HsaINT1037480 @ hg38
Intron Retention
Gene
ENSG00000228060 | RP11-69E11.8
Description
NA
Coordinates
chr1:39572455-39573203:+
Coord C1 exon
chr1:39572455-39572678
Coord A exon
chr1:39572679-39573080
Coord C2 exon
chr1:39573081-39573203
Length
402 bp
Sequences
Splice sites
5' ss Seq
AAGGTAATC
5' ss Score
7.46
3' ss Seq
TTATCTGATTTATTTTTCAGTGA
3' ss Score
9.39
Exon sequences
Seq C1 exon
ATTTGTCCAGGTTCTTGATGAAGACGTTTCCCACACCAGATTTTCTCAAAGAGGGATCCCTCTGAGACCACATGATGCGGATTGGCTTTCCCTTAATCACATCAAAGTTCATGGTGTCCAAAGCCCGCTCAGCTGTAAGAGAGAAACACATTTCAATAAGGAGAGAAAACGTCAGCTCCCACAGGCCAACAGCCTAAGAACAGATTACTCCAGGACTTTTCAAG
Seq A exon
GTAATCACTCTTGATAAAAGGCAACTCTATTAAAATAAAAGGGCATCAGATTCCTCCAGCCTGCACTGTTAGTAAGGGAAGCATAAGTTCCAGCTAATGACTCTACTTCATGACAGAAGTCTAAACACCCTTCTGGGTCTGTGCCCTTGTTGGATAAAGGGGCCACAAGTAAAGATAATCTAAATGGCCTTAATGACACCAAGATCCAGTGATAATACCTCACATTTGACTAAGCTTTACCACTTAGAAGAGACTTTGCAGACTACCACCCACCATGACTCAGGTGGGACAGCTGAAATTATACATTTTACAAAATGAACAAACTTATGTTTAGGGTAACTAAGCTGTGCAGCTAGCTAGTAATTACGAAACTAATACTAGATTATCTGATTTATTTTTCAG
Seq C2 exon
TGAGGTATTGCATCAAAGTTATCAAGTCATTTAGTCTGCAATCCACCTATGGAGACAAGTGACAAAACCTGTAAAGCAAATGATCTGGAAAAAAAAAAAAAGGTGCTATCCCTGAATTCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000228060:ENST00000415255:3
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
(mm10)
No conservation detected
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:
GTCCAGGTTCTTGATGAAGACGT
R:
TCTGAATTCAGGGATAGCACCT
Band lengths:
342-744
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains