HsaINT0138375 @ hg19
Intron Retention
Gene
ENSG00000203867 | RBM20
Description
RNA binding motif protein 20 [Source:HGNC Symbol;Acc:27424]
Coordinates
chr10:112540559-112543185:+
Coord C1 exon
chr10:112540559-112541642
Coord A exon
chr10:112541643-112543123
Coord C2 exon
chr10:112543124-112543185
Length
1481 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TTTCTTTCCTTCTGACCTAGGAC
3' ss Score
10.33
Exon sequences
Seq C1 exon
TGCCGCCAAGCTCCTGGACAAGAACCCATTCTCGGTCAGTAACCCGAACCCTCTGCTTCCTTCACCTGCCAGTCTCCAGCTGGCTCAACTGCAGGCCCAGCTCACCCTCCACCGGCTGAAGCTGGCACAGACAGCTGTCACCAACAACACTGCAGCCGCCACAGTCCTGAACCAAGTCCTCTCCAAAGTGGCCATGTCCCAGCCTCTCTTCAATCAACTGAGGCATCCGTCTGTGATCACTGGCCCCCACGGCCATGCTGGGGTTCCCCAACATGCTGCAGCCATACCCAGTACCCGGTTTCCCTCTAATGCAATTGCCTTTTCACCCCCCAGCCAGACACGAGGCCCCGGACCCTCCATGAACCTTCCCAACCAGCCACCCAGTGCCATGGTGATGCATCCTTTCACTGGGGTAATGCCTCAGACCCCTGGCCAGCCAGCAGTCATCTTGGGCATTGGCAAGACTGGGCCTGCTCCAGCTACAGCAGGATTCTATGAGTATGGCAAAGCCAGCTCTGGCCAGACATATGGCCCTGAAACAGATGGTCAGCCTGGCTTCCTGCCATCCTCGGCCTCAACCTCGGGCAGTGTGACCTATGAAGGGCACTACAGCCACACAGGGCAGGATGGTCAAGCTGCCTTTTCCAAAGATTTTTACGGACCCAACTCCCAAGGTTCACATGTGGCCAGCGGATTTCCAGCTGAGCAGGCTGGGGGCCTGAAAAGTGAGGTCGGGCCACTGCTGCAGGGCACAAACAGCCAATGGGAGAGCCCCCATGGATTCTCGGGCCAAAGCAAGCCTGATCTCACAGCAGGTCCCATGTGGCCTCCACCCCACAACCAGCCCTATGAGCTGTACGACCCCGAGGAACCAACCTCAGACAGGACACCTCCTTCCTTCGGGGGTCGGCTTAACAACAGCAAACAGGGTTTTATCGGTGCTGGGCGGAGGGCCAAGGAGGACCAGGCGTTGCTATCTGTGCGGCCCCTGCAGGCTCATGAGCTGAACGACTTTCACGGTGTGGCCCCCCTCCACTTGCCGCATATCTGTAGCATCTGTGACAAGAAGGTGTTTGATTTGAAG
Seq A exon
GTGAGTTGTCCAAGACAGGCTGGGAGCCACAGCTAGAAGCCTGGGCAGGCCTTTCCCCATGACCCAACTCACGCTGCCAATGGGCAAGGAACTGTTGCATTGGGGTAACAGAATTTTGCCATCAGTATTCTTGACTAAAATCACAGGTATTAGGACCCATAGGAATTTCAGAAATGTATCAGGACCAGTCCCTTGCTTGAAGGTGAGTCAGAAATTCTTACACACTTTTTCTAGATGAGAAAGCTGAGGCTGAGTAGGGGAGCAAAGGACCCCACCTGGGTTGCAGAGAGAAGGGGCTCAGGAGTTTCCTGCCTTCTCGTGGAGGGCTTCTCCCCCGTAGTATGCCTAGAATCTACTGCCCCTTGAGTACCCATATTGTAGTGAGTTAGAAAAGAAAAAAAGCAGAATTTTGGATCAGGGGAAACAGATTAATTCCCCCTTGGGACCTAGACAAATTATTATAGAGAGCCTCAGCTTCCCCATCAGCAAAATGGAGGTAGAGTCTCATGACACCTTCCCGGTGGTTGGGAAATGCTTTGAGTTCCTGCAAACAGAGGTATATGATAGTATAATGTCCCCCCAAAAAATGTATTGCAGATGCAGTGAAATATTTTGAAGCAATAACAATTATAACAAATACCATATATTAAACCCTTTCTGTGTGCCAGCAGTAACTCTTATGAGGTAGATATTATTATGATTTTCATTTTACAGATGAGAAAACTGAGGCCCAGAGAGATGAGATGACTTACTCAGCCCCTTCTCCCCGCCACCTCCCCAGCTTGAAAGTGGCAGAGTGGAGATTCAAATGTGGCCCTGACCCTTTCAGAGCCTGCACCATTTAAACACTGGGCTGTCCTGCCTCCCATCTCTCATCCTGTCCAAAAGCATAATAATGTCCTTGCAGAGTGTGAGTCACACTGCAGCATGTCATTCACCTCTGTTTGGGTCACACCATCCAAGTGCATCCCTGTGACCCAGATAGGACATGCCCTCTGACCTCTAGTCTTGGGAGGGGACTAGCTGACACGGGGAGGTGCTCAAGGATTTTGTCTCTCATGAACCTTTTCTAAGGCTTTGTAAGTCACTGTGAGTCTACCTGCCAGATTCTCCCAACTGGATATGAAATAGGTGGGGTCTTCCTGGGGGAAAGGAGAAGGGGTGGGAGGTGGGAGGTAGGTGGTGGGGGCAAGGGTCCATTGAGAGGGGTAGAGGGAATCCAATTTGTGAGTCTGGGCTCCTGTTCAAGATGGGCATGAGATGTATGGATGAGGAGCTGATGGAGCAAAGGCTGGATGGGGAGGCAGGAACAGTGGGAGGAGCCTGGGAGGGAGAGAGGAAGGGTGGAGGGATGTGTCTGCAGGGGTGGTCCAGCCTCTGGGCGCTCTGTGCTCCCTGCCTGACCAGTGTCTCTGTGCTCATCCTTTGCCTTCCCATGGACTCAGTTCTACTTTGGTCACTTTTCTTTCCTTCTGACCTAG
Seq C2 exon
GACTGGGAGCTGCATGTGAAAGGGAAGCTGCACGCTCAGAAATGCCTGGTCTTCTCTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000203867-RBM20:NM_001134363:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.785 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF121713=zf-C2H2_jaz=PU(51.9=3.9)
A:
NA
C2:
PF121713=zf-C2H2_jaz=PD(40.7=52.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGCAAGCCTGATCTCACAGC
R:
AAGACCAGGCATTTCTGAGCG
Band lengths:
345-1826
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)