HsaINT0138840 @ hg19
Intron Retention
Gene
ENSG00000056586 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:21461]
Coordinates
chr9:125642873-125645658:-
Coord C1 exon
chr9:125645483-125645658
Coord A exon
chr9:125643074-125645482
Coord C2 exon
chr9:125642873-125643073
Length
2409 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGC
5' ss Score
10.22
3' ss Seq
TTCTCTTTTCTATTTTTTAGGTT
3' ss Score
12.89
Exon sequences
Seq C1 exon
CTATGCAAGAAGAGGCCTTGAAGCTGGTGTTACTGGCATTAGAAGATGGTTCTGCCCTCTCAAGGAAAGTTCTGGTACTTTTTGTTGTGCAGAGACTAGAACCAAGATTTCCTCAGGCATCAAAAACAAGTATTGGTCATGTTGTGCAACTACTGTATCGAGCTTCTTGTTTTAAG
Seq A exon
GTAAGCAGTAAGTATCTATGTAAAGACATGCCTGTTTGTGAGACAGAGACTTCCTGAAATTCATGTTACCCAGTCTAGAGGCCCTAGCAATGCAGAATGCTTACAAGAGTTGAGAGGAAACTTTCCTTCTGCATTGATTGCATCTGTGATACCACCTTTTGGTAGTACCCATTACTATCTATTGGCAAAATAAGAGCATATATGTGAAGATGTCAGTAACGGAAAGAACATAAGGAAATCATTTGGTAAACTTGACTCTTATCAAGTAAAAGTGGACTGCAGAAGCCTCATTTCTTTACATTTAGTGTCTTGAAATCAGACTATATTGGAAACTTCATAAGGAGTATGTAAACTTTGTAACCCATTATTATGTTTGTTATCTCATTCTCTGTAGTGATTAGATTAACACCTTTAATCTGAAAATGGCCTACATGTTATCTCAGATACAACCAGGAAATGGAAAGTTGAGGAGATTGGCCCACTCTGCTTTTAGATGTTGTTTTTTGTTTAGTGGAAAGGGTAGAGAAGAACCCCAAGATATTTTAAAATGTAGTTTCATTGTCTAATAGTCTAGCGGGTAGTGACAGATACTGAAAGCAAGCTGAATCCTTAAAGTGTTTTTATGATCCAAGAGTGTAGGTTGCTGGCTGGGTCTTGAGAAAGGCTCATGTACTTGGAAATAGAAAGGCCTATTGGCTTCTATGAAAGTAAAACATTTAAATTTGAAACCAAAGCTTATTTAGGTTATTTTGTTGGTTTTATAGCCCCCAAGAGTGAAAATAGTACAGACAGAAAAATGTTTCTTTGGCAGAACACTTAGTTTGAGATAACAGGTAGTTGATAATAGAAATGTGTTGAAGTGAATTCATTTAACTCCACTAATGAGGCTTGGACACTAGCTGCCTCATAGTCATAGTGTTTAGTTTCATGCTCTTAGGGCAACAATTGAAATTAATCTCTGGTTCCACACACAACCTCACTAGGCCCTGTAAAACTCTGTATCTTTTGAATGTGTAGTTTTTTTTACTACTTAAGTAGAAATTAAAGCTATGTAAATACCCTGATGATAATTTCTCTGGTAGCAGAACATTTCTTCTTTTCATTTTTTTTTTAAAGCAACAGACTTTTGCTCTGTTGCTTAGGCTGGAGTGCAGTGGTGCCATCATAGTTCACTGCAGCCTTGAACTCCTGGGCGTAGGCCATCCTCCTGCCTCAGCCTCCCTAGAAAATTTCTTAATTATCATGTGGTAGTGGTAATATATGCCTACCTATTAGCTGGATTCCTTGCTTGTCTATCTTTATCCTCTACTGTTACCAAAGTGATGTTTTTTAAAGCATAAATCTGATCATGTCACTTCTATGCTTAAAAATCCTCAATCAGCTCTGTGCAGTGGTTTATACCTGTAATCCCAGCACTTTGGGAGGCCAAAGCGAGAGGATTGCTTGAGCCCAGAAAGTCAAGGCTACAGCGAGCCTAGATTGTGCCACTGCACTCCAGCCTGGGTGACAAAGACCCTGTCCTCTCCATCCCCACCCCTGCAAAAAAAGTCAGTGGTTTCACATTCCCTTCATAATAATATCCAAATTCCCTGCCGTAGTATATAATGGCCTGTATTCTTCTCTAGCCTGTATCATATCTTAACCCTATGTGCTCTGCTTTTTCATGTTTCTGTTTCACCACTTGTTTCTCTTTTAAAAATTCTATTTCTCCCCCTTCTCTTTTTTCCTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACTCTGTCCCTCAGGCTGGAGTGCTGTGGTGCTATCTCAGCTCACTGCAACCTCTGCCTCCCGAGTAGGTGGGAGTACAGGCGCCTGCCACCACCATGCCTGACTAGTTTTTGTATTTTTTCTTGAGATGGGGTTTCGTCATGTTGGCCAGGCTGGTCTCAAACTCCTGACTTCAAGTGATCTGCCCACCTCGGCCTCTCAAAGTGCTGGGATTACAGGCATGAGCCACCATCCCTGGCCTCCTCACCTTTCTTTGCTCAGGAAACTCCTGTTTATTGTGCACAAATCAATTCATGTAGCTTTCAGCTGGGAGAAGCCTTTTCTGAAATCCCTTTCTTCTCCCTAATTTAATTCCCTTTCCTCTTTGTTGCCATCAAGCCTTATAACTTTTACTATAATTTTCTACTTACAAGTTTCTCTTTCTTACTAGTGGCTGAAATCATTGAAGGCAAGGATTATGTATTTAGTTATGTAAGTTCTGTTTTGTTCCAGAAAGAATTTGTGGTCAGGACATTATCTTATCTTTGTACCTTATTTCTGTGGTGTCTGATATGTAAGTATCCCCCACCCTCCCTGAAAAAGGAATAAACGAATCAGTTGAAGGGAGAAAGCACAGACCAATTCTGATTTTTCTCTTTTCTATTTTTTAG
Seq C2 exon
GTTACCAAAAGAGATGAAGACTCTTCCCTAATGCAGCTGAAGGAGGAATTTCGGAGTTATGAAGCATTACGCAGAGAACATGATGCCCAAATTGTTCATATTGCCATGGAAGCAGGACTCCGTATTTCACCTGAACAGTGGTCCTCTCTTTTGTATGGTGATTTGGCTCATAAATCACACATGCAGTCTATCATTGATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000056586-RC3H2:NM_018835:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.015
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0028516=Citrate_synt=PU(25.6=59.7)
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)