MmuINT0166947 @ mm9
Intron Retention
Gene
ENSMUSG00000039021 | Ttc16
Description
tetratricopeptide repeat domain 16 [Source:MGI Symbol;Acc:MGI:2443048]
Coordinates
chr2:32617697-32620488:-
Coord C1 exon
chr2:32620413-32620488
Coord A exon
chr2:32618526-32620412
Coord C2 exon
chr2:32617697-32618525
Length
1887 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
CTCCTGACACACTTTTCCAGTTG
3' ss Score
6.37
Exon sequences
Seq C1 exon
GTGAAAACCGCTCGCAGAAGGACATCCCTGACAGACAGCTATGCGGACCAGACCTCCTCAGGCTCCGTCTTTAGCA
Seq A exon
GTAAGTCCTTGCTGTTCCTGCTAAGCCTAGCAGAAAGCAACAGAGAAGCCAAGTACTGAGCATGTCCTAAGGTTCTGCCCTGGACAGCTTTGTCCCAACCCCAAGGGATGTGGTGGGGACCTAGTGGGATGGTGGCCAGCACAGGGCAGAGACCAGTCACCTGTTGGGCACCAGGTATGGGGAAGTAGAAGGGGCGGGAGAGATGACCGGAGTCCTGCCAGAGCTCGGAGAGACTGGTCGGGCAGATGCTGGGGACTGCCTTGTGCTCTCAACGCCGCCAGGTGGGCGTCTGGCTGTGGGAAGCCACGGAACCTCAGTCCTCGAGGGTGGAGAGGGAGCGGTCTGGGGTCCCTGGGTCTCACATAGTCCAGGGACAACAGATTCTAGCCCTTGGGCATCATAGGATGTCGCTGGACACCGCAGAAGAGCTGAGAAAGAAGTGGGGGCCCTGGAGGCGGCTCAGTCAGCCCCAGGGTTGAACAGAGAAAGGGCAGGGGGAGAAGACATTGGGTGGTTCCCACTCGGGTGAGAGTCTTTGGTCCGGTCTGGTGGCTGGTAACGTTGGGAGGCCTTCCCACGGGAGATTAAATGCGGCTCTTTAGGGGAAGGCCTATTGCTCCAACATGGCAGGTCTCAATGAACAGACAGTCCATGGTTTTAGAGCTTTATTGTAGAAAAGCAGAGAGAGAGAGAGACAGAGAGAGAAAAAGACAGAGAGAGACAAAGAGAAAGGAGAGAAAGAGAGAGAGGAGGAGAAGAGAGAGAGAGAGAGAGAGAAGAGGCTGTGGAGAGAGGGGAGAAGGGGAAGGGAGGGAGGGAGCAAGAGGGCTAGAGCGAAAGCAAGAGAAGCAAGAGAGAGAGGAGGGGCCAAGCAGCCCCTTTTATAGTAGGCTGGGCTACCTTGCTGTTGGGGCTGGGTAACTGTGGGGAGGAGCACACCTGGCTATTGTTAGGTAACTGTGGGGAGGAGTCTGGACAGCCTACGTGACTGATGGCCACAGAATGATGGAGCTGGGTCCTCATGTCAGGAGCCTATGTCTGGGAGCATGGAGAAGAGGCCTTCTGTCCCTTGCAGATTAATCTGCTGGGTCTCCAGGGTTTGAATCCAGCTCGACCAGAAAACAGGCTGCTTTTCACAGTCCCACCATCACCTTCAGGCCCTTCCTGGTTGTTACTATTTCTGCCTCTCCTTCCAAGGCCCGTTCTTTCTCTCTTCTCCTCAGTATGTCCCTGAACAAAGCCACATACCTCATACATATCCAACAGGTTTTGACTCCCACTTTTGCTATCACCAGCCAAGAAGGGATAAAAGAGTAAAGCAAGAAGGCTGCTCTCTAGCGTCCCCTGGTGTGGGGGTGACATCGACAGAAAAGGCTGTTCCCAGTGCTTCTTGGTGGAGGGGGCCAGAATTAGTCCCCTTCCTTTCATTTGGTTATCATCCCCTAACCTCCCCAAGGTAGGCCTGTACCAACCACTGGTGATGAGTGACTGACTCAGTCCTGGCCCCAGGAAGTGAATGCTAAGTCAGCTGGGGGGTGGGGTAGATGGAGGGGAGAGCAGCCAGCTGGGCAAATGGGAGTGGGGCTTAGAGGGCAGAGTGTGATTAGACCTTTAGAGGGATCAGGGTGGGCTGCATGAGCTGAAGGAAGTGCTGGAATCAGCTGCATATACAGAGTTCAGAGGCCTGTGGGAGAGCCCAGAGAGAGGGCAGGCTGACTCAGTACTGTTTGAGCAGCGTCTTGTCACCCCACAGCCCAGACATATTGAGAAGGTGGGCCTGGTGGGAGTTAGTAGGCCTCAGGGTTGTGGCCTGGAGGCTGTCCAGAAGTTCTGTCTTCCCGGAGCCGCCTAGAGAGGTCAGTGACTGCTCCTGACACACTTTTCCAG
Seq C2 exon
TTGTGAGCATCAGCACGTCGGGGCCAGAGATGTCAACCAGTCAGGAGTATAAGAGCTCTTCCCACACGGCTATAGAATCCTCTGAGTCCACACTGCTAAAGCCTCAGCTCTCAGTACCCAGGAAGAGCCAGGAACTGACCTGGAGCCCCAAGGTCGTCCAGGCAGTCACAGAGAACCTAATCCAGAACGCCACTGAGGTCACACCTGCCTATGGCCAAAGGGACTCCAAAAAGGCCACCCAAGTCCCAAAGCCCAAGAAGACAGAGGATCCCAAGGATCCTAGCCAGAGCACCAGCACGACAGAAGCCCCTGAGGGCCCAAGGCCTAGCAAGTCCAGGTCTACCCTGAGCGTAAAGGAGAGAATCAGAAGAGCTAAGGCTGTTCGCGCCCAGGGCTGGAAACTCAAGGCCCAGCGCAGCAGCCAGAAAGTAACAAAGACTCCCAGCCTGACCCACAGCACGACCCATAGTGACATTGGTGAGAGTGCCAATGATACCCCGGGCCAGACTCCATGGCCCAGCAAGGCTGCTGATAGCTTAAGCTTCAGTGAGATCTCGTCAACAGATCTCAGCAGTAGTGAAAGCTTCTTGGAACTGACTAACCTTTTAACTCAGGAAGTCCAACAGATCCCAGGAGACAGAGAGAAGCTCACCTCTGACGATTAACTACTCCCTCAAAGGGCCAATGAAGCCCTTCCTGAGCAATGAACAGATTTCAGCCAAGCTGCCTCCTCCCAGGACAGTAAGAAACTTTGGTCAATGTTCTAATACCAAGGCTAAGTTTATTTAATCTCTGTTCTCTTGTACAAAATTAAAAACTTTGAAATTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039021-Ttc16:NM_177384:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.723 A=NA C2=0.928
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
CTGACAGACAGCTATGCGGAC
R:
GGTGCTCTGGCTAGGATCCTT
Band lengths:
342-2229
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: