HsaINT0035047 @ hg19
Intron Retention
Gene
ENSG00000106069 | CHN2
Description
chimerin (chimaerin) 2 [Source:HGNC Symbol;Acc:1944]
Coordinates
chr7:29546844-29549022:+
Coord C1 exon
chr7:29546844-29546981
Coord A exon
chr7:29546982-29548916
Coord C2 exon
chr7:29548917-29549022
Length
1935 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
ATCATGCGTGAACTTCACAGAAA
3' ss Score
4.09
Exon sequences
Seq C1 exon
ATGGTGAAAAGGCCGATATATCTGCCAATGTCTATCCAGACATAAACATCATCACTGGAGCCCTTAAACTGTATTTCAGAGACTTACCCATCCCTGTCATCACATATGATACCTATTCCAAATTTATAGATGCAGCAA
Seq A exon
GTAAGTACTTCAAATTAATTTTTTATTTCTACCAAATTTTTAAGTACAGTGCTTTTGACCTTCAGATAATTAAAACTCAGAACTGTTTAAATTATTGCATTTGTGCCTGTCTTGTCAAGTGAGGGCACAACAATAAATAGCTGACCAGGCATAGTTCAACAGCTGAGCTGAACCAGTTCTAAGAACTCTGTGGGCTGATGTATGTGTCAGGCAGTTCTGTCCACATTGTTCCTTGTATGCTGGGAACCAACACAGTCAGGCCTATTATATGTTGAAAGCATGAATATTTCTGTAGCAGAAAAAAAAGTCTTCAATGAGGACTGACTAGATCATGGGTATCCAATCTTTTGTCTTCCCTGGACCACATTGGAAGAAGAATGATTGTCTTGGGCCACACATAAAATATACTAACATTAATGATAGCTTTAATGATAATTTTAAATAATTTTTAAAATAAATTATTTTAAAATCTTATAATGTTTTAAGGTTTACAAATTTGTGCTGGGCCATGTTCAAAGCTGTCCTGGGCATGTGCGGCCCATAGGCTGCGGGTTAGACAAGCTTGGTCTAGATTAACTACTTTTATCTGTTAGGCAGAATTTCATTCCTAGTCAGTTAAAGTCACAAGCAAGTTTTGTCTATTGATGCTGTTCAAAATGAATAGAGGGCCAGAATACACTGTGTCAAGCAGTATACTAGAACGTCTCACCAGTTTAATTCTCTCATGTACCCCATGTGGCAAATATTATAATCCCATTTTACAAAGAAGAAAAGCAAGGCTTGGAGAGCTGAGCTCATGCGTCCAGGAATGGGACATCAGGATTTGCTTTCCATCAGCCCGGGGTTGCTCATTCAGTGTTTGGCACTTGGGCCCACTGCTGAGGGAGAGAGGAATAGAGTGAAAAGGGGGCAGGTCTGGGGGAAGGGGCTACACTTTGCCCAGGAAGAGTCAAAAGTGACCAAAGGTAGATTCAGATGCTGAGACACATGACACGGAAGTCAAGCTCACTTTGAGGAAGTTTTTGCTTGTTGTTGTTGTTGTTGTTTTTATTTAAAAAAAAAAAAAAAACCTTTAAAGGTTGAAAAGTTTAGGCATGCTGTTAAATGTAGTAATGAGATGCCTGATGGGGAGACACAAAGGCAGGCTGGGATCAGTGTGAGATGCACTTTTCGGATGAGCTGAGGCCCTGACCCCGGTAAGACTATTCCCTCCTTCCGGGGCCCTAGTGGTCCTGGCAAAGAAGGTTCTAGCATCTAGATATCCTCTACTCCAGGAGGAATAGCAGGAGGGTTTTCTTTGAGTAGCTGCCAGTACCTATCAGAGACCCAAAAGCCAGAAGCATGTACTCTTCCTCCCATTGTTAATGTGTCCAGTCTCCACTTCCTAACCTGGGCTGTGCACCGGGGTTAAGTATGCCAACGCCACGGTGAGAAGTGCCATGAGTGCAGGCTGAGTTGGGTGGCTCATTGCCAATGTCCTTGCCTTGTAAAATGTATTAGGTTGTAGAAGTCCGCCAGGGAAAGACTCATTAGACAACTGCAAGGCAATACTACCGTATGTGGTGCAGTTTAAATTAAAACTTGTGAGAGGGATATTTCTAGCAAATCTAGTGTTCAGAAGAAGGCAAAGCATAGTCTGCACATATGCTCCCTGACTGTAAGCATTCTGCTGGTTTACAGATTCATGGAGGGCAAGGACAGTGTCCAGCCTCTGGCCACCCAGAGGACATTCAATAAGCATGTGGTGCTCAGCCTCAAACTCTTTCCTGAATGACACAGGACACCAACAAATTGATTAAGTGAAACAGTGCTTGGATTGCATGAATTTATTAGAATCCTTCCCCACTTCTGGCTAAAACAAAAACTTCTTGTTACTTCTCTGAAAACTTGAATGCCACACTCTGAACTAATACCCATCATGCGTGAACTTCACAG
Seq C2 exon
AAATCTCCAATGCAGATGAGAGGCTGGAAGCCGTCCATGAAGTGCTGATGCTGCTGCCTCCTGCCCACTATGAAACCCTCCGGTACCTAATGATCCACCTCAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000106069-CHN2:NM_001039936:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=PD(36.9=92.3)
A:
NA
C2:
PF0062022=RhoGAP=PD(8.9=11.1),PF0062022=RhoGAP=FE(50.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGAAAAGGCCGATATATCTGC
R:
GAGGTGGATCATTAGGTACCGGA
Band lengths:
238-2173
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)