MmuINT0007038 @ mm10
Intron Retention
Gene
ENSMUSG00000053297 | AI854703
Description
expressed sequence AI854703 [Source:MGI Symbol;Acc:MGI:2141510]
Coordinates
chr6:48630172-48633689:+
Coord C1 exon
chr6:48630172-48630315
Coord A exon
chr6:48630316-48631539
Coord C2 exon
chr6:48631540-48633689
Length
1224 bp
Sequences
Splice sites
5' ss Seq
TCTGTAAGT
5' ss Score
7.96
3' ss Seq
GTCTCTGCTTCTGTGAACAGATA
3' ss Score
9.21
Exon sequences
Seq C1 exon
CATGTCAGACTTGAAAGCTACTTGGAGAAGGTCACTTGCCACGGTTCCCAGACCCAAGCTCGGTCCCCAAAGCCTCAGCCTCCTGTACCCACTGCCTGGTGGCCTTGAGAAGCCATTCCACTCCATGTCTCAGTTTGCTTATCT
Seq A exon
GTAAGTTGGAGATGAAGATGAAAAACCTTTACCTTTTCCCTGGGGTGCCACGAGGCTTCACTGTTATCAGAAGGTGAAGCCATTTGTCTGGAGTTACTTAAGAAGTCCACACTCATGCCTGGGACAGGGTGTAGGGTATCTGCACAGAGATATGGGCTACTCTGGGACAGCCTGCTCTGAGTTGGGATGGTGTCTGGCTTTACCTAAGGGGCTTTGATGGCTTTGTCCTTAGTTCTAGAGGGACAGGATTTCTGTAGGGAGAGTTGGGAAGCAGAAGGATGGGTTCCGGACAGCAAGGACTAGGATTTGTTCAGAGGGAAGGTACACCAGACATTTGTCATGAGTGCAGGGAGCACGGATCTGTGATTTAGAATGAGAACAGAGGCCCTGGGAGGATGGATGGATGCACAAAGCCTTGAGGCTCATTCAGGTAATGAGAAGGGAGGCCTCAGTCAAGATGGCCAAGGTCGTCTGGTAAGACTGCTAGCTAGGGCTTGCTTGAAGACCCATGTTTACAAGTTGTCACTCGGAGGTACTGGCCTTTTCTGCCATTTGACAAACAAGGAAACCACGATTTGCCCAAACTTGTTCCAAATTACAGCAAATAATTAGCGTCACTATAGCAGGTCAAGTCTGGGCTTTGGTTTTTCATTTTGGACCTGAAAACACGTCAGCTCTATTGTTGAATTATTGAAAATGCAGCTGGGAGAACCTGGGCATGTGGCCAGGGGCCGGGTGATAGGCTATCATGGGCAGGTTATCACTGGGTTTGACAGGTGCAGGGATATGAAGTTAGGAAGCTGCGACCTCTGAGCTGGCCTCTGTTCCCTGAGCCCTTGCTTCCAGCTAGGCCCGTGCTTGGTGCTGGAGGCTGTTCATTGCTTTTGCTCTCTGTCCCACCTCAATGCCATGCGCCTCCTCTGGAATCACTTCTGCCTGAGATCCCTGGGGGTTATTGTAATATTATGGACTAGTATTTAGTGACAGAAAATATTTAACAAGATCCTAGTTAGTCACTCAAGTACCCAGACCCAAGGCATGTCGGGTGTCAACAGGCTAAAACTTGGCGGTGTTTTGTTGGGGAGTGGTAGTAAGAGGGTTCTCTTAAGGTCCCAGATAGACCAAGAGTAGGTCAGGTGAATGTACCCATGTAGTCCAGATGGGCTGGTAGGCAAGGCCATGCTACTACAATGTGCTGACCATAGTCTCTGCTTCTGTGAACAG
Seq C2 exon
