HsaINT0035045 @ hg19
Intron Retention
Gene
ENSG00000106069 | CHN2
Description
chimerin (chimaerin) 2 [Source:HGNC Symbol;Acc:1944]
Coordinates
chr7:29539483-29544437:+
Coord C1 exon
chr7:29539483-29539656
Coord A exon
chr7:29539657-29544359
Coord C2 exon
chr7:29544360-29544437
Length
4703 bp
Sequences
Splice sites
5' ss Seq
GAGGTTTGG
5' ss Score
3.53
3' ss Seq
TCTCTCTCTCTCTCTAACAGGAT
3' ss Score
13.46
Exon sequences
Seq C1 exon
ACTGTGGATTGAACGTACACAAACAGTGTTCCAAGCACGTTCCCAATGACTGCCAACCTGATCTCAAGAGGATCAAGAAAGTGTACTGTTGTGACCTCACAACACTTGTGAAGGCTCACAACACTCAGAGACCCATGGTGGTAGACATATGCATTCGGGAAATTGAAGCAAGAG
Seq A exon
GTTTGGAAAATACTTCCTATTATAGTAGTATAGTGATTTTATTTTTATTGTTTGTTTTTACTGTTGTCAAGGAAACAGAGTTGCTCTACTACTCTTGTTGGGAAAATGACCTACGCATGTGTGCGCACACACACACTCTCTCTCTCTCACAGGTAGACTCAATCCAACCAGCTATATCAATTTCCATTGTATATATAAACCATGCATATATGCATTCAAAAAATGTTTACTGAACATTTATTATATGGTAGGCATTGAGGTAATAAAGGTCACCATTCTCACCTTCAAGAAATTCATACTTCAGCTGGGTGCAGTGGCTAACGCCTGTAATCCCAACACTTTTTGGAAGCTGAGGCCAGACAATCACCTGAGCCCAGGAGTTCAAGACCAGCATGGGCAACATAGTGAGACCCCATCCTACAAAATTCTTTTAAAAAATTAGCCAGGTGTGGTGGTGCACACCTGTAGTTCCAGCTACTCGAGAGGCTGAGGCATGGAAGAAATTCATACTTTAGAGTGGGCAATCAGGGGAGCAAATAAATAAACATTGTGGATGGCCGTGTTCAGGGTACCATGGAGTCACAAAGCAAAATGTTTTAATCCTATTTAAGGACGGTGAGAAGGGTTATGGCAGAGGTGAGGCTTGAATTGGAGCTTTGAAAAAAAAGGTGCTTCTGTTAAATAAGAAATTGTTGAGTAACACATACATCTCCTACCACATAAAAATGTGCTCCTAATATTCATCGTTTATTTCGAAGAGGAGAGTTCAAAGATTTAAAAGATCTATGCAATGAAAAATAAAGGAAACAAGGAAGATAGAAACATTCCAAAAAATGTTCTTTATGTTGTACATGAGTCACTTTTCCTTTATTTGTGCTTTCTTTGGCCACTGTTCAGTATCAAAATGTTCACTGAAGTTGCCGGATATAATTTGGGTGATTTGGCCATGTATAGAGCCTTTCTATAAGGCTTAAACCACTTTTGCCATGTATCATATTCTGTTATACTGGCTATCCATTATTGTGTCCTAATTGGCTTAATATATTTTATACATATATATTCATTGGTCAACTACCCCATTTTTCCAAAGCACAACTAAAGAGGATGTCATAGCTTATTATCCCAACCCTTTTAGAGAGAGGAAATTATTCCCTTTTCTATGGAGGGGGAAAACCATAGCTATCCTGTTCCCTGAGAACTTGCTAATTTAATCCCAGAGTGTAAGAAATGCCTTCTATCTTTTCACCACTGTGGCTGACAGAGCTTAATGAGTGCTTTGGGATCTGGTGAACATATTAATCCAGTGGCTAAACTGGGTAAGAGGAAAGGAGGGATTCCCTGCCTCTGGATGAGTGGTTGGGACAAGTGACCCTGGGCCCTGCAGTTTGGGGTCAGATTATCAGCCTCTCCAGAGCCTGCAGTCAGGGCTTTTCTGAAGAAGCTGGGGTCCTCCCATTGTGATCCTTACCAAAGACAACTGATAATTCAGGCATGATAACTACTGACATGTCTAACATTTAAGAATAGGGGGCACTGCACTAAGTTTGCCTAGTACAAGAGCGAGATAGAGTAGCACAAATTAGGAATTGATGCCAAAAGAGTCACAGCACAGGGATTAGAGCCCCAGACAGGTATTAGGGGCCTAAGCATGCAAGCAGAACCAGAGAATGCACCGGGAGAAATTTGTATGACACCCGCATTCCCAGCTGTGGGGCCACCACTACCAACACTTTTCCCTGTCTTCCATCCATAAAAAATCCTTATTGTTCTCCAAATGTTCTTTTATGTTCATTTGTCTCTGCGTGATGTGGCAGAGTGAAAAGATCAAGGATTTGAAGTTAAATTATCAGCCCTGTCTCTTACTGGCTGTAGTATGACCTTGGGCAAGTTGCTTACTACATTTGCATATCTGTTTCTTCATCTATAATATGAATGGAATCAACTGTACCTCATAAGGTGGTTGGTGAGGATTAAAGTGACTTGATACATAAATGGACCGAGTACAATGTCCAATCTACTGAACTCAATCTATGTTAATTTTGCCTTTTCTTGGAATGACCCACACCCATACCTCCACCTCCAAATCTGTCTAACTATATTATGTAGCCTGTACATCTCAGTGCTGTCACAGAGACCCTGAGTAACAGTGCCTTTGACAAGATAGAAATCTATTTCTTTGCCCAGTAATAGTCCAGGTACCCAGGAGCAGTCCAGGAATAGTCTGTTCCACCGTGGCAGGAACCCAGGCACTGCAGCTTGTTGCTCTGTCCTGCTTGAGTGCTATCCTGCGTGCACAATCACAGTTGGCCACCACCATCTCATCTGCATTTCACTTAACAGGAAGTGGAAAAGAGCATGCTCCATTCCTTCAAGGCCACAGAAGCTGTAAATGTCACTTCTGCTCTCACATGGGCCAGAGTTTAATGGCCACTGCAATGGATATTGTTCTAAAAATCAAAGGTTCCATTACAACAGAAGAATGGGAGAACAAATATTGGAAGGATAGCTGGCAACTTCTGCTACTCTGGCAAACTCTAACCATCCTTTATCATTTCCTTCAAAGATTAGCTTCTTAAAAAAGCATCTCGATGTAATACAGGGTGACGCTTTGCTCAGTGAAGCATGGGCTAAAGTCAGGAAAATTACCCCCATTTAATTATAATCCAAACCATACAACTTGGCATATTATATAAGGCATAGATTTTTTTTTTTAAAAGTGACGGGATACATGTGCAGAATGTGGAGGTTTGTTAAATAGGTATACATGTGCCATGGTGATTTGCTGCACCTATCAACCTGTCATCTAAGTCTTAGGCCCTGTATGCATTAGGTATTTGTCCTAATGCTCTCCTTCCCCTTGACCCCCACCCTCCAACAGGCCCCGGTGTGTGGTGGTCCCCTCCCTGTGTCCATGTGTTCTCACTGTTCAACTCCCACTTATGAGTGAGAACAAAAGCATGGATTTTTCTACGTTCCTTGAAAACCTGGATTTCTTTGAAAGTGACTCAGTGAATCTTATGGCTGAATGTTTGTGTCCCCTGCCCCACCAAATTTACATATTGAAGCCCTAATCTCCAGTGTGATTGTCTTTGGAGACGGAGGTCTCCAAAGAAATAATTAAGGCTAAATGAGGTCCTGAGGGAGGGACCCTAAACATTATGACTAATATCCTTATGAGAAGAGACACCAAAGAGCAAGCTCGCTCTCTCACTCTCCATGCACATATACCAAGGAAAGGACGTGTGAGAGAAGGTGGCCATCTATGAGCCAGAAAGAGAGCCTCACCAGAGGCCAGAACTTTGATTCATCCATCAACAGGCAGGGTTCATTGTTCACTGCTAGGGGCTCCCATAATCCACTGGGTCTGTGCCTCTGTGGCAGTGCATGTTCCAACTGGAATGAGATGTGCTCATATGCACCAACATCTTAGAACAGGATGACCCACAGGTTTCGTCTTGTGTGGCAACTCCAGTTGATCAGTAGTGGTCACCTGAACAATTGGAACTGAGATGAATTCTGAGGCTAAATAGGGCTCAGTGGGAAAAAGGGCTGAGATCAACTAAGAGTATCTGTCATGGTCACAGGAGGGATGAGGGGAAGTATTCGTGATTTACGCCACGTATTTGTTGTCTCTGATGCATACCTAATGAAGACCCTTATATATGGCAGATAATACATACTCCATAAATGTTTTCCAAATGAAAAAACAGGAGAATATGTGAGTTATCAAGAGTTTGGCAGAATATATGGCGGCAGCAGCAGAGGCTATTTGTTTGCTCATTTTTACTGTAGCTATAGTTTTGATAGCAGCTAGTTTGTGACATACAAAGTCTGAAACCCAGTCCTTTATCCCTGCTCATACTTTTGGGAACTGACTCGTTTTTAGGACATATCTTAACAAATCAATAAGCTCCAGGGACAGAAACCATGTCTTTTTTTCTTAGCCTAAATTTGCAGTGATCCAATTTCCAGAAGCAATAACCAAAACTTTATTTTCCTGCATCTGTTTGTATAATCAGTTGTCTAAAAGTATAACAAGTAACCGTTTTTAATTAAACAGTTAACATAGTCTTATTTACAAGTAAACATGAAAGGCTGTAATAGTCTAATTTTTTCCAATACAATCAGAGTAATACAGATTAGATACCCACATACATACATGTGTGTATCTAGTACAGTGCTACATACAATATAGCACATGGATTAAGATGATGCTAGGTACCCCATTTGCGCTGCTGTGATTATTACACATCTTATGCCTGTATCAAAATATCTCATATACCCCATAAATATATACACCTACTGTGTACCCACAAAAATTAATAAAGATGATGCTAGGAAGAAAGCCAGGTTGCTTCCTACGATGACGAAATTCATGTCCATCAAGCTCATGAACACAGGAAAGGAAGTAAGGGAACGGTCCATGGGAATCTTAAATATCAGTTCTCTTTGCAAAGCAGGGAAGGATGAAGACTGGATTTCCATTGAGATCTCCACTGCTACATGGGCAAATGAGAACAGACTTGCCTGGGAAATTGAGACAGACAAGTCCAAGTTCTGATGCAACAGTGTGTGATAAATAAAATCACTGTCTATGTTTGCTCATTTTCTGATAGCATGTAGTATAGACGTGAAATTAGTCTTTTTTTTTTTTTTAGATGTTTCAAGAAGCTAAAGTCAGTCTCTCTCTCTCTCTCTAACAG
Seq C2 exon
GATTAAAATCGGAAGGCCTTTACAGAGTCTCTGGGTTCACTGAACACATTGAAGATGTCAAAATGGCATTTGACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000106069-CHN2:NM_001039936:3
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:
PF0231811=FYVE_2=PD(37.7=72.9),PF0013017=C1_1=PD(37.7=33.9),PF087466=zf-RING-like=PD(50.0=33.9),PF0062022=RhoGAP=PU(21.5=23.7)
A:
NA
C2:
PF0062022=RhoGAP=FE(57.8=100),PF0062022=RhoGAP=PU(1.4=3.7)
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:
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
- 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)