HsaINT0082945 @ hg19
Intron Retention
Gene
ENSG00000139626 | ITGB7
Description
integrin, beta 7 [Source:HGNC Symbol;Acc:6162]
Coordinates
chr12:53591534-53594230:-
Coord C1 exon
chr12:53594027-53594230
Coord A exon
chr12:53591736-53594026
Coord C2 exon
chr12:53591534-53591735
Length
2291 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAAG
5' ss Score
5.75
3' ss Seq
CGCCTTTTCTTGCTGAGCAGAAC
3' ss Score
5.55
Exon sequences
Seq C1 exon
GGCATGGTGGCTTTGCCAATGGTCCTTGTTTTGCTGCTGGTCCTGAGCAGAGGTGAGAGTGAATTGGACGCCAAGATCCCATCCACAGGGGATGCCACAGAATGGCGGAATCCTCACCTGTCCATGCTGGGGTCCTGCCAGCCAGCCCCCTCCTGCCAGAAGTGCATCCTCTCACACCCCAGCTGTGCATGGTGCAAGCAACTG
Seq A exon
GTAAAGATGGGCCTATGGTCTTTGAACCATGTGTATGTGTATGTGTATGTGTATATGTATGTGCAGCCTGGATATATGTGTGTGATTGTGTGGGCACATGTATGATTTTCTGGGAACACTCCACAGTCTCATGTGTGACTGAGTTTGTGCACATAGGACTCCTGTGTGTGGATATACGTGTGTGCATACACATGCATGCAAGTTTCTTGTGCACTTAGGATTATGTCTGTATCCATTTGCTTGTGTATATATGGAGAGAATTTGTGACCATGAATTGGGAGAAAGTATGTGCTTGTGGGAATTCATGCTTGTGTATAGGTAGAGGGAGCTGTTGTGTATGTAAACATGGGAGAAAGGTACTACCCAGTGCGGGCTGCCATAACAAAATACCATAAGCTGGGTGGTTTAAGCAACAGGAATTCATTTCTCCTAATGTTGGAAGCTGGGAAGTCCAAGATCAAAGTGCTGGCTGATTTGGTTCCTCAGTTAGGGCCCTCTTCCTTGCTTGCAGACTGGCTACCTTCTCGCTGTGTCCTCACATAGTGGGGATGGGGTTGGGGGATGGGGGTGGGAACTGCCTCTCTTCTTGTAAGCGCACTAATTCCATCATGAGGGTTCCACCCTTAGGCCCTCATCTAAGCCTAGGTACCTCCCAAAGGCTCCATCTCCAAATACCATCACATGGAGGGTTAGGGCTTCAACAGAGGATGGGGTGGGGGTGGGGAGGGGTAGGGGTGCAGAGTTCAGTCCATAGCAGCAAGTGTGTGGTTAGATTTCTAAGTCTGTGTTTTGGGTGGAGGCATTCTGTTCCTGGGTGTGTAGTAGCCTATGACTGGACAGGTAGAAAGGGAAGGGGTGGAAGCATATGGGCTTGAGGGGGACTGGAAAGGCTTGAGCTACCTAAGTGGCCAAGAAGGATGCTAGGGAGCAGGTGTCTCCCTGGCTCTTCAAACAAAGCTGTTGTTTGTTTATGCTTTAAAGAGACAGAACTCATGGAGCAGCAGAGCAGGAGGGGTGCCCAAGCTGGGATGGGGGCAGGTCTGCCTCTCTCAGTGTAAGATGGAGGGTTAGATCAGTGTGGGAGCCCAGATAAGAGATGGGGGCAAATTCACATGGAAGCAGAGCTACAGATGCTTAGAGGACCCAGGAGAAAGGCACACAGGGACCCAGGAGAAAGGCACACAGTGAATCTGACTGGACAAGAAGGGTAGATACTGAGTCTGCACAAGGCAGAGAGGCAGAGGTGCCAGGCTGGAGCTGGGGAGCTGGCGCTCTTGAGATGGTCAGGTCTGTGTCTGGCTTCTCCAGTCTCCTGACACCTAGGGCCAGCTGAGAAGCCGCTCTAACCATTTCCTTCCCCTGTGGCTTCCCAACCAGTCCCAGGGATACCAGACATATTGGTGGGGAGGACGCCTCCTCTTCTGTTCTTATCCTTTCCTTTCCAAGGAGCTGTGGGTCTTAGTCTGACCACCTTCCCATTTTGGTGTGAGCTTGCTGGGGAGGTTGGCCTAGGAGGCAAGGCCCCTGTTTTTTTGTGGTAGTGAAGTCTCTAAGATCTCAACAGGAAGTCTGTGACTCTATTGGGGAGGAGAGGGGTAGGTGGCTGGGGCAAGGGGGAGTTGAGATAGGGGAGGGGTGGGGGACTGCTATAGGAAGTGGGGCTCTGACAAGGAAGAAAGGACCAGAGTTCCACCGGTGGCGGTTCATGCCTGTAATCCCAGTACTTTGGGAGGCTGGGGCAGGAGGATTTCTTGGGGCCAGGAGTTCGAAACAAGACTGGGCAAAAAAGCAAGACCCTGTCTTTACAGTAGGAAAAAAAAAAAAGGCGTGGTGGTTCACGTCTGTAATCCCAGCACTTTGGGAGGCTGAGGTGGGCGCACTTGAGGTCAAAAGTTTGAGACCAGCCTGACCTATATGGGGAAATCCCGTCTCTACTAAAAATACAAAAAACCTGGGCGTGGTGGCACATGCCTGTAGTCCCAGCTACCGGGAGGCTGAGGTACGAGAATCACTTGAACCCGGGAGGTGGAGGTTGCAGTGAGCGGAGATAGCACCGCAGCACTCCAGCCTGGGTGACAGAGTGAGACTCCGTCTCAAAAACAAAACAAAACAACAAAAAAGACCGGAGTTCAAGGGTAGCTGTGGCGAGGAAGAGGGGAGGGAATCAGGGACTCAAGGAGTGGACTGGAGGTGGGGGCATTAGAGGTGGCCGGGTTTGCAGGGTGTTTTTGGGAGCGGGGCCCAGGGCCTATGCAGGACCGGGTCCCGACGCGCCTTTTCTTGCTGAGCAG
Seq C2 exon
AACTTCACCGCGTCGGGAGAGGCGGAGGCGCGGCGCTGCGCCCGACGAGAGGAGCTGCTGGCTCGAGGCTGCCCGCTGGAGGAGCTGGAGGAGCCCCGCGGCCAGCAGGAGGTGCTGCAGGACCAGCCGCTCAGCCAGGGCGCCCGCGGAGAGGGTGCCACCCAGCTGGCGCCGCAGCGGGTCCGGGTCACGCTGCGGCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139626-ITGB7:NM_000889:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.254 A=NA C2=0.485
Domain overlap (PFAM):
C1:
PF0143720=PSI=PU(51.1=34.3),PF0036213=Integrin_beta=PU(42.5=25.4)
A:
NA
C2:
PF0143720=PSI=PD(65.3=69.1),PF0036213=Integrin_beta=FE(17.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)