTGCTGTGGCATGCATGCACCCTTCCCCACAAAGTGATAATAAACAAACAAACAAACAAACAAACAAACAAAACAACCATCCAGGCATGGTGGCACACATGTGTGATCCCAGTGTTGAGAGAACAGAGACAGGTGACTCCTTGGCGCTCAGGTGCTAACAAGCTTAGTTAAGGTAGTGAGCTCCAGCTTGGTCAGTGAGCTACTGTGTCTCAGAAATCAAGATGGAGGACTGGAGAGATGGTTCAGAGGATACAAGTGCCTGCTGCCATCATGTCTAACAACCCAAGTTTTATCCCTAGGGCTCAGAAGGTGGAAGGAGAGACCTGAATCCTGTGGGTTGTCTTTTGACCTTTGCAGGTGTGCTGTGACACATGTGCCTCTACACACACACACACAAACACACACACACAGAGGTGGGGCCAATAAGATGGCTCACCATGTAAAGCTGCTTTCTTCAACTTGAGTTGAAACCCCAGAATCCATGTACATTTGGAGGAAGAACTAATTCTACATAGTGGTTCTCTGACCTCTATATGCCATAGCGTATATGCCTGTGCATACATATTATACACACACACACATGCCATACATAACACATGTGCCCACACATACATACATACATACATACATACATATTATATGCAGAAATAATAATAATAATAATAATAATAATAATAATAAACTCAAGGTGAAGGTGTCCTCTGGTGGTCTCTGGTACACATCCACTCACCTGCGCGCACACACACACACACACACACACACACACACACACGATACACACATATCCCCTAAATTAGCTGTACAGAAGCTTCAAGGCCTAGCTTGCTCACTGGGCTCACCCTCTTCTCCCACACTTTATCTTGTCCTTCAG
Seq C2 exon
GGCCTTTCTCCAATTGCCACGAGGCGGTGCCCCCGCAGGCCAGCTTCTCCAGTTGTGTGTATGGCCAGTGTGAGACCAACGGAGACAACCTAACCCTCTGCCACTCCCTGCAGGCCTATGCATCTCTGTGTGCCCAGGCCGGCCAGGTGACTACCTGGCGCAACAGCACCTTCTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000079173-Zan:NM_011741:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTTTCTAGTCGGGGGCAA
R:
GCTGTTGCGCCAGGTAGTC
Band lengths:
262-1940
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: