HsaINT0097333 @ hg38
Intron Retention
Gene
ENSG00000166159 | LRTM2
Description
leucine rich repeats and transmembrane domains 2 [Source:HGNC Symbol;Acc:HGNC:32443]
Coordinates
chr12:1828076-1831525:+
Coord C1 exon
chr12:1828076-1828215
Coord A exon
chr12:1828216-1830934
Coord C2 exon
chr12:1830935-1831525
Length
2719 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
CGTCTGTCCCTCCCACCAAGGGA
3' ss Score
5.8
Exon sequences
Seq C1 exon
GACTGACAGGCGGCGCACCCAGGGGCTCCTCTCTCCCCAGAGCGACAGGGCCCGGAGAGCCGTGGGCCTCACCATGCTGGCGCCGGGCAGCAGCCCTGGGCAGAGGGGCAGGCTCGCCCTGCAGTGGAGGCAAGTCTCCT
Seq A exon
GTGAGTACACCCCTGGCCTCGGAGGGGGGTGCGGGTTGGGTGGGGGTGCCGAGGTGACTGTAGGTAGCGCCATATGGGACCTTAGCCACACTCAGGCTGCAGGGAGGCCTACGCCAGATCTTCCTGGGGTACCCGAGGCTATGTTCTGGGAAGCCAGGGTCACGCCCACGGTGACAGCATCCCTGCCAGTCAGAGTCACCGCTGAGTGCTGAGTGGTTAGACCTGGAGCTGGAGGCCACGACAGTTGTTCTACCTCCCCCAGGTAAGTCTCTGTGAGCTTGCTGGGGTCCCCAACAGGAGAAGAGCTCTGCTGGAATGCAGGCCTGCTGAGTCTTAAACAGCCTCACTGGTGCCTGAGCTTGTCGGCCTGTGTCACAGACTGCGGCGAGCCCTTTTGCTCCCGTGGGGAACTGCCCCCTTGGCTGGCCTCGGCCAGGAGCTGGGTCAGCTTGGAGATGTCTCTTATGCTCCTTATGCCTCCGCTTTCCCAACTCTCGGTAGAGGACCTAGTGGGCTCGTGGGATGCGGCGCTGGAAGAGACTTTGGGGAGTGGGTCCAACCCCTCCTGCATATAGGCAGACTGAGCCGTCCATTTACCAAAAAGGGGAGGAAGCGTGAATGAAGGCAACACTTGGCAGCTGTCAGGGTGAAAGGAGCCCTGAGAATTCTCTTTATATGTGGCAAAGGGACCAGGTCAGCAAGGGCTGGTCTGCCCAAGGCTACACGGTGGCAGGGAGGAAACGGTCCCGCGGGACGGCATTCCGCCTGACTTCCCGCTCTGATCCAGCACCCAACACGGGCAGCCTGAATTATTCACCATGTGAGAGAGGCTGGCCCCTGAGTGACTCAGATCTCCTTTCAGCCTCATTCTAGAATCACTCAACACCTCGCAATACGGGCTTATGTTTTCTTGTCACTGGAGCTTTTATGCCACCTTGATCTCCAGGGAGGTGGGGGGCGCAGGGAGTCGCTCTTCCGCAGCGGCTCTCTTAGCCTGCTGTCAGGCCCTTCTCTGGGAGGGGCGAGCGGCTTCTGGTGATGCAGATCCTTTTGAGAGGGAGCTGAATGCGTTGGATTTTATTTCCTGGGGAAAGTCAAGTCTGAAGAATGCTGATTTTCAAATGGCTTGGGGTGGTGGTATGGGGCTGGCTGATCTGGTAGCAGACGGGCTCAGAGGGGTGAGAGGGTGAGCGGAGACATGAGGTAACCCAAGATGGCCAGAAAAAGGGTCTCCGGTGGCTTCCATGGCTGTACCTGTGCTCACTTCTCGCCAAGAACAGTGAGGCTTGCTGTTAGGCTGCAGGGAGGCCTGGGCCAGATCTAGCCACGTGTCAGCTCTCAGCTGTCATCGATCCTCCAGGCAGGGAAGGGGAGAGTCTCATCCTGTTCCTTCAAGCTCCACCCTTTGGGACAGCAGACACCCAGACCCCTACTGGACAAGACTCAAGGCTGTTCAGACCCAGCTCACAGCCCATCGGCCCACCCCGACCTGGGACAGCCAGGTCCCAGGTCCCATGTCAGGGTGGGCCGATGGGCTGTGAGCTGGGTCTGAACTTCTCCATCAGTTCTCTGGCTGGGGTCTTTTCTCTAGGCTGGGTGGAACTGACCTCGGCTGGGCTGACCTGGTGGGGCTGAACTATTTTGAATTCTTCCCAGTTCTCTTTCACGATGAGCAGGCTTCTCTGCTACTCAGGAGGACACTTAGGGGTTTTTGAGGCCACTATTGGAAAGGGCTGCTGCATAATGGAAGGCACTGCTCTGATGTGATTGTTCCCTGAGGGTTACTTCTCCCAGCCCTACAGACAGGACCCCATGCTCGCTACGCAGAAGGGTCTTGGGCAAAAGATGGGACCAGGAAACGAATTCTATTCATCGGGCCATTGTGCAGGAATGCTGCCCTGTAGCCCCTAGGAACAGAAGCCCAGGCTGAGAGCCTAGATGGCTTTAGGGTGGGGGTTAAAGTGGAATGTGTCCTGGGCCCCATGACTTGTCAATGTTGAAGTGGGTTTGTACATCTTAGCCTGTCACTCCCACAGTGGGACCCTAGGTGCACAGCCTGGGCTCTAAATCCTCATGCCAAACTGCTGGCGTCATCATGGGTGTGGGATTGATGGAAACATAACAGCACTTGGGACGCCGTGAAGGACAGGGCTAGGAGTGCTGTTTTGTGCTCTCGCCTTTCCATACACAGCTCCAGAGTTGGGGTGGGCCACAGAGGGGAGGGAGCCAGCAGCCTGGCCATTTTCCCTGGGAAACAAACTCTGTCCCAGCAGTGACACTGGGAGAGGGCATGGGAGCAGGTTTCTCTGACAACCTTATCTCCTTTCTTGTGTCAACATCCATGGTGTCAGTGGGACCCAAACTCCCCGGGAGATGACTGTGGGAGGCCCTGTGAGCTTCCTATCACTGCACCAGCATGGCTTGTCTCTGGGCTCTGGCTGAGTCTGCAGGGTCATTCTCCACTCAAGTGATTCCTCTGCCAGATGTGTGGCAAGGCAGGGCGCCCTGCAGACACTGTGTGATGTCCATTAATATGGAAGTGGCTTTGGATTTGTTAATTATGCTTTTATGTGGTTAATAAACGTTTATGCATTGATTGTGGCTTGTGCCAAAGGAGATAAAGCCAAGAGCCTGTTATGAGCTAGAAAGGAGGGAAGAGAAGCAGGAGGTGGTGACCCGTCCTATTGCTTTCTTTCCCCCGTCTGTCCCTCCCACCAAG
Seq C2 exon
GGATCACCTGCTGGATCGCCCTGTATGCTGTGGAGGCCCTCCCCACCTGCCCTTTCTCCTGCAAGTGTGACAGCCGCAGCCTGGAGGTGGACTGCAGTGGCCTTGGCCTCACCACGGTGCCCCCAGACGTGCCCGCAGCCACCCGAACCCTCTTGCTCTTGAACAATAAGCTGAGTGCCCTGCCAAGCTGGGCTTTCGCCAACCTCTCCAGCCTGCAGCGGTTGGACCTGTCCAACAACTTCCTGGACCGGCTGCCCCGCTCCATTTTCGGGGACCTGACGAATCTGACTGAGCTTCAGCTGCGCAATAACAGCATCAGGACCCTGGACAGGGACCTGCTGCGGCACTCGCCGCTGCTCCGCCACCTGGACCTGTCCATCAACGGCCTGGCCCAGTTGCCCCCTGGTCTTTTCGACGGGCTCCTGGCTCTGCGCTCCCTCTCGCTTCGCTCCAACCGTCTGCAGAATCTGGACCGGCTGACATTTGAACCCCTAGCAAACCTGCAGCTGCTGCAGGTCGGGGATAACCCCTGGGAGTGTGACTGTAACCTGCGTGAGTTCAAACACTGGATGGAGTGGTTCTCCTACCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166159:ENST00000299194:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.130 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0146213=LRRNT=WD(100=15.2),PF138551=LRR_8=WD(100=30.8),PF127992=LRR_4=WD(100=23.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
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:
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
- Autistic and control brains
- Pre-implantation embryo development