HsaINT1015261 @ hg38
Intron Retention
Gene
ENSG00000231074 | HCG18
Description
HLA complex group 18 (non-protein coding) [Source:HGNC Symbol;Acc:HGNC:31337]
Coordinates
chr6:30291375-30294964:-
Coord C1 exon
chr6:30294471-30294964
Coord A exon
chr6:30292600-30294470
Coord C2 exon
chr6:30291375-30292599
Length
1871 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGC
5' ss Score
6.3
3' ss Seq
CTGCTATTCTGTCTCCTCAGGTA
3' ss Score
10.96
Exon sequences
Seq C1 exon
GACTGAAGCCAATATTAAAGCAAGTCAACCAAAGGTTCTCTGGTGTAGACAAGACAGCAAAAGGACAGACTACCTTGTGGAACCTAGCATTGTTCTCCTTCTGCAGCACTAAGTAACATTTGTTCTCCGTTAAGATCTTTGCAAACCACACACAAGAATTGCTGGTCATCCTGCCAATAGATGCTGCTCACAGAACCAAATTTCCTGTGCTGAATTGTCACTCATGGGCTTGAGAGTAGGAGACTGGAGACCAAGGTGGCTAGAATCCAGTTGGGCCTGATGTCTCCCTGTTGAAAGGGCTCCTTGTGGAATGAATAGCACATGGCTCCTGTGGTGGATCTGATAGTGGCATAGCACCAAGTGATGCAGGCCTGCCAGGGGCCACAGACACAGAAGATGCTCCCGGGGTCCCCCATGTACTCCAGACACACTGCAGGCCACCTCTCCCAGCAGGTTGCCAGTCATGGGCCCCATCATCATGACTTCTGTCCAAG
Seq A exon
GTGTGCTCGGAAATCTCTTCCTTAACTGTGACTTTCTGACAGGTGGAGGATGTGGTCAGGAGTGGGAAAAGGATTCGAGACGGGAAGAGGGAGGGGTTCAGGATGAAGAGAGATAATCTGTGCCACAGATGCTGGCCCTGCAGTTAGCTCCCACCTAGTCCGTGCACACACATTCTAATCCCCTCCCATTCCTTTACATGCTGCGGCCAGAGAGGCCTTTCTCAAAGTGGAAGTCTCATCCTCACTTCTCTGGTTACAGTGCTGGGCCATGGTAACTTACAAGGCTTAGCAGGAACTGTCTGCGCACTCCCCCTTCCTGCCCACTACCTTGTTTCCCTCCAGTTGCGAGAGAAAACATTGATTGAGCATTAACTATGTGCCAGGCTTGTCCTAAGTCCTTTGCATGTATTCACTCAAACAATCCTCACAACATTCCTATCACATCTCCCATTTCACAGTGAGGGTTCTAAAGCACGTAGTGGGTGAGGAACTTGTCCAGGGTCACACAACTAAGTGGGGGTGGAGAAACATCAAATCTAGGTGGTCCAGGTGGTGGCCAGAACCCATCAGCACCTCACTACAGCTGCCTCCAGTTTCTCGCTCTAGGAAATACTCTTCCCTGTCAACTCCTGTTGTCCTCTGGGCTCAGTTGACATGTCATCTCCTTGAGGAGGACATCCTGAGATGCTCCCCGACTAGGGTGGGCACCCACTTCCACACTCCAAATGCCTATTTGACCTGTGTATCGCTGCATCCCCACTGCCTGGCAGATAGCAGGCCCCTAATAAATATGATTTGAGCAAATAAATATAGTTCTTCAAAAAATAGGGAGGACTTCTTGCTTCAGGTAATGGTAGGCTAGGACATTTGGACCAACCCTCCTGCAGAAAATAGCCATTTATTTTGATGCAATATATCTGGCTATGACTAGAGATTTCAAATATTTGGAGGGCTATTATGTGAAGAACTAAACTTACTCTTTGTGACATAGAGGTCAGAAATTGGTCGTTTCCATAGAGTATGAGAGAGACAGAATTGTGCTCATCATAAGTATCTTTTTTAAAAGTTAGACTTAATAAAATGGGCTGCCTTGGTAGGTGGTGAGTTCTCTGTCACGAAAGAGATTCAGCCACTTGCTCTGAGAAAGCATGGAGAATATCAACATTGTAAGGGTCGACCACCTCATCTCTGAGGCCCCCTCCTCACTTAGGTTGCCATTGCAGGTGGAACACTGGGCTGAGTGTCAAAGAACCTGGGTTCCACAAGCTGTGCGACCATGGCTGGTTGTTTTGGATCTCATTCCTAATATCTGTTAGTTAAGCTGACCCGTCAATACTGACCCACTTCACAGAGTTATGAAGGGATTAAATTAGGTATTACATGTAAATCTGTTTTGTTTGCTTTTTGTTGTTCTTTTTTGTTTTGCTTTTTTCTTTGCATTATGAAATCCCAAGTCAACTTTTTCCATTCTTTTATTTTTTTAAAAATTGACATCATCATTATAACCACAAAATAATTTTTAAAATGGAAAAAAAAAACTCACCTGCAACCCCACAATCTAATACAATAATCATACTTTTTTCCCTTTATTCTCCTTTATTGTGACCAAGGATGACTTTGGGCATTGCTGTGAGGAACTATTTCGTTTAACACCCTACTACCTGAACATGATGCGTACTCAGCCTTTCACCACCCCCCAAGTAGCTACACATGATGTGATAATAGTATTGGTGGTGGTTTTAGAGAGTTGGAGAGAAAACTGAAGTTGGATTTGGGTAAAAGAAAAAAGAGTGGGAATTATTTTTTCTCCATTCTAAAGCCCATAAAGCAATGTTAATTGTTCCCACCCCTCTGCTATTCTGTCTCCTCAG
Seq C2 exon
GTACTGTGTGCAGAAATGTGATTGAGATTCAAGTCAGGGCCTCTCTGCCCTTTTCCCTCCAGAAACAAAACCAAGATAATTTATCCTGAACACGGTGAAAAAAGGAAGGGAGGGAGGAGAAAAAGTCCGGGTCTCACCTGGGATTCTCTGTCTCCTGCAACATGAAGGATTTAGCCTGGGAGGAGGTGGTGAGAACTCTGGGAGAGAAAAAAGAAGGAAAGAATAGTTTTACCCATGCTGAAGTTAATTTAAACCTTCACCTAGAGAAGCAAAAAAAAAAAACCCACACTTTCCCATTTTGTGCCTCCCTTCCTAGAGTTTTAGCCAAAGGTTTAGCTAAGTAATTGGTTTTACCAGCGCACTCACTCCTCCTATCCCAAGTCTGTTTGACTCCCTCCCCATCATCCTCCTCACCTCTTTTCAGGCAGGGTGGGGATAGCAGCAGGAGGAGATTTTGGGAGCCTGGCAACTCCTGCAAGGACCGCAGGACAGCCCCTCTGTGGGGATGCGTGGTGCCCCATCTGCCGCCCTTCTGAAGAATGCACTGCCTTCACTTTTTACTGTGTTAGAGTCCATCCAGACTGTTCTATCCAAAAAAGTTTCTTTTTCCCCCACAGGCAATCAGGAAATGATTCCTTTCCCGACTGCTTCTGTCTAGTGCCTGGGAATCTTGAGTCAATCCCTCAGTAAGTCAGTGACTAGGGAAATCCCTCTCTGAGCCTCCCAGTTCATGTTGCTTAGGGAACCTGATATTTTCGTGAAACCTGCCTACACATGGGCAGCCCAACAGCAGAACAAATGGTGGTGACCAAAGTGAACAAAGAAGTATAGTTGTGCCAGCTTCGTAGTTGCCCATGTGGACAAGTCAGCAGGATCAGGACACGAGGAAGAGTAAATGTGAGACAGTCAATGTGACTTCTGCGATAAACAGATTTTTAAACCCCGAAATTTTGCAAAATTTTGGTGAAACCTGAACTTTCTTCGTTGCATATACTGGCACTATCTGTACCATCATACAACTGTCTCACATTAAAGCTATTTTTCTTGGGCACTGATGAGTAAGGTTGGTATAAGTTCCTCAGATCAACAAAAACCCATTTTCCTGTAAGTCTTACATTTAGTATTTAAGGAACTAAAACTTAAATACATTTTGTGAAATGGTTGACACTTCACTGATAATGATTTATTGCTTGGATTAATAAATTTTCCAAAAGTTGTCTTATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000231074:ENST00000412685:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
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:
ATAGCACCAAGTGATGCAGGC
R:
CCAGAGTTCTCACCACCTCCT
Band lengths:
345-2216
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains