MmuINT0093496 @ mm9
Intron Retention
Gene
ENSMUSG00000055003 | Lrtm2
Description
leucine-rich repeats and transmembrane domains 2 [Source:MGI Symbol;Acc:MGI:2141485]
Coordinates
chr6:119265151-119271029:-
Coord C1 exon
chr6:119270439-119271029
Coord A exon
chr6:119267529-119270438
Coord C2 exon
chr6:119265151-119267528
Length
2910 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTTTTTCCCCCTGGATGCAGGGG
3' ss Score
7.67
Exon sequences
Seq C1 exon
GGATCACCTGCTGGATTGCCCTGTGTGCTGTGGAGGTGATCCCTGCCTGCCCCTTCTCCTGCACATGTGACAGTCGCAGCTTGGAGGTGGACTGCAGTGGCCTGGGTCTCACCACTGTACCCCCGGATGTGCCCGCGGCCACCCAAAGCCTTTTGCTCCTGAACAATAAGCTGAGTGCCCTACCAAGCTGGGCATTCGCCAACCTGTCCAACCTGCAGCGACTGGACCTGTCCAACAACTTTCTTGACCAGCTCCCCCGGTCCATTTTCGAGGACTTGGTCAATCTGACAGAGCTCCAGCTTCGGAATAACAGCATCAGGACCCTGGACAGGGACCTGCTCCAGCACTCCCCACTACTTAGACATCTGGATTTGTCTATCAACGGCTTGGCCCAGCTGCCCCCGGGGCTTTTTGATGGGCTCCTGGCTCTGCGCTCCTTGTCCCTCCGCTCCAATCGTCTGCAGAGCCTGGACCGGCTGACGTTCGAGCCCCTGGCAAGCCTGCAGCTGCTTCAGGTTGGGGACAACCCGTGGGAGTGTGACTGCAACCTTCGGGAATTCAAACACTGGCTGGAGTGGTTCTCCTACAGAG
Seq A exon
GTGAGCCCTACGTGCCACAGGCAAGAGGGGAGCTGGGAGGAGGGCAGGGGAGAGGAAAGCTACAGCCCCTACTCCAAACATCACCAATTCCTGCAGTCAGAGGAAGCCAGGTGCCGCTCATCTATGCCCATTAAGACTCTTTAAAGGCGCTTGCCTCCCTTTCCTTAGGTTTCATATGGGAACTTAAAGACACACGACGGATGCTTTTTCAATGCTCTCTATCCCGCCTGTATGCCTCTGAGCTCCCCTGGCAGGACAGGAAGAGGAAAAACCACCCTTCCCGGGAATAATAAGGTCACCTGCCTCTTACATGAGTGCAGAATGTAACTGAAACCCAGACACAGCCATTTTCCCTGTGAAGGTGATGTTAGCTTCCAGTCCCAAGAAAATTTGACTGAAGACTTAATAATAAGCAGATGAATGGCCTGAGTTTTTCTTTCTTATCCTTCCTTTTAAAAACGTATTATTTATTTATTTGCACACGTCTGCCTGAGCGTACGTGCATGCACACACGCCACAGAGCATGTGTGATGGTCAGAGGGCAGCTTTAGGGGTTGGTTCTCTCCTTCTACCAGGTAGGCTCCGGGGATGTAACTCAGGCCACCAGGACTGTCAGTAAGTGGTTTTACCCGCTGTGCTGTCTTGGTGCTCTTCTTGGTGTTAGGTTAGATCCTGACTCTTGACCCAGGCTTGGAACTCACTTTGTATTCTAGGTTAAACAACCTCTGTGAGGTTGCAACACCCCTGATTTCTCCCCCAACTGTAAAAATGTTTTATCTATTTACTTTATGTGTATGCGTGTATGTCCAAGTGTATTACATACATCACATGCATGCAGTGCCCTCAGAGACCAGCAGAGGGCGTCCCCATGGAACTAAAGTTATAGGCAGCTGTCAGCTACCCAATACCCAGCTGTGAGTGCTGGGAATTGAACTGGCTCTTCAATAGAACAGCAAGCACTCTTACCTGCTGAGCCATCTTTCCAGCTCCCTCTTTCTTTAAGCTGAGAAAGTTCTATAATGAACAAGTGAGCTGATCAAATGAGTGCTTAGCCAGGCTCATACCTGTAATCCCAGCACTTGGGAGGTAGAAGCAGGGATCAGGAGTTCAAAGGCTTGCCTGGACTACCAGAGACTGTGTCTAAACATAGATAAATAAATAAATGAATAAATAAGAAAAGAGGAGATGGGATGGAGTGGGAGGGGGTGTAAATCAGTACAGTGCTGAGAAGGGCCAGATCTTGTTGGAATTTTAGCCCTGCCACCTACTAGCTGTGTGATCTTGAGAAGTTAATTAACATCTCTGTGGTATATCTGTCAATGGGAGAAAGGCCAATTGTGAGAATTAAATAGGGCAGTGCCTATGAGGTGGTTTGAAAAGTGCCCAGCATAAAGAAAGGCCTTGTGCAGTGGAACGTTGATTGGCTTGCGCCCTTGCTCGTTTGTATTCATAACGTCGAGAGCATCCAGGAAGACACAGTCAGTGGCTAGCACAAGGCAGCTGTTGGGTGTATGTGGAATTAACAAATCAGCACTAACGTTCTGAGAATAACACAATGCTCTCCCTCACTCTCACCCCATTCATTTCCTACCCAGCCACTAACTCAACATTTCCATGCGGCTCCGATGCATTAATTAAAAACACTTTACAAACTAGAAAGCGCTTTGAGATGTTAGTCACTGTGATGATGCTGACTCTGGAAGTGGAGAAATGATTAATGCTGTTGTCTAGCTTCCAGTTTACAGATACCTTCTTGTGCATATTATCTACTTTAATCTCTCAAGCAGCTAATCGAAATAGATATCCCCACTTAGCGGCTAAGAATCTGGAGATGCAGACATAATTCAATACTTGAGTTAAATAATTTTCAGGTGACAACACAGCCAGGATTCAACCTCGGGTCTCTGGCCCAGGAAAATGAGGTCACTCCCGTCTCACTCTGAAGCTCTCTGCCCCTCTAACCAAAGGTGGTCACGGTTACATGATCACTGGTATTGGCCTCAGGGCACATCCTTGCCTGTAACCCAGCAGGCAGGAACCAGTTTCACAGATCCAGTCTTCAACCTTGCACTCCTTAAAAAACCAAACCCAACCCAACCCAGATGTTTGCATCAGCATCCAAGCATCCTACACTAAGATGGGTGTCTTTGTGAGATTGGACTTGAGGCCTCTGCACTGGGAGAGGGAGCTCTCTTACCTTACCCACCTAGGTACTGATACTCCTCCTCTGCCCTGCCTGGTCTGCCCAGTGTCATGAGGGTGGTTTGGTGGACTGTCTAAACACCACAATCAATTCCAGTCTCCTGTGTCTCCAGGGTTTGCTCCCTAGATGTCTCTGTGCTGGTACACCTGACAAACCCAGGAAGATCCCATGCCTTCCTCTGGGTGTGCACAGGCCACCAAAGCCCTGTGTGGGGGAGCAGATGAGGCTGTGGCATTGGCTTTCGTTCTTACTGAGAAGGGACACAGGCCCCTGCTTGTGTTGACAACAGTTGCAAGGGTTCACAGACATCAGTGAGCAGCCAGGTTTTAGGCAGAGAACTAGATATACAGTTTGGGCAGGGTCATGGCGTGATGTACCAAAGCCATGTCCTGAGCATGTCCCCAGCTGTTACTGCTGTAGGTCAGTGTGACCTTGGAGGGACAGGCTTGAATGAGAAGGGTAGAGGATTCTCTATGAGATAAAAGTAACGGTAATGTCCATTTTCAATGCTTTTGGCGGCCTCCTCTACAGCACAGTGATTTATAGGTGCTAGTTCCTGCCTGCTCTTACTCTCCCGTAATCAGGAATAACTATATTATTGGCAGGACCATTCCTTTTGTGCCTTCCATTTGGAGGTCTGGTGGGGAGGGGAGGTCACCCCAGTTCTAGCTGCTTGTTCACCTTCTCTTTTTTCCCCCTGGATGCAG
Seq C2 exon
GGGGTCGCCTGGATCAGCTTGCCTGTACCCTACCCAAGGAGCTAAGGGGGAAGGACATGCGTGCGGTCCCCATGGAGATGTTTAACTACTGTTCCCAGCTAGAGGATGAGAACAACTCTGCTGGGCTAGATGCTCCAGGACCACCCTGCACCAAGGCCAGCCCGGAGCCTCCTAAACCTAAGCCTGGGGCTGAGCCTGAGCCCGAACCCAGCACTGCCTGCCCACAGAAGCAGAGGTACCGGCCCGTGAGTGTGCGGCGAGCCATTGGCACAGTGATCATCGCCGGGGTCGTGTGTGGCATTGTCTGCATCATGATGGTGGTGGCCGCTGCTTACGGCTGCATCTACGCATCTCTCATGGCCAAGTACCACCGTGAGCTCAAGAAGCGCCAGCCGCTGATGGGGGACCCTGAGGGTGAGCATGAAGATCAGAAGCAGATCTCGTCTGTGGCATGAGAGCTGTCTGTCTGGCCCAGGTAGGACAGCAAGGAGACTCCATGGGACTGCTACCAAAAGGGCTGCCCTTCCCTCCATCACAGGCCCCGTCTCAGCCTGACACTGGGACTGCCTCCCTCAGCTCCCTCGTCCCAATCTCTTTCCAAGTTTCCCAGAGGCTTCCCTCGGGCCAAAGATTCCCGTGGAAGGTCTTCTCTGGGCCTCTTGTCTTTGGAACCCCTGAGCCTCGCTGTAGGCTTCTGGCCACAGGGAGGAAAGAACCTACTCTAGAGACATCATCTGCACTGAGCACTTCCCTCCTGCCCAGGGCTGCCAGAGCTGGTGACTCTCCCTACCTCTTTCTCATTCCCACTTCAGTCTGCATTAGGGCCTGGGAGGGAGGGACAGGAGGCCCAAAGGTAGATTTCTGTGACTCCTTTTAAAGCCAGAAAGATGTCTCAAGTCTTTTGCAGTGTGAAGCTTGTCCAGCTCTTAGCCAATGTGAAACCACCCCAGTCCTGTGATCTGGGTCCAATGTTTAGAAAAACCAAAGTGGCTATAATGTCCCCCTTGGGTGGATGTCATTATGTCCCTTTATTGGCTATAGACTCCTCTGACTACATTGCTCCAGGTTTACGAATTCTATCCATACTTTTTGTTCTAGCGTGAGGTTTTGAGACAGGGCCTTACTCTATATACTAATTCCTCTGTCAGGCAGGGCATCAAAGTCACACACACACACACACACACACACAGACACACACACACATCATGAGAACTTGGGGCAGAGGCCTGCTATCCCCTGAGCCCAGAGGCCACAGCCCCTCTTACTTCCTGACTACAGTCTTCCCATGTCATCAGGGGTTGGGTCCTGGACGACAACACAGGGATCCTTTGAGACCCTCTTAAGTGGGCCAAAGTATGCAGCTGGAGAAATTGCATTGTCCTGGCAGCCCTAGCACCTCTCTTGCTAGGTTTACCAGAAGGGTGCACATATGCATGACGGGTTCCAGGCGTCTGAGAGCTCTGTTGCAGACCCCCGGGCATGCCTAGGAACCTCTTCCCTGCAGGTTCCAGGTACACGCAGCAGTTTCTACCCCTGCAGCCTGGCTTCTCCTGTCTCCTCTGTCATCTGCATCATTTGTGCATGACCTCAGAGACTGGGTCTGGGCTGTGCTCTGAGTTTGGTGTTTCACCTTAAGGAAAGCAGATGTCAGGCAGTAAGTCCTTGAGAAGGCTGGCTGCCTTCAACACATCCCCGACAGACTGCAGGAACAGGGACAGGATGGCTACATTCTGTTCAGAGTCCTTGACGGTGGGGCTTTCTTTCCCAGGGGTTCATCGGCTCTGCCTGGTTTCCTGGGAGTGTGCAATCGCACCTGGACTACCCAGGCTAAAAAAATGGCTGCAGTCCTATCTGGTTTGGAGATTCTTGCCCCTGGGCTGTGCACATTTTCAAGGTCACTGCTCTCTGTTCTAAACTGTCCCCTCCTTAGAGACTAGATACCTCTGTAGGAGATGCCAGACTGATACCTTACCCTGGGAAGGTCTTGGTAGTAGCCAGGAACACACTTAGGCACTGACTATACACCTATGAGGGCCTCAGGGCAGCCTCTCAGCCCTCCTTCTTGTCCTCGGCCACCTATTCGACTAGCAGGGGTGAGTACTGGAAGTCTCAGAAGAGCCTCCAAGGTTGTTCTCTGGCAGGTAGACAGAGAGCACCGGCTGCTGTTCAGGATCACAGGATCCTCTAGGCTGGGCCACAGTCTTCCTTCCTCTTTTGACTGGTGGGCCAATCCCAGAGCTGGGATTTTCTAAGGGCCTGGGGGAGGGAGGGTGTTGTCAGTGGTGATATCTTTAGCCTGAGACAGAAGATTTTTAAAGGCAAAATTATATTTCTGGTTTGTCGTTTCAGAAGACCAATAAAGACTATTTTCCTATGTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000055003-Lrtm2:NM_001172207:4
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.424
Domain overlap (PFAM):
C1:
PF0146213=LRRNT=WD(100=15.2),PF138551=LRR_8=WD(100=30.8),PF127992=LRR_4=WD(100=23.2)
A:
NA
C2:
PF0248011=Herpes_gE=WD(100=57.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
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: