HsaINT0094507 @ hg38
Intron Retention
Gene
ENSG00000245522 | RP11-540A21.2
Description
NA
Coordinates
chr11:9754770-9757843:-
Coord C1 exon
chr11:9757767-9757843
Coord A exon
chr11:9756899-9757766
Coord C2 exon
chr11:9754770-9756898
Length
868 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGT
5' ss Score
7.43
3' ss Seq
GTGCACTCATCCATTCACAGATT
3' ss Score
7.41
Exon sequences
Seq C1 exon
GTTGTCTGCAGAGTGAGATTATGGCGAAGCATTTTATTCTTTTTACAAACCTGCTTTTTCTCAGTTTTCCACATTGG
Seq A exon
GTATGTATTGGTGATAAGGAAAAAAAAACTACAAAAGATATTTTTTGAAAAAAAAAAATCACATGGAGAGAGAGAAAAGGGGACGAATTGGCCTATCAAGGGGGTTTCCGGAAGTTAACTTTCTAGTATCTCTGTTTGCATGTAGACTCCCAGGGTGCCCTGGGAGAAATGGAGAAATGAAGCCCAGGACATGAGGCATTGGGATGGATGGTCCATCTTTCACATGTGCTGGGATTAACTTCCTTTAAGAAAAAAGGAAGGCAAAAGGGTTCCCAGCCTTAGGGTTGGGTGGGGTAGAGGCTCCAAATAAACCAGAAACTCTTGAGTAGAGGTGGTCAGTCATTGCTGTCTGGTTCAAGCGCTGATTGGACCCAAGGGGACCAGATCCAGGATATATTTGAGAACAAGGAATTTATTTCAGAAAGGGGCCACTCAACAGTCAGCATTTACTAAGAACCTGCTTGGTACAGGGTGCTGGAACTACCACAACGAGGCTGCCCCTTCCCTTAAGGAGTTCTGGGCTGACTTTTGGGAAAGTTCATCAGCGGTGACGGGTAGTGAGTGAGGCAGATCAGCAGGAACATTACAAGCCGCAGGAACCGTCAGCTGCTGATAGAGGCCCTGGGAGGTAGAGTGGAGAACAGCTCTGGCCACCACAGCTAATGGCCACCAAGGGAGCGACAGGACCCTTGAGGGGAGAGCAGAGGCTGGAGGTCCTTGGGGTCTACTGGGAGGTGGCAGTCACAGGCCCTTGGGTCCTCTCCACAGCCTTGCTGGAACCTTCCAAAGAGCAGGTGTGACTGGGGAAGTGTGTTGCTGGGCTGTCACCCTCACCTGGGACCTCCTCTGTGCACTCATCCATTCACAG
Seq C2 exon
ATTTGCCAGCTACCTGCCTTTGCAGGACACCTCAGAAGTTACAGACTTGCCTGTGGAAATGCAGAGAGCACCTGAGGTATTTCCCGGACTCTCCAGTAGTAGCCTTGAATGGCTGACCAACCGCAGTCACCTGCCAGATCTTCTCAGAACCGGCCAGCCCACCAGCGACAGGCCCATTAAGTGGCCTGGCCCAGCCCAGATGGAAAACCCCCTCCACGTGACTTTCTAAAGAACATGCATGAAGACAAAACACCAGGTGCCTCAGGTGTGACACCCTGAGGACACATCACCTGTACAGTATCCTAACCCACCCAAGATGACACAGTAAGGTAAAACCACAGTAGAGCCCAGGCCTGTTTGACTCTGAAGTCCAGGCTCCTTTCCAACTTAGTGCCCTAAAGGCCTGATTGGGGTGGGGGTAGGCAGGAAGATTCAAGCACTGATTGTTTGTAGCCCAGGCTGGGAGGGCAACAGCTCTAGAAAAAAAGTCACTCACTGCTTTAACCATCTTCCAGCTAACTGCAGTGAGGTGTACAGGGCCATGGGGCTCTGGGATGAACTCTTCCACCTCTACACCTTGTAAACAAGGATTCCAGACACACCCTCCAAATGGGAATGGAGACACACGTTTGGCAGAGTTGGACAGTAACGCTGCTCTCCTATCAGCCTGGACTTTGAGGGGAGTGGAAAACATGAGTGTGGAGGTGCAGCAGTCCTGGTATCCCCTGAAACCAGCCTGTGGGGGGAACAGTCTTCCCAGGGGAGCTGCTCAGGATCGTCCTGGTCCCATGCATCAGGAAGAAAAGGGAACCTGAGAGCAGAGGGAAAATGCAGAAAGTGGGGCAGGGAGACTGCTCCCTGAAACCCCCATGGGCTGCTGGTCCAAGCAGAAAGTGTTGTCGGAGGGGGGAGAGGCAGGGTGAAATGGGACAGGAAACGAGGACTTCCGATGAGGAGGAGGAGGGGGCAGTGGGCTGCGGGTCTTGGGGACTGAACAGAATGGGGTTTGCTAGACAGAGCTTTCGTCTACCCACTCCTGAAGTCCTGCTGGACCTCAGCTGGCCCTTGTGAACTGTTGAGGGGGATATAAACACAAAGGCCTGCATTCCTGTGGGTGCACAATCCTAAGAGACCATGGACTGCCTGTGTGTGGTGGGAACAGGAAAAGGAGGCTGAGTGTAGCCCTGCTTGGAATTTAGTGTCCACCACAGATGTATCCACTACCCAGGGCCAAAGACTCGGCAGCCTCAGAAGACTCAATGGAAGCTGAGCACAGGACTAGAAAGGGTCAGGGCCCTCCTCTGTATGTAGGGGTGGCACATGGCCACTAGCTGGGTGATGGGGCACTGAGAAATTAAATGTTTGACATAAAAATGTAATCAGGACCCGAGAGGAGGTGGGTGGTGTAATGAACAGCATCCTAGAAGTCCGGTACAGATTTCACGTGTCACCTTCTAGTTCCTTATCTGAAATTGAAAGGTGAGGTCAGGTGCAGTGGCTCAGGCCTGTAATCCCAGCACTTAGGGAGGCTGAGGAGGGCATATCATTGAGGTCAGGTGTTTGAGACCAGCCTGGCCAACATGGTGAAACCTCTACTAAAAATACGAAAATTAGCCGGCTGTGCTGCACACGCCTGTCGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCCCTTGAACCTGGGAGGCAGAGGCTGCAGTGAGCTGAGATCACACCACTGCACTCAAGCCTGGGCATCACAGCGAGACTTCTTAAAAAAAAAAAAAAAATTTAAAGGTGAGCCAGTTCAGGCTTCTAGAGGCACTGCAGTTACAGACGGTAAACTGCACAAATCCTGGGTGTGAAGCTGTTTTTTCCTGTGTAACCACCACCCATTGACAGCATCCCAGAAAGTTCAAGTGTGTCCCTTCCCAGTTTACAGCCACCCGCCTCCCACCCTCACTTCTAAATCCACCGATTAGCAGTGTGTCTTGGAAATTAATATACAAGGAATCATATAGTATGTGCTCTTTTGTGTTTGGCTTCTTTGCTCAAGATGTCCGTGAGATTCAGCCGGGTTGCCTCTCTCTGTAATATGTTAATTTAGGTGTAGTATCCATTGTCTGGAAATACAATTGTCTATTCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000245522:ENST00000500698:2
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
Other assemblies
Conservation
Mouse
(mm9)
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:
TGCAGAGTGAGATTATGGCGA
R:
ATGTGTCCTCAGGGTGTCACA
Band lengths:
358-1226
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains