HsaINT0035048 @ hg19
Intron Retention
Gene
ENSG00000106069 | CHN2
Description
chimerin (chimaerin) 2 [Source:HGNC Symbol;Acc:1944]
Coordinates
chr7:29548917-29553944:+
Coord C1 exon
chr7:29548917-29549022
Coord A exon
chr7:29549023-29552179
Coord C2 exon
chr7:29552180-29553944
Length
3157 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
TCTATATGTTTGTTTTGCAGGGT
3' ss Score
10.38
Exon sequences
Seq C1 exon
AAATCTCCAATGCAGATGAGAGGCTGGAAGCCGTCCATGAAGTGCTGATGCTGCTGCCTCCTGCCCACTATGAAACCCTCCGGTACCTAATGATCCACCTCAAAAA
Seq A exon
GTAAGCTCATGTCTCGTGCACAAAGCCTGCTCTGCTCCTAGAGCGGTTAATGCATGAGGAAAAGTGGACGGCATTCCTCCCCAGCCATAACTGCTGGAGTTTCACTGTGCCAGGAACCACTCCAGGCACTTTCAGTGTATCATCCCTATGAAAGGGGCGCCACTGTGATGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCGGATCATGAGGTCAGGAGATTGAGACCATCCTGGCTAACACGGTGAAACCCTGTCTCTACTAAAAATACAAAAAAATTAGCCGGGCGTGGTGGCAGCCGCCTGTAGTCCCAGCCACTTGGGAGGCTGAGGCAGGAGAATGGTGTGAACCCAGGAGGCAGAGCTGGCAGTGAGCCGAGATCGTGCCACTGCACTCCAGCCTGGGCAACAGAGCGAGACTCCATCTCAAAAAAAAAAAAAAAAGAAAAAGAAAGGGGTGCCATTAGGGGCCTTGTGTCACTTGTGAGATTGCTGATGCCTGGGGAGGTTACACAGCTGATTTGAAGAGGTGAAGGCAGGATCCCAGGCAGGCTGATGTACAGCCTTTAACTACTCTGCCTCCGTGTCTGCATCTTCATCTGACACAAGCCCTGTACTCTGTGTCCTGTTCATCCCCCTGTTGCTTGCCCCTTTCCAGGCTCCTGAGACTGCCTGCCTCCTGGGAGAGCACATTCCCAGCCTGGTCTCTTATTTTTCTGGATGTGTGAGTTCTCTCTCATTGAGTAACAAATTGCTCCCGAAACTTAGTGGCTTAAAACTGTAAACATTTATTATCTCATAGTTTCTAAGGGTCAGGAATCCAGGTGTGACTCAGCTGGCTGCCTCCAGTTCAAGGTCTGTAATGAGGCTGCAGTCTTATCTGAAGGCTTGATGGGTCTGTAATCCCAGCTACTTGGGAGGCTGAGACAGGAGAATTGCTTGAACCCGGGAGACGAAGGCTGCAGTGAGCGAAGATGGCACCACTGTACTCCATCCTGGGCAACAGAATGAGACGCTGTCTCAAGAACAAAAAAATTCACTCCTGAAGGCTTGATGGTGGTAGCATCCATCTCCAAGCCCACTCACATGGTTGTTGGCAGGATTCAGTTCCTTAAAGGCTGTTGGACTGAAGGCCTCACTCCCTCACCAGCAGTTTGCTGGAGGCAACCCTCAGTTCCTTGCCATGTGCATTTCTCCATAGGCAGCTCACAAAAAGCCAACAGGCTTCTCTCAGAACAAAAAAGCAAGAGCACCCAATATGAGAGACAGTCTTTTTGTAAGCTAATCTCAGAAGTGACATCCTATTGCTTTTACCGTGTTTTATCTGTTAGAAGCAAATCAAGTCCATCCCATACTTTAGGGGAAGGGATGCAGGGTATGAATTCCAGGAGGCATGGATCGCTGAGGTCCATCTCAGAGAGTACCTGCCACACACACAGCTGTCTGCGTGAGTGTGTGGGAGACAGAGATGGAGACGTCTGGATGTTTATGGGACACTAGAACCTCTGGTGACACTATTCTCCCTAAACCTTGTGTCTCTCTCTTTCACTGCACATGTGTAATGAGGTCGATGAATTGGTGTTATAACATTGGAGGGATCAGGGCACATCTGTGTGCCTCTGTGTTTTTGAAAGATACTTGGCAGCAGCCCATTCTTTGATAAAAATAAAATGAACCGAAAATTGTCTACATTGACCAGTTTACAGATCTACTTAGTATGTGAAAAGAAGCAAACGGAGGACTGTATAAACAGTAGGTATTGAGATTTTTATTTTTCTACCTTATAAGACATACAAGAAGACATACAATATTGTTGCTCAGATTCAGGGTGATGGTAACATTTAGCTCAGAATATTCCCATTCTGATTAATTTACTGAATTTAGGAGTGCAAGTAATTTTTAGATAATAAACTATGGGTATCACATCTGGCTTTCAATTAGCTGTAAAATACTTATTGTGATCAATATCCAGTTGTTACAGTTTGGAAGGCAAAGTACCACTACCAGAAAAATGCTGACACCTTTCAGCTGAACCTTAAATGCCAATAATACTGTATCTTTATCATAGTGGGTTTGCCAGCCATCTTGTTTAGTCAGGCATAGTGCCTGACTTAAGAGGAAACTGTGGGCACTTTGATGGTGAGAAACGTCCTCTTTCCAACCTTCTTCTTAGGCTTTGTGGCATGTACATGACACAAACTGGGTTGACCTTAAAATAATACTCAATGGCTAATCCTAATGAGTTATAAGGAAATAGAAAGGGATGGCTTTTTATGCACAACCTAAACACATTTTAATTATATTTTCCTAAACACATTTTAATTATATTTTGCTCATTTTTGGAGAACCCATTCCCTTTTACATCTATTATGAACATTCTAAAACTTAAAGTTGTGAAAACAAAACTCTGGGAGATAGATAGATTGTAATTTTATTCCATGAGGAAGGTGTTAAACCAGCTTTGCAGTTTGAATTTTATTCTTAAAGGCTCTGCAGTTCTTACCTGGATGTCGAAATGATTTTTAATTTCAACTGCTGTAGACCTCATCCTGTGGGAACTAGAAATAATGTCCAACTGCCGTCCAGTCTGGCGACATTCCAGCCGTTCCCCCACCCCACGATAACGGCCTGACTCTTCCTCAATTCATGACAGCCCATTCTACACATAACCTTTCTCCTCTGGCACCGGTCCTCCCAGCAGAGAGGGATCCTGCCCTTCCCTTCCCACTCTCCAGCATACAGACCAGCAGGAAGCCACAAGAGGGAAAAAAAAAACGCCTTCTGTATAAGGCCTATGAAAGGACCATGGGCCAGCCTCAGAATCTGCTGCCCCTACAAACCAGTATTCCTCAAATGATAGTTCCACATTTACTTAATAAGGAGGACTAATTTTCTAATTTTAAAAATTGTGTTCCTGCCAGATTCACATAAGTAATTCATTTCCACCGGCGAAGGCAATGTCAACAATTTAAAACGAAAAATCAGTAAATTACCCTTCCAAAAATACCTTTCTGCTGTTCTGATTCCCAATCTTTTTCTTGCAATTTCCTGAACCAGAGATGTTATCGGGACTTACATACATAATCAATACATAAAATCAATCCTCAAGTCTCCATAATGTCTCTGTTCTATATGTTTGTTTTGCAG
Seq C2 exon
