HsaINT1018201 @ hg38
Intron Retention
Gene
ENSG00000121454 | LHX4
Description
LIM homeobox 4 [Source:HGNC Symbol;Acc:HGNC:21734]
Coordinates
chr1:180266392-180271534:+
Coord C1 exon
chr1:180266392-180266594
Coord A exon
chr1:180266595-180271379
Coord C2 exon
chr1:180271380-180271534
Length
4785 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGC
5' ss Score
9.89
3' ss Seq
GCAGTGGTTTTTCCTTGCAGATG
3' ss Score
10.03
Exon sequences
Seq C1 exon
GCGCTTCGGCACAAAATGCACGGCCTGCCAGCAGGGTATCCCCCCAACCCAGGTGGTCCGCAAGGCCCAGGACTTTGTCTACCACCTGCACTGCTTTGCTTGCATCATCTGCAACCGGCAGCTGGCCACGGGGGACGAATTCTACCTCATGGAGGACGGGCGGCTGGTGTGCAAGGAAGACTACGAGACAGCCAAGCAGAACG
Seq A exon
GTAAGCAGCATGGCCCCGCATGGTCCCCTCTCCAGGCCTTTGTTTGGGCCACGCCCTCTGCCTGAGGTGCCCTTCTCATGGCGTCCCACCTGCCCATCCCTCAGAGCCCTACTCATGCACCGCCACCTCTGAGAAGCGTCCCAGATCTCCACACTGAGAGTAAATGCTGAACACCTCCCCGGCCGTTAGCACTCGCCGGCTTCATGGAAGTGTTCATCCAGCCATGGTTCCTGAGAGCCTGCCTGTCTCCATGGTAGGCTCAGAAGCAGCCAAGAACCTGGTTGTTACCATGGTGGTGGCCTCCTTCCCTGGGTGGAGGCTGGGGTGCTGAGGGGTGGCTGGGAGCTTGGTCTGTATTGGACACGTGGGGCTGCCGCTTAGTTTTGCACATCAGGGTGCACATGGACCTCTCAGCAGCCCCTGCCTCAAAGGCCGTCGGTGAGAGCCCAGCACTGGCCTCTGCACACTTCATACATCTGTCTGTTAATTGTGTTCTGTTCGCCTCGCAGACTGTGGGCTCCTCTAGGGCAGGGCCTCCTGGAGTTTCTGCAAGTGCCCAGTGAGTGCTAAAAGAAGAGGCAGGACACATGCCAGATTCAGGGAGGCTCCGTCTCAGCAATATAGCTCCCTCCACCCACTTCAATATAGCTGCCCCCACCCCCTTCACCACAACCACTGCAGGGCCACTGCCCACGGTGGCAGCAGGAGCTCTGCATGGTGGAGGCCGAAGTCAGGTCCCGCATTTAGCAGCCACGCCTGGAAAGGCCTAGCTTGGCCTGGCGGCAGCGGCTCTCGCCCTACATGCCATGCGCTTGGGCAGCCCGGGGACTTTCCAGCGTAGAGCCCAGAACAACACATTCCCCATGCTCCCCTCGCAAAGCCAAGGTGGACACTTTTATTCCTGCAGCCCTACCTCTGGCTTCTCACTCCCAGATGCACCCACATGGTCGTGGGGTCAGGCCCTGGCTCTGAATTTGGGATTTGGCCAAACCCAACATGATAACCTCAGAGGTGTGAACGCACAAAACATCAAGTTCCTTGGCCTTTGACTAGAATTTTGATCAACTCAGGGTGTTACTGTGCAAAAACGGCTCTTGTTGACAGCTCTGGGCTTGATGAGAAAAAAAATTAACAACAATTTTATGTATCTCCTTCTAGATCTTTTCTGGGCCCACACACATATTATACAGATCTCATCAATAATGGAGAAACTGGTTTTTTGTTCATTGAACACAGTATAAAATAAGGGGATTGTGGTGGTGAGGAAGCAGAGGGGATTCATAAGGGCCCTTTAGGTGAGCCAGCTGGAGCTGGGTTTGGCTTTGGTCCATGGCAGGAGTGGGCAGGGCTTCCTGTCTCTTTGAGGACCTTCCCTCCCACCACCCCCACAGCTCTGGCCTTTCAGGGTGGACAGAGGCCTTTGACCTCCTTCCTCCAGAGACCTGGGGCCTCTGCAAACCCATCCCAAGGCTCTTTGCCTGCAATGTACTAATCTGCTCTGGTTTCTTAAAACTCACTCCATGCTATTGCCTTGAAGTCAATTGTGATGTCATGGGAGATTAGGGCAACTTGTCAGGGATGAACCATCACAGCAGATGGACTCAGAGATACCAAGACACCTTTGGAAGTCTAGTGCCGTTCATCAGAGATACTAAGATGGCACGACCTCCCCGGCCTGCAGCTGGTTCTCATCAGAGGCCTCATTTGGACTCTGAGCACTCTCAGCTCAGCATCTCCTGATGTTGTGGGTGGTTCAAGAGACAAGAGAAACAGATGTAGATTGGTCAGAATCTGGCTGGGGAGGTGGGAATGACATTGTGGTGCTCACAGTTTTATCGAGGAATATTTGCACCACAGCAGACCTCTGCAGGATGATGGAAGATGCCGGACTTGCTGTCAGAAGCTGGCTGGGCATCCCCCCACACAGGGAGATCTCCTGGCAAGTTGTAGAACTGGCTGACCCTCGGCTTCTCAGCTGTCTATGGAGGATCATAGCATCTGCCACGTAGGGCTGTTTTCCTGAGGTTTAAATAGGATGAGGCTTGTGAAATGGGATGTGAAATAAGAGACTGACGTGGAGGAGAAGTGCAAACAGGGAGGTGAGGTGTGCTTGAGGTTTTAAAGCAGCGGAATGTTACACAGTATTTCTGGCCTGTTCCCCGGGTCCTTTCCTGACCCCACCCTGGCTGTGAGCAAGGCAGGGCTCCTCTGTCCTGGGCAATCGGTGATCCTTGGAGCAGCGGGGAGTTCTGTCCACTGCAGAATGCCTGGCTGTCTTTTCAGGTTGTTTTAATTCCTCCTTGCTACTCTCAGCCCTCCTGCAGGCTTACAGTTCCCTCCCATTAGCTAAACAAAGGATCTCAGAGCAGTTACTTGCACCTTAGTGTGAATGATTTTGTTCACTTGTTCCGTCTCCCTGGATATTTGCATTTTCAATATAATGAGGTTGCGTTTTATGCCAGGGACAAGTTCTAGGAGACCCTGCATCATTCAAAACTAACATATTTTAAGACTAATTTTCCTGTAGGAATTAATGTAGAGTGTGTGGGGGGGGGGGTGGTATATTCTGAGAGCACATAAATCCATAACCAGTGAAGTGTATCTTTGCCTTAATGCTACTTTTTATTTTCTCAGCATTATCTTGAATACCTTGCAGAACGCTCTCTCCTAAATTAACAGCCCAGGGTATCATGGGCTCCCTTGGCCTTCCTCATAGCGTTTTGTCACATTTAACTTCCGTACCAAAGTTATTGATTTTTGGGTACATTTTTCAGCACGAGCACTGCCACTGCTACTTAATGAATACTTGGATGACATTGTTATGGGATATAAAAAAGATTTTAAATTATAATAACAGTGAATGTTAAAATAACAGCATATTAGTCCCCATCATTGCAAGAAGAAAATCCTGTGTGTGTAGCAGTGCCGAACCAGCGGGCCACCAACCAGGATGACGGGTCTATCCCAGTGGCGCTACCATCTGGCTGTGGTGAAAAGAATTTATAATTCCGTAGGCCAAGCTATTTTGAAATTAAGTGATTCTCGAGAAATTAAAACATTTTTGGTGATTGCATTATTTCACATTTTTTAATATAAAGATTGTACACAAGTGCACTATTTCCCATTTGCATAATTCAAAGTTGCATCAGACACTCCCGTGTAGACTATAAATATGCACAGAAGGGACAGACTCCTCAGAATGAAAAGGAAGGCATTTTGGAGGTTCCCCTTTGTCTTTTGGAATGACTCTCTAAGTAGTGTAGTCTCTGTGGCAGGGGCTCCGGAATCCCTACCCTTCGGGTTCAGGGCTTCAGGGAGGGAGTTGGGCCACAGTAGTTCCGGGATGACAGTGGCCACGTGAGAGAAGAAAACAGCCCGAGGAGAAGGGAAGGCACGGGTGTGTCCCCCCTCACTGTGTACACACATGTCCTGGCTGCACAGCTGCTTCATTCCTCTAGTGCCTCCCAAGATCAGGGCAGGCCGTGTTGCCCTCTGGACTTCCAAGGGGGAAGTGAGTTACTGGCCCAAGTCACTCACTCATCAAGAACACTGAAGCCAGGTCTGCTGACTCCAGGGAGAGCCTTGTAGATTGTGAGGACCGAATGCATATAAAGTCCTTAGTCAACACCAGCACATGGTAGGTGCTAACACATGTTGGCTACTATTGTTTCTAAGAGAGGGTTTTCTTGAATGGAAAGAAAGGAGAAAAGACAGAGAGGAAGTCAGGAATGTCACAGAGACACCTTCTGGGGCACACAGGTGAGCAAGCACAGAGAGCAGAGCTGCCCAGGCCAGCTGCTGACTTTATTCCGTGTGTCCTCCAGGGGCACTGTGGAGAAAAGGGCAGTATGCCTAAGTGCTGGGAGAGGAAACAAACCTTTACATTCACCTGTGCTTCCGAACACACGCACGCGCCTCTCTCTGTACCTGACTTTGAATGGAACAAACCAGACTTTAACTAACAGGAACTTGAGCTTGTTCACTCAAAATCTGTCTAGGACTTTGTGTTGATCAGTCAGTGTGTTGCCCAGAACATTCCTTAGACTAGTTTTCTCAAAAAATTTTGACTACAATCCACAGTAAAACTCATTTTACATTTCATCTCAGTACACATATTTATACAATAAAAACTAAAGTTTAATGAAATGATCTTGCCATTCCATCCCATTCTCTTCATCTGATTTCCTGTTTTAGTTTTGATCCACTAAGGTGACTTTACAGCCCACGAGTGGGTTCTGACCTATAGTTTAGAAACCTGCTTAGACACTGTTGGGTGTGCAAGCTCACCCCTGGCTGTGAGCCCAGCGACGCCAGGGCAAAGGTGACATGGCTGTGGGGAAATGGGAGACTCCTGATGAGACAGAGGGGAGGGCATCTGGGGCGACTTTGAACATGACTTCAACCTGGCTGTTCACCTTCACAGCTCTGGCAAGAACTCATGAGGATGTGTGAGCAGAGTGTTTGTCATGACAGGGACGTGTGGAATTGGGTACATTCAATCTGATGAGACTTCTGTGCAGCTGGGCTGGCAGGGGAGGGTTGAGGCAGGGAGCTGAGCAGAGAAAGGACTGCTGTCCTCACTTTTCAGTGGCTTGGGAAGGCCCGTGGTGCAGGAGTCAGTGCCATGAGAGTGGGGACCTCTCCACTCTGATGTCCCCTGTGCCTCGCGCTGTCCTGCCTACAGCAGGCAGGCTTAGGTGCAGAAAGGATGGAAGGGAGGGTGTGGGAGGAGGCGCAGCTGCTGCAGATAGGCCGAAGCCAGTAAGCAGTGGTTTTTCCTTGCAG
Seq C2 exon
ATGACTCAGAGGCTGGAGCTAAGCGGCCCCGGACCACCATCACAGCCAAGCAGCTGGAGACATTAAAGAATGCATACAAGAACTCCCCCAAGCCTGCCCGGCACGTGAGGGAGCAGCTGTCCTCAGAGACAGGCCTGGACATGAGGGTCGTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000121454:ENST00000263726:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.324 A=NA C2=0.762
Domain overlap (PFAM):
C1:
PF0041217=LIM=PD(3.6=2.9),PF0041217=LIM=WD(100=87.0)
A:
NA
C2:
PF0004624=Homeobox=PU(77.2=84.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
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