ATACGAAGCCAACAGGACCTCATGGCCCAGAACCTGCAGGGCGCATCTGGGCATGGAAACTAAAACTGGAGTCTCGTAGGTCCTGGGTTCCTGACCTGAAGACACGTCTCCTCAGAAGTCCTACCTCTGGAGGTGCCCTGTGTTGGTAGAGCATGGGATTAGAGGCTGATTCCATGCCTTGGTGGGAAGACTCCCCAGATCTGACTTGTCACAGCTGGGCAAGCCTCATTTGGCTTCCTGATCCTAGACCTCAGCTCGGGGGTGGAGGCAGACATCACCTGTGTGGAGAAGTGGCTTCTCTCCTCCAGCCTGGCTCAGCCCTTGGTTGAAGGGCAAGGACAAGGTGTGACTGTTGTGTACCGTTGCAGCAAGTTGATGGCAGACTGGGCTCAAGAGGCAAAACTTCCCTGATGACATGGAGAGCACGTGAAGGCTTCCATGCCCGTTCCCAGCTAGACAGGTGACTGCTTCAGGGGCTTGTGGCCCTTTAAGTGGAGGCTGTGGACCTCGTCCTAGAACTCGCGTACTCATGGAACTCTCAGAGTGCCAAGCAGTTTCAGGAGCCTCTGGACTCCAGCCTAAAGACCTCAGCCCTGGGGAGTCCATCTTCCATCCTTTCCCTACTCCACACAAGTGTGACGCTCTCCTGGTCTCCTCTTGTTTGGGAATAAAGAATTCTGAGGCTGAGCCCCTTTTAGTCCATCCAATCCCTTTCTCTTCAATCTGACAGCACCCCAAATTTCTGGAGCCAGGCTTCCCTCCCCAGACACTGCCCAAGACTGACTCCTGGGCTTGGTTCCTTTTCCCTGTTTTGTGTCGGACAGGATGTAGGGTTTTACAGTGGAGCCCTCTGCTTGCCTTTGGCTCTAACTTCCCTGTGGAGTCTCAAGGGAAGGTTGGCCTGCTGAAGGGATGGTAAATAATTTTCTCTGTGTCTGTTCCTCGGGAAAGGAATCGTACTTCCACTAGCCATATGCAAACAATTGGACCTCCTAGCTGGGCAGGCTTGCAGCTCCAGGCAGGTATCACCTGGGAAGGTGGGGGTTGCAGGGCACCAGAACCCTGCACATGGTGGGTCTAAGCAGTGGGAAAAGCCAGTGGAGGAGTTGCATGTGTCTCCTAAGTAAGCAGGGGTACAACTTGGAGATGAGGGTCTTGGGCCACTGCTGGTCAAGGACTCATATCCTTACATATTAGCCCGTCAGTCGAGAGCCCACAACTGTCTCCCTCCCTTCCTAGAATGAGCCACTCATTAGGAAAGGGGGAGGGGCTTTCTTTTCTATCAGGACTTGGTAGAAACCTCTGGATTCCTGACTTGGGGTCTTACTGCCTGCATTCCCCATGCAGTTTGGGTTACAAGTTCCTACTGAACCCCTATGCCTTATTCTGGGGTCACTGAGTACTCAAAGAGATCAGAGAAAGGGAAGGCGCTACCCATACCATGGGAACTTCCATGCACCCTCTTTTCTAACTTAGGGCGACTTTCACCATGCCTCTCAGCTAACTGCCCAGCTTGTCTCATCCCCACTGTAACTGAGCCATGCCTTCCCTTGTCCTGCTCTGAAATGTTCTTCCCCTAGCCTCTAAACCCACTTATTCACCAGGGCCAAGCCTCTCAGCCTACCCAGCCCATGTTCCTTAACAGTCCTCGTGTTAATACATGGTGTCTCCCTGAGTATCATGTGCTGTTTAATCTTGTGCTTGTTTCTTCTGTGTTTGTGTATGTATACGTGCTGTGTGTGCCCGTGTGCACCTTGAGTCCCCAACTAGACTGTGAGCTCCCTGAGGGCAAGGGGCTGTCATTTCTTCTTCAACTTCTAGTGGGTCTAGCCCAAGAACCTCTCAGAAGACAACTGGATGAAACACATGCTGGAGGTCATCTGAGGTGGAGGGTTGTGTGCATGGGGAGAGTCCACATGGCTTAGCAAGAGGTCTATGCTGTTGGGCTATGGCCTGACCCCTTGGATCAACAATGGATGCTCAAGGTCTCACATCCTTGCAAATTGGAGGTAGTAGAAACAGGAGGGACACCCCCTCCCCCAACACAGATAGACCATGGCTACACCGGAGTGCACATGAATGGTTGGATATTCCCAAAGGTCCCTGATATCTGTTGGAGGAGGTGACTCAAATAAATGTTCTCTACAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000053297:ENSMUST00000154570:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
GGCCTTGAGAAGCCATTCCAC
R:
GAAGCCACTTCTCCACACAGG
Band lengths:
342-1566
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