HsaINT0097334 @ hg38
Intron Retention
Gene
ENSG00000166159 | LRTM2
Description
leucine rich repeats and transmembrane domains 2 [Source:HGNC Symbol;Acc:HGNC:32443]
Coordinates
chr12:1830935-1836752:+
Coord C1 exon
chr12:1830935-1831525
Coord A exon
chr12:1831526-1834266
Coord C2 exon
chr12:1834267-1836752
Length
2741 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
TTTTTCTCTTCTGCATGTAGGGG
3' ss Score
9.2
Exon sequences
Seq C1 exon
GGATCACCTGCTGGATCGCCCTGTATGCTGTGGAGGCCCTCCCCACCTGCCCTTTCTCCTGCAAGTGTGACAGCCGCAGCCTGGAGGTGGACTGCAGTGGCCTTGGCCTCACCACGGTGCCCCCAGACGTGCCCGCAGCCACCCGAACCCTCTTGCTCTTGAACAATAAGCTGAGTGCCCTGCCAAGCTGGGCTTTCGCCAACCTCTCCAGCCTGCAGCGGTTGGACCTGTCCAACAACTTCCTGGACCGGCTGCCCCGCTCCATTTTCGGGGACCTGACGAATCTGACTGAGCTTCAGCTGCGCAATAACAGCATCAGGACCCTGGACAGGGACCTGCTGCGGCACTCGCCGCTGCTCCGCCACCTGGACCTGTCCATCAACGGCCTGGCCCAGTTGCCCCCTGGTCTTTTCGACGGGCTCCTGGCTCTGCGCTCCCTCTCGCTTCGCTCCAACCGTCTGCAGAATCTGGACCGGCTGACATTTGAACCCCTAGCAAACCTGCAGCTGCTGCAGGTCGGGGATAACCCCTGGGAGTGTGACTGTAACCTGCGTGAGTTCAAACACTGGATGGAGTGGTTCTCCTACCGAG
Seq A exon
GTGAGCGCAGCCGGCCCTGCTGGGGCCCGAGGGATTGGGACGATCACCTCTGGCCCCACACTTTCCTCCTGGTGGCTGGGTGCTGACTCAGAGAGCAGGCCAGGGGAAAGAAGGGGGCGACCCTGCCTCTGTGCCAGCTCGGCTAGAAAAGTCACAAGCCTCCCCTCACATGAGCCATCACCCTTCCTGCCAATGGGAGAGAGGCTGGTGCTGCTCCCTCCACCCCCACCCTCCCCTCCCTGCTCTGCATCCCCTCCCCCAGCCAGCTCCCCACTTTCTCCTAGGACTCACTGAACTGGATCTCCCTTTCTTAGGTTACATAAGGGCAGTAAAGACACCTGGGCTTTGTATCCCGCCAAGTTTGCCTGTGGGCTTCCCCAGTGTGGTAGAAGGAGGGAGAAAAACAGCTCTTCTGAAGAATACAGCCATCTCTTAAACATCTCCCCTTACATGAGAGGGGAATAGAATGAATCCTCAGTAAAACCAAATCTTCCTTTTGGTGACAGTGCCAACTTCCTCTCCCAAGTTTTATTATCCAAACTTTAAGAAGAAGTCAAATGGGTTAGGCTTTACTTTCTTCCCTTCCCATTTTCTTTAATATGGGAAAGTGCTGTAATGACCTATGACATGATCACATGACATGGGAGAGGAGGGTGCGCAAGATGGTGGTGAGGAGGGCCAGGTCTGCGTCTGAATTTCGGCTCTGCCACCTGCCAGCTGTGTGATCTTGAGAAAGCTGGTTACCCTTTCGCTGTGGCAGGGCCTGGTCTGTAAAGTGGGAAGGAAACAATATCTATTTCGTAGGGTCATTATGAGAATTAAATGTGGCAATGCACGGAACGTGGCTTGAGAGGTGCCCAGCACAAAGTGAGTCCTCAATAAAACGTCCATTTATCCGTTCACTTCCTGGTAATAATCAAATACTAAGTGGACTTGAAACACCATTTGGCACGAAGAAGATGCTCAATGAATGTTTGCTGGGCTAAGGAATCAACATTTAAGTGGTGAAAATAATGCCAATGCTTTTTGTTAAAGTCTTACTACTTTCATTTAATCTCCAGCCACAATTTCAATTATTTCCATGAAATTCTCCTGTGTTAGTTAATTAAAAATGTTTTACAAACTATAAAGTGCCACAAAATGTTAGTCACTATGATCATTTCCCCCATTTTCATGAGCGGGGAAATAATGATTACTACTTATATAGTTTCCAGTTTACCAATGTCTTTTCATGTACATGATTTTAAACCTTACAGCAGCTAATTGAGATAGACCTTCTTATTTTACAGCTAAGAAAACTAAAACTCATAAGTAATTAAATAAATTAAATAATTTTCACAAGATGACACAGCCAGGATTCAACCGTGGGTCTTCCCAGCAGGGAAATGAGGCTGCATCCCTGTCAGCACCCAGCTTTGCATCCCCAGGCAGCACTGATACGTGTTCCTGGGATGTGAGGTTTGCTGCAGGCCACCGAGGTGTCAGCCGCACAGGGGAACTAGGCCGGGTGTCTTCAGACCCTCCTCTCCTGTGGTCGCCGGGAACTGAATTCCCAGCACAAAAATGCATGCCATGAGAATGTGCAGTTTTCAGACTTTTTCAATAGCGGAGTTGCTTTCAACATTGCATTTCTTAAAAACAAAATCCTGGAATATTTCCATCGGCATCCCAGGGAAAGATTGATGCCTATTGTATGAGGAGACTTGCGGCAGATGGGCTGCAGAGGGAGCTGCCAGTGACGGAGTGGCTGCAGCCCGCATCTTTTCGGCAGGGGGTCTAGTGCCTGCATCCAGATTTCACTGGAAGCTGAAAGAGGGCCAGAATCCAACTTTCACTTCCTAGGGGAGGTCTAGACAGATTATTGTCCTCAACCACCTTCTCTCTCACCCCAGCCCTGTCCTGCATCTGTGTCTCCCTCTGTCCAAGCCAGCCTCCACCATCATCATGAAGACATCCTGGCGAGCCCGTGCGCCCAGGTACCCACACCTCCTCATCAACACCAGCCTCCTCTCCTTGGCCTCGTGTGCCTCCAGGATTCCCCCTCCAGATGCCTTTGTACTTACAGGGCTGTGGTTGGGGCACCGATGGGGCCATTGGATTGCTCCTAAGGAGGAGAAGGAGAACATTCCTGCCCAACTCTTTTCCTCTTTACGCCAGGAAGGGAGCTGCCCATTCTTAGGCAACCAAAAGGTCTTGCGTGGAGGGGCAGCGGCAGGGGCAGTGGGTTTTGACTGCTGTCCTTTGAGTGAGAGGTAAGAACCCTAGAAGGATAAGATGCTGTGTTGAGAACGGTATCCTGGGCTCACAGACAGGTGATGAGCAGGCAGATTCGGGGGCAGAGAGTGTGGCAGGGACGCTCAGCTCTCTAATGACAGCCCTTTCCTGGGAACCTCCCCATGTTAGCACTGCCTTACTCTGTGGGTCCGTTTGGCCTGGGAGAGGACAGGCCGGATGGAAGTGGCTGCGTGCTTCTCTATAAAATGGGAATAAAGACAATATCCATTTCACATGGCTTCTGCGAGGATGAAATGGCACGATATACGTAACTCACTGTGGACTTGGCTCAATCAATGCTGTTTTCCCTCCTCCGCTTCCTCTTCTATAGATGGTGATTCCAGGATTGACTACATTGCTGATAAAAACTACCTTCTGGGGCTTCCGTTTTGGGGAGCTGGGGATGGGGAGAGGGAGTGCAAGTTCTAGATGCCTGGTCAGCCCCTCTTTTTCTCTTCTGCATGTAG
Seq C2 exon
GGGGACGCTTGGACCAGCTTGCCTGCACCCTGCCCAAGGAGCTGAGGGGGAAGGACATGCGGATGGTCCCCATGGAGATGTTCAACTACTGCTCCCAGCTGGAGGACGAGAATAGCTCAGCTGGGCTGGATATTCCTGGGCCACCCTGCACCAAGGCCAGTCCAGAGCCTGCTAAGCCCAAGCCCGGGGCTGAGCCGGAGCCGGAGCCCAGCACAGCCTGCCCACAGAAGCAGAGGCACCGGCCGGCGAGCGTGAGGCGAGCCATGGGCACGGTGATCATTGCAGGGGTCGTGTGCGGCGTCGTCTGCATCATGATGGTGGTGGCCGCTGCCTATGGCTGCATCTACGCCTCCCTCATGGCCAAGTACCACCGGGAGCTCAAAAAGCGCCAGCCCCTGATGGGGGACCCCGAGGGCGAGCACGAGGACCAGAAGCAGATCTCTTCTGTGGCCTGAGCGCCCATCCCCACCCGGCCAGGTAGGAAGGGCGGGGAGAGCACACGGCATTGCTCAGCCACAGCTCCCACCTTGACCCGGCGCTGGCCACTGCCTCCCCGAGTCCACCCTCCTCCCCGCCCTCCAGCAGACAAGCCACACCGGGTTCTCTCCCTGCACTTTCGAGGCTCCCTGAAAGCCACCGTGCTGGGGGCTCCTGCTGATGCTCCTGTCTGGGCCAGTAAATCTTTGGAACATGTGGGGGATCTCCCTAAGCTCTGGCCACAGCAAAGCAAGGAGGTGTGTGCAAGAGGAGGCTTCCGGACTGGGCATTCCCCTGTCGCCCTTCCTGCCCTGGGGTGGCCATAGCTGGTGACTCTTCCTACCTTGCTGGTCCCACCTCACCTGCATTGAGGGGACGGGGAGGGAGGGATCTGAGGGATGAAGGTAGATTTCTGAGACTCTCTCCTAAGCCAGAAAGACGTTCTTAACACCCCTGCAGTGTGAAAGCTGGTCCAGCTCTACAACTGTTGGTACCAATGTGCAAACACACCAGCCCTGCCATCTGGACCCAGCACTCAGAAACACCATACACCCCTGGCCGACGCCATCATGCCCCTGGATCTGCTATAGGCCACACTGACCACATGCTCCTGGATTCGCTAATTCACTCACACACCCATTGCATCACCAGTGCGGTCACATGGATTGAAAGAATTAATACACACACACACACACACACACTCACACGGTCACACGGAGACCGAGGCTATGAGCGCTCGAACAGCAGAGACATGCTCTTCCCCAGGGGTCTCCCTGAGACCACAGAGCCTCTCGCGTGCTCACTGCAATCTTCTCAAGTCAACAGCAGGAAGGAACTCAACCAGTAACACCAGGATCCTTTGAGATCCTCTAAAGTGGGCCAAAGTGGTGCCCCTGGAGGAGCCCTCCTGTCACCATGGTAACCCTCTCACACCTCTCCTGCTGGGCTTTCCCGGGATACCACCCAGGGGCCTGGAGCGGCTGCATGTGTGCATGGCGGCCTCCTGAGGACCCAGCCACACACCACTGGTGTTGCCTCGGTCCTGCCCACGCATCTCACAGCACCAGGCCCTGTGGGGCCCCCACTGATTCCTCCACAGCCTGCAGCCTGGCACCGTGACTCTGTGCCTCTCGCCCTCCATCTTCAGTACTCCTGGCCTGTGACTTCAGGGCTGGGACTTGGTGGTGCTTTGCCATTGGTGGCACCCTCTGGGGAAAGCAGGTGGCAGGCAGAGAACACGGTGGCTCCCCTGAGGCTCATTGCCTGCCAGCTTATTGCAGACAGAGCCCAGGAGCAGGAGCGGGTGGCCACGTGCTGCCCAGAGGCTCCCAGGATGGGGCCTCTGTTCCCGGGCTTTGTCTGCTCAGTGTGGCTCCCTAGAGCACCCAGCCGGGGCCAAACCAGAGAGTGGGTGGGGAGCCTGTCTGGGACAGAGCCACCTGCTGCCAAGGCAGTGCAAGTTTTCCAGGTTACCTGTCCCCCTCCCTAGCTCTGCCCCTCCTCAGAGTGTGAAGATGGTGGGTACCTAGGTGTCATGCTCACAGGCTCAGGAGGCATCAGGCTCGTCCCTGGCTCTGGGATGGAATCTCGATGGGGGCTCAGGAAGAGGCCAGCAAGAACCCTGAAGCCAAGGGTCTGAGCAGAGGGAGTTGGCAGGCCTAGCTCCTGTGCCCCACTCCGACCCTCCCTGCTCATGCGGCAGTGGGTGGGTGAGGTGGGCTGGGGGCCTGGAGGAGTGCCTTTGAGGAGGTCAGTCCTGGCAGGTGGACAGAGGACGCCTGGCATGGGCTGCTTACTGGGACCCCAGGCGGCCCTGGCCATGGCCACAGTCTTCCTTCTTTTGGCGTGTGGGCTGGTACCAGATCTGGGGATTTTCTAAAGGGACTGGGGGGAGGGGAGGGCATTGTCAATGGTGGTATCTTTAGCCTGAGACAGAAGATTTTTAAAGGCAAAATTATATTTCTGGTTTGTTGTTTCAGAAGACCAATAAAGACTGTATTTTCCTATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166159:ENST00000299194:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.444
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:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
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
- Autistic and control brains
- Pre-implantation embryo development