HsaINT0082966 @ hg38
Intron Retention
Gene
ENSG00000198542 | ITGBL1
Description
integrin subunit beta like 1 [Source:HGNC Symbol;Acc:HGNC:6164]
Coordinates
chr13:101714438-101716443:+
Coord C1 exon
chr13:101714438-101714551
Coord A exon
chr13:101714552-101715562
Coord C2 exon
chr13:101715563-101716443
Length
1011 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCAG
5' ss Score
4.95
3' ss Seq
CTATATGTATTTTATTGCAGGGA
3' ss Score
8.38
Exon sequences
Seq C1 exon
GTTCTTGTCATTGTGGGAAGTGCATTTGTTCTGCTGAAGAGTGGTATATTTCTGGGGAGTTCTGTGACTGTGATGACAGAGACTGCGACAAACATGATGGTCTCATTTGTACAG
Seq A exon
GTGCAGTATTAACCTTTTCTAATTGCTCTATGCCACAGTTTGTTATAGAGCCAAGAGACACTCGTCATGCAATGCTTTAGGTGGCTGGACCAACAGGGCCAACCGTGAATATGAAATATCTACCAAAGGCGAAGTGGGCATTTGGGAAAAAGCCCTCACAAAAGCCTCACATTATTCCTAGGCATAGAAGAATACAAGAGAATGAAGCTAAATTTTGTGATTATTTGGGATCCTTCCACAAAGTAACCTCCCCACCCTCAAACTCACATGTATGCAGTTGTATATTGAACACAGAAAAGAATTTTGTTGGCAACCATTTTACTTTGAACATGGTATAGGGAATGAAATATTCTTTTAAACAGAATCTGGGTACCACTAGTTGATGTGTTGGTTGCTTTTAGGGAACTGGATGTGTGTATGGGGGAGAGGTATAAAGAGGGCTCAGCCGTGTCATAGCCACTGCTATCCTAATTTATTGAGTCCTCATAATTGGTTATAAATTCATTTGTTTAGCCAAGTTACGAGGAAACAGAGACATGTATACTTCTCCTCAGCTCTAGCTGAAGGTAAAAGATGACTCTTTGTGTGTCATTAAGTTAGACCTTTGCTTTCTGCCCATCCTTACTACGTAAGACTCTCTTCACGGATTACTTGGCCTGCCTCATGTTATGTCAAAGAGCCTTATGTTTTTCTGTATTTATTCATAAGTCAGATATAACTTGCTCTTTAAGGGAAAACAAAATTGTCACCTAAAAGCCTAGCTGGAGTGATACAGGATGGTGACTATCTGATCGGTAAAGGGTGGCACCAAATAAATGCCACTAATTGTTTGAAAGATTAGATGTCTCGCAGCTGCTTAATAAGATGTAATAATAACATCATTGCACAATAAGAAAATCTACCAAGGATGAATGAAATGATTTCATTGTGGACACTTGTGATTTATAATAGCATGTTTAAATTTGGCACATTTTGATCATAATCATGATACCTATATGTATTTTATTGCAG
Seq C2 exon
GGAATGGAATATGTAGCTGTGGAAACTGTGAATGCTGGGATGGATGGAATGGAAATGCATGTGAAATCTGGCTTGGCTCAGAATATCCTTAACAATTACATGAGAGAGGTCTGGATTCTTATTTTTTCTGGGCCATTAGAACAGATAAATGCGAAGGAAACCATGTATATTCACCACTAGGACAGGTTAAAAAGACCATTGTATGTTTTTCTATTTCTGAATTACGAATGAAATCCGAGTACCTATTAGAAATGAGTTATGCAAATTTAGATGCAAATAACATTAGAAAAAAAAGATTCTTCCATAATTAACATAAGTGGTTCCTAACGAGAGCAATTTTTCCACCCAAAAGTCATTTGGCAACATCTACAGACAATTTTGATTGTCACACTGGGTCGGGTAGGAAGGTATGCTGCAGACATTTGGTGGGTAGAGGCCAGGGATGCTGCTGAGCATCCCGCAGTGTACAGGACAGCCCCCAAACAAGGAATTATCCAGCCCCAAATGCCAATAGGGCTCAAACTGAGAAACATTGAGTTATATGGCTATTAGAAATCCACATTCTTACACAAGAAAGACCATATTAGAATCTAAGGAAAACATGCATATTCACATTAATTAATCGATCAGATTTTTCCAGAATTCCGTATCAGTCACCATTTTAATATGGGGACAATGAAGACAAGCACACAGGAGGTAGAATATCAGAGTGGGGCTGGATCAAGGGCAAAAACTGGTCATTAAGTCATCTGACATTAAATCATTTAGCCACTAAGTTATTTGTCTACTCTCACTTTAAACTCACCAAAGAAGATTCTCTTAAAGAAATTATGAAAAATGTACAATTTAACATTTTAAATAAATAGTGACAGAAGTTGTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000198542:ENST00000376162:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF079748=EGF_2=PD(64.7=56.4),PF079748=EGF_2=PU(29.0=23.1)
A:
NA
C2:
PF079748=EGF_2=PD(64.5=64.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGGAAGTGCATTTGTTCTGCT
R:
AGGTACTCGGATTTCATTCGTAA
Band lengths:
345-1356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development