GGTTACTATGAATGAAAAAGACAATTTCATGAATGCAGAAAATCTGGGGATCGTGTTTGGGCCCACTCTGATGAGGCCCCCTGAGGACAGCACCCTGACCACCCTGCATGATATGCGGTACCAAAAGCTGATTGTGCAGATTTTAATAGAAAACGAAGACGTTTTATTCTAATCCATCAGGGAAATGAGCTGAATGGCCCCAGCACCATCCAAGTTGACACAGCTAAAGGAATAAAAACATTTCTTACCACTTGATTTGTTTTCCAAGCAAGTGCTAGAATTTCCTGGACTGCAGAGGATCGCTGAGTGGGGTACTGTGTCTCATAGACATGCGCCACCTCCACGTGAGAACAAGGGTGAAGGTGAGGGAAGCCCCTCACCTTGGGTCTTTTGCTGTGCCTCCTATGTATGTCTGGTTTGCTGGAAGAGTGATTAATACATCTTTAATTTATTAAAAAACAATGTAGACCTTTAAACTTCAGTCTTATTGGTAATAAAAGGGAACTTAATTCATACAGGTACTTGATACAGTTATACATTTTCCACTTACAAAAAGAAGACAATTCTGTTAAATGAAACGTGTATCGTAAAATGTATTTTTATTTTACCCACGAGAATGTTGTTATTTTTAGCAAATAGAACTCAATGCAGTGCATTGGTTATTACCCTGTGTACCTTGTCCCTCATTTTGCTGTGACACCCTGAAAAAGCTGACCACAAATGCAGTATTATCTTGACATACCTCTGTCCTCCTCAGTGCTTTTTAATGAAATTTCACCTGCCCCTTGTGTTCCTGCTTTGGATAGTTTTTGCTCTTAAGCATTGGCATTCTTCTATTGTATGGTATGTATTTATAGCAATTGTAGGATGGTCTGAAATGTCCACACACTTTCTATGCATACAAATTTTGTGAATTCCCAAAGTATGCTTTGGAATTGGTCATAGTCTTTTCGTATCATGAGTGTGTATCCCAGAAGATACAGAATGCGGTCATTTTACCTGAAATTATTTGAGAACACTGGATGTATCTGGTCTGTGTAAAAAGTTAGCACTTACCCTCTTTTCTTCCTGGCCAAGCCCTCTGAATTCATCTGTTAATATCAAATTGTATTTTTGCCACATTTCTGTATTGGTGAAAAGCGAATCTGCAGAATAACTGTCAACGTTTTTCATTCTTGTTTTACAAACCTATTTTTTAAAGTGAGAATAAGGTTGGTTTTTACCAAATATTTGTTCCTCCTTGACAAAAGTAGCTCTGTGTGGATAATATGATTTTATTACTACAGTTCCAGTCACTTGGTTATATTTATCTTAGCATGAGCCTTTCACACCAAGATTTCTATATTTTGTAACATAGGTGAAATATTTAAAACATCAAAAACTGTAAATCTAGATTTTTAAAAAATCCAACTGCAATGTCTTTTCCTTTGATTGAGATGATTTGTGTAAACTCACCAGTCTTGCTTTGGAGTGAGCAGAAGAGAATGACTATTTTACGTGGAGCATCATTGTGTGACTGTTGACCTGGACAGTCCCAAGGGCTATGCAGATGGACTCCATTGGCACAGGGAGGTTTGACCTCTTCCCTGCTATTATCCCTCCTCCCAACTGTACAGATTTGTTTGTTGTAGTTTATGTACTTCTTGATACTGTCAAAAAATTATCTGGAAATGGTTTTATTTTGTGAAGTGAACAATACTTTGTAATTTATGATAGTGTAAATGGAAGGCAAAGCATCACATGTATTAAATTCTTCTGTCTATTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000106069-CHN2:NM_001039936:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062022=RhoGAP=PD(8.9=11.1),PF0062022=RhoGAP=FE(50.0=100)
A:
NA
C2:
PF0062022=RhoGAP=PD(21.3=56.9)
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)