HsaINT1022511 @ hg38
Intron Retention
Gene
ENSG00000238133 | MAP3K20-AS1
Description
MAP3K20 antisense RNA 1 [Source:HGNC Symbol;Acc:HGNC:27935]
Coordinates
chr2:173207547-173209945:-
Coord C1 exon
chr2:173209647-173209945
Coord A exon
chr2:173207659-173209646
Coord C2 exon
chr2:173207547-173207658
Length
1988 bp
Sequences
Splice sites
5' ss Seq
ATAGTAATA
5' ss Score
-3.61
3' ss Seq
TTGTTATCTTCATTTTATAGGTA
3' ss Score
10.87
Exon sequences
Seq C1 exon
CTATGGTCAGAAATCAGGACTGTCATTCAGATCTCTGGTTCACTTCTTCATTGAGACGAGTGATGGTCTTTGAAAGCCAGACGCTGTGGCCTGCTGTCGGGGCTACCCACCTCCACTCCGCCTTGTTGTGTAGGAATGAGTTACACTTGTCAGGAAGGCTCGTGTCATTTGACATGGACTCCAGGATTGAAATGATTTGCTTGAATGATGGCCGTTTCTGAAGAAGAGAAAATAAGTAATCATTCGCTGGGACTTAAGAAAGGAGATATTTAAGAGAAAACGTAGATACTACAAGCATA
Seq A exon
GTAATAAACTCAACCCACCATAACAAAATAAAACATGATACAATGTCCTGATGTAGTTATTTTACAATCATCAGATCACTCAGGTTTAGGGAGCTCTATTCTTTATTTTCGGTGAACTATTCACAAGGAGAGATTCAGATGCTGTTTTCTATCGTGTGGCCTAAGGTTGGGATAATTCATGTTTTTTGTCCAGGAAGGGAGAAAACTAATTCTCTCTTTTAAGAACTCCTAAAAGGAAACAGTGAAGTCCTTTAAAAATCTCCGTGATAAAGCCAGTAAAAAGTTAACAGTAGACTGTGTGTGGTGGGATGTTAGTGTTCACTGTAAAATTCTTTCCACTTTTATGTTTGAACATTTTTATGATAAAGCGTTGGGGGGAAATCTACCTATCAATCTATTGGAACTAATAAAATTTTCCAAATTGGTTTGTCAGAAAAAAAAATTCAGGTACTATGCTGATTATCTGGGTGAGGAAATAATCTGTACTCCAAACCTCCATGACACACAATCTACCTATATAACAAACGTGGCCATGTGCCCCTGAACCTAAAAGTAAAGTAAAAACAAGAAAAAACCCCAATTTTAAAGCCATCATAACTTCACTGTTCTCAATATTTATTTTCTGTTATAATTAGCTTTAGTGCTAAGACACTGTAAGGTACTGTTCACTAGAAATGAGCAGTGGTTAAGTGTGTTTCTTGAGCTGGCAGTAACTATTCTAGTCTATCTCTTTAGACTCTAGCCAAGGTTGAGACAAAAGGTTAAAACAAAAAGAGAAAGATAATAAAAAGGATGATGCACATTCTCTCTTCATCATGCCTCGTAATTACGCCATTACTGAACAAATTATAGTTGCAGCAATTAAAACATGCATTTTAATTTAAGAGCACAAAAACAAGAAGAAACAATGTTGAGGTGGCTTGCTCTCAGGATTTAAGTGCTTCCTACATTACTAAGAAAAGCAATTTTTCCATTTCTCAGAAATATAAAAACCTAGGATATATAATGAGTTCTGCCATTATTATTCTCTTTCAAGGGCACTTGTGTGCATGTGTGTGCCTGTGTCTTTCCTTGAAGAGGGCACACATAGATAAATGTTACTGATATATATTAAGCCTTCTAATAAGCAAAGAGGAAAATGCCCTAAGTAGGAAGCTTGAAAAATGTTCTATTTATCTTCTTTAACTTTGTCCTCCTCTTAATTTCTCCCAGCATGTATCAGGTTTTAAAATGATTTTTTTTTTTTTTTAAGACAGAGTCTTGCTCTGTTGCCCAGGCTGGAATGCAGTGGTGTGATCATAGCTCACTGCAGCCTCGACCACCTGGGCTCACCAATTTTCCTGCCTCAGCCTCCCAAGTAGCGGGGACTAAAGGTGTTTGCCACCATGGCCAGCTAATTTTTTAGTTTTTTATACAGAGGGGTCTCGCCATCTTGCCCAAGCTGGTCTCAAACTCCTTGTCCCAAGTGATCTTCCTGCCTCAGCCTCCTAAAGTGATGGGATTACAGGCATGAGCCACTGTGCCTGGCCTGAAAAATGTTTTAATCATTTGCATAAGAACTAATTATATAATAAAGGATTTTCATTTTGCAAGGAAAAGCAGCAGGAAGAGCTAATGAATTTTTAAAGAATAATTTCCCTACATTTAATCATTCTTAAAATAAGGTGAAACTCTTCTGTAATTGGATGACCAGCATCCCTAGAAAAAATTTAATTTTATAGTCAGAACCTACTCTTGGATAGAGGTTATCAAAGTGAACATTTAAGAGGTGATAACAATGTAGATTTTTGTGGTAATAATATTCTATGAGTATTCTGGTTACAGAATACAACACTTTGTCTAGGATCTTATATAAATTCCTCTGAAGCGGATTAGGTTCCTTTTAGGCATCACATAGGATTTGCTTATTCAAAAAAAAAAAAAAAACTGGGACCATTTGTGAAGCATCTACATACATTATTTCTCTATTTGTTATCTTCATTTTATAG
Seq C2 exon
GTAAGGACCACAAGTCTCAGAAGAGTAGGAAGTGCCCAGCATCACACAGGAAGCAAGTTACAGAACCAAGGGCTCTGTTCATAAACTGTTCAACATCTTTTATCACATAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000238133:ENST00000423106:6
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
Cow
(bosTau6)
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:
TGGTCAGAAATCAGGACTGTCA
R:
TTGCTTCCTGTGTGATGCTGG
Band lengths:
352-2340
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains