MmuINT0091576 @ mm9
Intron Retention
Gene
ENSMUSG00000032698 | Lmo2
Description
LIM domain only 2 [Source:MGI Symbol;Acc:MGI:102811]
Coordinates
chr2:103816162-103822035:+
Coord C1 exon
chr2:103816162-103816377
Coord A exon
chr2:103816378-103821031
Coord C2 exon
chr2:103821032-103822035
Length
4654 bp
Sequences
Splice sites
5' ss Seq
CAGGTATAT
5' ss Score
7.88
3' ss Seq
TCCTTTTCTTTTCACCCCAGGCT
3' ss Score
9.65
Exon sequences
Seq C1 exon
GGAACCCGTGGATGAGGTGCTGCAGATACCCCCATCCCTGCTGACATGTGGTGGCTGCCAGCAGAACATAGGGGACCGCTACTTCCTGAAAGCCATCGACCAGTACTGGCATGAGGATTGCCTCAGCTGTGACCTCTGTGGGTGTCGGCTGGGAGAGGTGGGGAGGCGCCTCTACTACAAGCTGGGACGGAAATTGTGCAGGAGAGACTATCTCAG
Seq A exon
GTATATCCCTCACACTTCTGGGGCACATCCGGGGTTGGATACATAGTCTCTAGCTCCTGAGGTGTCTGCCTAAGGGGCCTAGGCTGTGGAGGCTGAGCTTCAGCTGCCTCTTCAGAGAAGCCGTGAGTTCTTCCTCTACTGTGGCTATGTTTGCAGAGACACATCACTGCATGGTAAATCACCAATGTTTTTAAAGGTAAGAGAATAAAAAACACGGAATTCAGAATAAGGACAAAATTCTGGGGGTGGGGGCAGACCAAAGGATAGGGTTTGGAGAAGTGTACGTAGGGAAATATCCAGGGAACTAGGGGAAGAGAGAATTCATTTATAAGTTTCTTGGGTGGGTTCTCATTTAGTACTCAATAAGCATATGCATATGTGTAGATAGTCTTTTTTTTTGTTTTGTTTTGGTTTTTGGTTTTTGGTTTTTTGAGACAGGGTTTCTCTGTATAGCCCTGGCTGTCCTGGAACTCACCTTGTAGACCAGGCTGGCCTCAAACTCAGAAATCCGCCTGCCTCTACCTCCCAAGTGCTGGGATTAAAGGCGTGCGCCACCACGCCCGGCATGTGTAGATATTCTTTTGCACAACTCCAGTATTATTGATGAGAACTTTTAAAATAGCAATGTGTCCTTGCTAGTGAGCCCCCAAGCGCTGAATTTCATAGCAGGAGGCTAGCCTTCAGCAGCTATAAAGGTGAAGTCAGGAGGTTTGAGTCACTACTCCATTGCTTCCTAGTGCTGGCCTTGGGCAATGCACACAAGCCTTCACGTCCTGTATGTAAAATGGGGATTGTAATTGTACTTACTTCTAAAGTTAGAATGAAGTACTTGAATTGGTACATAACTTAAGAAATAGGTGGTAGCTGAGTTTATAATTGACAGGTACCATGGTGGGATCACAAATTATTTTCCATTATAATGGACAAGGAGATGGTAACATGGAAGGCAGAAATAGAAAGTGTACAAGGCCAAGCGAGACAGAAACATTTCCCCTGAATTTGTGTGTCCTGGCACCCAATGAGTGCCTTTGTCTGGCGTGTTCTAGCATCTCTAGCTTCTATATTAGCTGCACTGGAGGTAACTCTGTACCCCGTACTGCCAGATCCACTCAACTGTTCAGCTGTCAGTTCTTCGCCATCCTCCTGTGGCAGAGGCTCCACTGAGCGCGCAGTCCCTGTGTATTAGGGCCAGCCAGCCAGCGGAGAGAAGCTCTTCAGACTCCAGTGCCCTGGGCTGCTAAGCAGGCTCTTCCCCCTGCATGTGTTCTCGGGGCACTGCACATGTGAAATAAAAACAAAACTGCTGGTCCTTCTGAAGTCAAAGGAAGCTTATCTGTCCACCCAAAGACTGAAGTAGCGTGCTTAGTCTTTGATTGAAATCATTGCAGATGTGGTGGTTTTGGGCAAATGGAAAAGAGAGCAAGTAGGTCTGACTGTCATTTTGTTGAATTTCTTTCTTCCTTTTTTTTTTTTTTTTAAGTCATAAGAAAATAGAACAGAGATAAATACAGACCTGGTTTTTACTCACCCCAGGCCTGCCAGGTCCATCAGAAAGCAGCTGGGTAAATGACTCCCGCTGGGCTCCTGCCTCCATCCCTGTTGAATCATTTGAATCTTATTAAACGAAGTCAGATTCAGTGAGGTCAAAAGAGCCGATTCCTCCCTATCTCCCCGGTTTTATAGAACATTCAGGAAGAAAGGCGGCGCTGCCTGGGCTTGTTAATCTTTTCCATTTTCAAAAAGGAGAAGGGAAAAAAAAAAACTAGTCTGGGAGAGCCCAGTGTTAATTAACTTGTGTCTTGGTGACACGAAATAATTCTTCTCCCTGCTACATTCCCAGACAACATGTTAATTAACTCTGCATTAGCGCAGGCGTTCCCAGCCATCCTTTAATATTTGTATTATTGTTATTAAAATGGGCAGCAGAAAGCTTAAGGCTCTGACGCCTCTTGACAGCGGAGGGATTTCTATTTCGTTCAGGGATGGTCCATTAGCCATGGATTTCTTTACTTTAGTTCTTTGGCATATCCAGAGCTATTTTATCAGGATAAGTTCAGAGTGACTCCGAGGGTCCTCCAAAGAGACCCAGTCCCTATCTATGCCTAGAACAGCTTCTCTCCATGAGGGTCTTGAATGGACAACTCTTGTCTGGTCTTTTTGAGACATTCAACCTCAAATACCCAGGACCCCACCACCACCCCTCATCCTTCTCTCATATACAACTCAGACCTGCTACTGTTGCATTGTGTTAAGTACACAGCCTGGATCCCCTTAGATCCAATTTTCTCGAACTTTTATGTAGGGCAATCCCCTTTAGCCTATGGTTCTGTTTCAACAGCTGGCACCTACATCTAGCCAGCATCTGTTGTAGCCAGAACTATGTAGTCTCACCAGATCCTGGTACCAAAGACACCCCAATTCCTGCAGCTTAGGGGGGAGCCAAGGCTACTTGGAGACAGGACTTATACTTCAGGAGTCCCCAGACATCAGGCCAAAGCTCCCACTGAGGCTGGGCACCTGAGATTGCTTCTTGACTCCCTCACCGTTTTCTCACTTACCCTGAGGACATCATAAACCACTTGAACATAAATCCTCCCCTGTGGTCTGTTCCTGGGATACCCAGCTAAGATGAGGATTCTGTGAGCCAGAGGTTAATGCACACATTAACGGCCAAGTGCTGGCCGGTTTTCATCACTGTTAGCCTTTCCAAGTCCATGAGTTGGGGTGGGCTGCCAAGACCTCTGCCTCCAGTCTCGGCTTACAGTGTAAGCACATGAGCCAGGAGAGGACATGTCATTTTCTCGGGTCACCTACCTAGTTAGAGATTCTGGGACCTGGGCTTATCTCCCAGACATCAGTCCTTTGTCCTCCCGTTAGCTGCTTGGTGTGTTGTAATTTGCCCCCGACTTCCCTTTAATGAGCTCCCGCTTTCTTAAGGTCTACACCTCAGGCACTCAGACTCATTTGCCGCACACTGTTCTCTCAGTCGTGTGTCTCTGCTCAGCCCCAAACTTAACTTACTCAACAGTCAGGACACCACCAGAATGCTCTTTCTGCTCTGTGACCTCCGATGGGGCATTTGCCTACAGCGCCACCGTCTGCTCTGGTAAGATAGAGTGTTCTCCCCCATTGACAAGTCTGCTTCCAGCACAGAAAGTGGGATCCAGAACAGAGATGACCTCTGACCTCGCTGCGGGGAGCTCCCTCTCTGCTCACTGGCCCTGCTTACAGGCCATCCATTTTGGCCAAATGTTGCAGGCTTTGGTGGCTGTCCTTACCTCTCCTACAACCTCTTAGGATGCACCAGTCCATTCTCTCATTTTTTTAAGTTGGTACAGACTTCTAAGGAGAGCAAGCATTTACTGGAAGCTACGTGCAGACATGCTATGTTACAAGCACTATGTAAAAAGGACCCTGCTGCAACAGTTGAGAGCACACCTGGAATGTGATCACATAGCCAGAGTTGGCTCAGTCATTGACCTCTGATACTCTGACACGCCCTACATGTCACACTAACATCTAAGCAAGGTAGATGATGGGGTTGCCAAACCACCTTCTGGTCCTCATGTTCTTCTTCCAGGCAGGCTTGTTTTCAAAGGTTAGCCATCACTAGATCATTAGTACAGTCTGCTGAGCCTTCTCTTCTGTGTCTCTGTCAGGTGTAGAGATAGTTGGGAATTTCTGTTTCTAACAAGTTCCTGGATGCTGCCAGCCCCTGACCGGCTCCTTTTCAACCACTGCAGTGACTCCAAAGTTGCCTCCCACACCTCAACACTAAGTGTCGCTTGCTTAAGTGACTGATGCTAGGGAGAAACTTGATTTAGTTGTGAGGAAAGTCACCTCTCCAGAGAGTCACGCTGAGTGGGCAGGAGGAGCATGAATGAAGAGCCACTGTGCATCATGGAGAGATCCTGTTTGTCCTCTGGGTCTCTGAGGCATGATTGTGGCACTACTTGTCTCCCGGGACACCCCTGTCTCCTGGCAGCTGGGCTCCAGTGAATGGTCATGTGGACATGGAATTTGCAGCTTGACGGGTAGGAGGTGAATCAAGGCACACTCCCCAAAAGGGGAAATTAGTGGCTGTTGACATGAGAGTGAATTCCTGGTGACCCACCCGTCCAAGGGCTGGCCCCAGCTCCTCTTCTGCAGCCAGAGTTCCTCTAGGAAAGAGACACAGACTACATGCCTTACTTCTTACACGTCACTTCATCTGCTTCTTTTCCATAGCTGGTCCACACAGCCTAGAGGCATGGATAAAAGTAGGGAAATGCTTGGGGAGGCGAGGAATAACAGCAAGCAAAATGTCATCGTGTCTCCCCCCCCCCCCCCCAGGGAAGGATTCATGGGCTATTAATTGGGTTCATCTGTCTTGCTTATCTGTTTTTATGTTTAGATAGCTTATTACTGTGTATCCCGGTCCTATGTGGACCTTGCCATCTTCCTGCCTCAGCCTCCTGAGTACTAGGATTACTGCTGTAATCCACTGTATCCGACTAGGTGCAGCATTGCCTAGGTTTTTTGGAAACCTGATAGATTCACATCAGTTTATCATCTCACATCAATCTATCATCGCCAGCCGCCATCTTTCTGTTGTCCCCGCCCCTGTCTCTTAGCGTTTTTGTCTCTGTTTTTTTTCCTTTTCTTTTCACCCCAG
Seq C2 exon
GCTTTTTGGTCAGGATGGTCTCTGTGCATCCTGTGACAAGCGGATCCGTGCCTATGAGATGACGATGCGGGTGAAAGACAAAGTGTATCACCTGGAGTGTTTCAAATGCGCCGCCTGTCAGAAGCATTTCTGTGTAGGTGACAGATACCTTCTCATCAACTCCGACATAGTGTGTGAACAAGACATCTACGAGTGGACCAAGATCAATGGGATCATCTAGGCCAGAGTCCCAGGCACCTGTGGGGAGGTGTTCAGTGAAGACGCCGTCTCGGTGTGGTCTTCACTCTTAGGCTCTTTGGGAACCTGAGGGTGGGTGAGGCATTTCTTAGGAGATTATGGACTCTTCCTGGGCACTAACGACATAGCAATCACATGACATAATGCAAAGGCTGAGACTTCAGTGACAAAAAGGACCAGCCCTTAGAGAGAATTTATGGTCACAGGCTAGCCATAGTAACTGACAAGATTAGTGGAGGAAATATTTGGGGACCAGCATGCACTGTGCCATCCTGATAGGCTTCCCCAGGTAACTATCGATTAGATGTGACCTTGGTGTTCATGGACTAGAGTTGTGCAATTAATTTTTTCCTGGCTTTGGTAACTACCCTGTTCTAGTCACAGTCCTTCACACTAGGAAAGGAAAGAGAGAAGAAATAGTCACTCTTTTTTTCTTTCTTTCTTTTTTCCTTGGTCACCTTCCCGTGGCCTTAAGCTCTGGAGCCAAGGGAAACTGCATGGAGGTACATTTCAGTTGGGAATGAAATCCACATCTTTCAACCAGACAAATATTTATAGCGATGTTGATGAATCACTGTTTTTAGACACCTTCATTTTGAGGTGAGGCGCCCCACAGATTGTTTCTATACAAATGTAAATCTTAAAAAAAAAAGGTCAAAGTTGTTCAACTATTTTATTATCTTAGATTATATCAAAGTATTTGTTGTGTGTCATTAAAAAAAAAACTCGATTCTGAAGACTTAATAAAAATGACAAGCTGAAATGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000032698-Lmo2:NM_001142335:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF124483=Milton=PD(8.4=9.6),PF0041217=LIM=PU(94.9=76.7),PF103674=Vps39_2=PU(9.8=5.5)
A:
NA
C2:
PF124483=Milton=PD(25.5=37.8),PF065736=Churchill=PD(79.4=67.6),PF103674=Vps39_2=PD(94.7=48.6),PF0041217=LIM=WD(100=79.7),PF079757=C1_4=WD(100=56.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
Other AS DBs: