MmuINT0157263 @ mm9
Intron Retention
Gene
ENSMUSG00000039678 | Tbc1d13
Description
TBC1 domain family, member 13 [Source:MGI Symbol;Acc:MGI:2385326]
Coordinates
chr2:29995995-29997941:+
Coord C1 exon
chr2:29995995-29996077
Coord A exon
chr2:29996078-29997781
Coord C2 exon
chr2:29997782-29997941
Length
1704 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CATTTTTTCCATTCCAATAGGAG
3' ss Score
9.28
Exon sequences
Seq C1 exon
CCTCTGAACCCAAACCCTGACAGCAGGTGGAACACATATTTTAAGGACAACGAGGTGCTACTCCAGATTGACAAAGATGTCAG
Seq A exon
GTAAGAGGCTCCCAGGGGCTTCTGCTGCTGGGGGCCTGCTGCGGGGACTGGGGGAAGGCTCTGTGGGGTTTGTGCCACAATGTGCTGGAACCTATTTGTCTGGTTTAGTTGTAGCCTCCCCTCAACTATTTGACTTTGTGCAGGTGACCCAGGCTCTCATGCATGATTTATCTGGAAGTAGAAGTGACATAGCTCAGGTTAAGGGTGTGTGCAATATAGGAATGTTATGCTGGCTATAACACAGGACAGCGGCCTTTGAAGAAAGGCCCTGGGAGCCAGTCCCTCTCCTCACTGAGCTGCCTGCCTGAGTCCTCTCTGGCACACACTCCTTGTTTAGACAGGAAAGTCATGCAGAGCAGACTCAGCAGCATTTCACGGAATCTCTCTCAGGCCCAATTCTGCCTGCAGTGGCACAGGCCAATTGCACCCATGTGAGGAAGGCTGGAGGCTTATGTGAGGAGTCAGATAGTCAACCTGGCAACACCTATGGGATTGCAAAGGTTCCCAGTGCTGTGGGGAAGAAAAGCTGGTGCTCTGAGAGAATAGGAGCCTCAGTTTAGAGGAGGTGACCTTGCAGGATGTGCCGGTCATGAGGAGAATGGGAAGAGCTTTCTAGCCTAAGGAACTGATGCAGGAGTACCCTGAGGCTTGGGGTACCGTCCAGGAATCCTCTCCTTTAGCTTTCTGAGTGCCACTTCTCTGTCCAGATCCCTTCCAGATAACCTCTGGATGCCAGGGGGCAGTCACCAGGCTCTTGCTGCCTTTCTGCTCAGACTGGCGTTGGAGTAGCCCTGCCCGTAATATGATCTGGGCCAGGTTTAGGTCAAGAGTCCCATCCTGTAGTAGTTTTGTGGAGGAATTAGGGGCTCAGGTTCTGTCTTATTGGTGATGGCAGTAGGTTGTTAAGGTTTCCCAAGGGCCAGGAAGCAGTGTGCTGGGCCTAGGAGCTTTGAGGAGTACATGTGCATGCCTGCCCTGTCACACTCCAGATCCAAGCCGCCCTCCTAATGTTCCATGCATCTCTCCATGCCAGCAGAGGACGTTCTGTGATAAATGACCACAGGCAGGCCTTATACATTGCATACATCTAGAGACAGATGGGTGGAAATAGATGATTCTCTTGTTGGGGATTGAACTCAGGACTTGACCCTTAGATCCACACATGCCAGGCGAGTGCTCTGCCACCAAGTGGCATCCTCAGCTCCACACAAGAAGTCTCAAGAAGTGTCTGTGGTCTGTGAGAATTTGGCTGTGTGCCATAGAAACACTTAAAATATTTACACGTGTTCCTTTTCACAGACACATATGAAGTAACTGTGCAGATGCCATTTCTACTGCCTTTTTAAAAACTGGTTCTCTTGGGAAAACTATTATTATTTTAGTTTTTTGAGACAAAGTCTCACACTGTGTGGTCTGGAGCTCACTTTGTAGCTGAAGCTGGCCTTGAACTCAGGGCAATCCTCCTGCCTTAGACCTCCCAAGTACTTGGTTACATGTGTGAGCCACCATACCCAGCTGTGATGTTACAATTACAAACAAGCAAACCGTTGAAGGGGTAAGCTTAGTGGTAGAGCACTTGTCTAGTGTGGACCTAGGTTAGTCCTCAGCACTGTAAAATAAGTAGATCAACCATTTCTTAGGATACCTGGGGCTGCCTGGCTGGAACCTCCACCCTGAGTGATAGCATTTTTTCCATTCCAATAG
Seq C2 exon
GAGGTTGTGCCCAGATATATCTTTCTTCCAAAGAGCCACTGAGTACCCCTGCCTGCTCATCCTGGACCCGCAAAATGAGTTTGAGACCCTTCGTAAGCGGGTGGAGCAGACGACACTGAAGTCTCAGACGGTGGCCAGGAATCGAAGCGGGGTTACAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039678-Tbc1d13:NM_146252:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.259
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
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTCTGAACCCAAACCCTGAC
R:
GTAACCCCGCTTCGATTCCTG
Band lengths:
239-1943
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: