MmuINT0023894 @ mm10
Intron Retention
Gene
ENSMUSG00000026805 | Barhl1
Description
BarH-like 1 (Drosophila) [Source:MGI Symbol;Acc:MGI:1859288]
Coordinates
chr2:28907679-28911564:-
Coord C1 exon
chr2:28911342-28911564
Coord A exon
chr2:28909923-28911341
Coord C2 exon
chr2:28907679-28909922
Length
1419 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GTCTTGATTTCGGTTCCTAGGAC
3' ss Score
9.01
Exon sequences
Seq C1 exon
TGAAGGAGGAGGGCGACCGCGAGATCTCCAGCTCTCGGGACAGTCCCCCGGTGCGCCTGAAAAAGCCACGCAAAGCACGCACCGCCTTCACCGACCATCAGCTGGCGCAGCTGGAGCGTAGCTTCGAGCGGCAGAAATACCTGAGCGTGCAAGACCGCATGGAGCTAGCCGCCTCGCTCAACCTCACCGACACGCAGGTCAAGACCTGGTACCAGAACCGCAG
Seq A exon
GTGAGGTTTCGCTGTGGGGCGGGATCGGTTGGGCGCTTCTGGAGCCTTGGGTCGCCCCCAACCTGCAAAAGTTGGGAAACTGAGGCTCTGAGAAAAGACTCACTGTGCCCTAAGTCCCACAGTGAGGGGCAGAAAGGACATCAGCCTGGAATCCAGGACAGGTGGACCTACACAGAGAGTTTCAAGCCCTGCTCCATCTCAGCCCAAGTCCCCAAGGACAGCCCCAGGCTTGGCATTGAGGCTTCTGGGCTCTTGGAATGGAAGGCCCAAGCCCTTCGGGGAGAGTGACAGCCCCAGTCTCCAGAAAGCAGAGAGGTCCCTGAGGTGGTTGTAGTAGGAGCCAGTGGTGACTGCTTATATCTCAGAGCATTTCTTCCCTGGACCTCCTAGCACGGACAGCCAAGAAGGGGCTCTCTGCCTCACGCCAGATCCTCTGGGACAGAGAGGAATGGGAAACTGGTATTAAGACACTGGTCTTGAACCTGCTTCTTAATCTCCTTCTTGGACATTCATAGGACTTAAATAGATATGTACACCATACGTACACAGACAGCATAGTGACCCACACTTCCCACATACATAGCAGAGGCAGGAATGATGCCTTCCATAAACAAGCCTCAGAACACACAGCCGCATTAATAATAAATACCGATTACTGCTTCAGGCATCAATAATTAAGGCTCGTTGCAGTAATTACACAATTATGATGATGATGAATTATTCAGGGGGGTGGGGACAGGGCTAGTGTGACTGAGCCCACCTCAGCCTCACTGGAACCCAGGCAGGCATCCCCAACCTCACTACAGGTGGGTATAGAACCTTTAGGTTTGACTTCCTCAAACCTTGCCCTAGGCCTCTCAACTTCTGGGCCAAGTGGGGCTCCGGGCTATCCCACCACACGCTGGGAGAGTGTGGGTAGGCTGGGAGAGAAAGAGTGTACATTCCTTTAGAGAAATCTTCGCTTGCAGACCCAGCCTACTTGCTTCAAGTCCGAGCCTCTGGGGCTACATGGGACTGGGTAAGGGGTAAGGGTGGGGCGGGACACAGGCTACCAGTAGGTAGCTCCACCACTTTCATTAGGGGGTCTTCCCAGGGCAAGCATACCCAGGAGCCCTACCACAGGAGTTTGTAAGTGCGCTTGGGAGTCAGACAATCTGGCTTGGAGCAGGGGCTCTGCTTGCTACTTTGCAGATCGTCTTGAAAACTAGAAATACCTCAGGCTTTTAATCTGTAAAATGGGGACAAAAGTCATGGAAAGTCAGTGGAAGAGTATGTTGCATTGTGTATTTGACATGGATACTCCATTATTTATTAACAAGTTAGCATGCTCCCCGTTGGCCATCTCGCGGCTCTCGGTGCCAATCACTAGGAAGGGGTAAAGGTTGTGATCCCTTCGTCTGTCTTGATTTCGGTTCCTAG
Seq C2 exon
GACTAAATGGAAGCGACAGACGGCCGTGGGGCTGGAGCTGCTAGCGGAGGCAGGCAATTACTCGGCGCTCCAGAGAATGTTCCCGTCGCCTTATTTCTACCCGCAGAGTCTGGTTTCCAATCTGGACCCCGGTGCCGCACTCTATCTGTACCGCGGACCCAGCGCGCCACCTCCTGCCCTTCAGAGACCTCTGGTGCCCCGCATCCTCATCCACGGACTCCAGGGCGCCAGCGAGCCGCCCCCGCCGCTGCCCCCGCTGCCCGGCGTCCTCCCGCGCGCCGCGCAGCCCCGGTGAAGCTCCCGCTTGCCCCAAACCATGCTCTGGGACCCCCAGCTCAGGCTGGGCGTGGGTCCCTCCCTTCGCCCCGGGGCAGGGCTGCTGGGCTCCCCTCCGCAGCCCAGTGTCCCCGTGTGGGAGAAATTCACTGAGGCTACCCCTCCCCTACGTCCTCTCTCTTGGCTGCTCCATCCAGGAGCTACTTACACTCGCCGGATGTACATATGCGTCCTTGCCCACCTCTCACCAAGCCCCGGATCCTTGCGGACTTCCCCAGGTGCCCCCTGTCCCCTCAGCAGCAGGTAGGGGACGCCGGTGTCCCAGGCCTGGGGCCCACCCTTCTTGCACCTCTGCGGGACAGAGTGGGAGCGCTATACGGAGCTTCCCTCCCATTTCCTTTATTCTTCCTAAGCCCCGGGCTAGCAGCGGAGCTGTACATACAGTGTGCAAAGTGTATATGAAGTTATTTATTCGTGACCCATGAGCCCGTGACCGTGTCAGTGAATCAGTGAGTCTGTGGCCTGTGCCCTCCCCATCCCGGGTGGGCAGGAAGGGGCCAAGAGGGCTTGCCCACACATCCTGGCCCCCAGTCCCGCTCCCTCCACCCAGGTCCCAGGGCAGCCAGACCTCTTGGGTTATCTTTTTTTAAATGTGAAAATAAACTTCTTACAAATGACTAGGCGCCTGTCCGCGCTACCTTCCGTTGGCTCCCGCTCAGGCCCTCCCCACTCCTTCCTCCATAAATAACTTTGGCACCTCTGGAACTACAGATCCTTTCACTGGCAAGAAGAGGGAGAATTCGTCTCCCTCTTGTCCCGTTCCCCAGTTCCTGGGTGTTGTAGTCATGCTTAGGAGACTTGGGCTGGACTCCCAGGGGTCTCCCCGTTTCCACCCCGAGGCTCTTGGCCTTCTCATCTGATTTGTCCCGTTTCCACACGGTCTTAGGAGGTCACGGGCGAGGCCAACGCTCGGCCTCCCTCTGCTGCGCGACAGGCCGCGAAGCACTCACTGAGCCGACTCATCTGGCTCAGGCCAGGGCGCCGGCAGCTGGTGCCCGGCCCTGCGGGCGCGGGGCAGACAGATGGACTCCGAGGCTGCTCCCCGTTGCCCCACCCTCCTCCGCCCGGCGCCCCCCGCTCTGGCTACCCGCAGCTCCTAGTCTCTAATGCCTGGTAGGATCCCATGGGCCTTTGCGACGCCACGTTAGGCAACCCTTTGCTCTCTCTCCATCCTCCCCTTGTTCCAGTCCTGGGAGAAATAGGAGCAGGGGAGGGGGCAGATCAACCACCCGCCTCTGGCTCTGAGATTTCAGGGGAGTCAGACTCCAGATCACGTTCAAAGGGCCAAGGTCATCTCCTGACACTGGTCCGTCTCCCGGGACCTGGGCGCAGGTGCTCCCCTCCCCCACACCACCTGCAGCACACTGACCTGCAGATGGAAGAAATGCTTGGGAGTTTGGATACTTGCAAGCCAAGCACCTTCCCAGCTTTTCTGGCCTAACCTGAGAGAACAAGGCAGTGGAGGGAGGGGGCGTGTTCAGAAAGACACCCCCCCAACCATTTTGGCTACTGTTTCCTCCCCCACCCACTAGCATCCTCGCACCCAGGCTTTTATTTTCTGGGATGGTGGGGCTATTATTCTAATTTTGCAAAATGCACAGCAGCTAATTAAGTCAAGGAGCCCCTCGGCTTTCAAGTTCTTTTGCATGTGAATGCAGGCTGGTAAATCCCTCGATCTGGCTGTGGTGGGGTGTGAGGGGGACTGTCCCCAACTCAGGGTTAATGAAGTGGGAAAGGAGTCTCTCATAGCCTCCTGCAAACAAAACCCCCCAAGCAACAAACCCTGCCCAAATCCTACACGGATTGACTTAAACCCAGGGGATAAGTGCTTTAAATTAATCTCATTGAATAAGAATGAGACCAAACAAAACTCTTTAAAATCATATTAAAAATCTATCAAAGGACAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026805:ENSMUST00000050776:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.427 A=NA C2=0.255
Domain overlap (PFAM):
C1:
PF0004624=Homeobox=PU(89.5=68.0)
A:
NA
C2:
PF0004624=Homeobox=PD(8.8=5.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAAAAGCCACGCAAAGCAC
R:
GAGGTCTCTGAAGGGCAGGAG
Band lengths:
357-1776
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