RnoINT0036174 @ rn6
Intron Retention
Gene
ENSRNOG00000009411 | Chn2
Description
chimerin 2 [Source:RGD Symbol;Acc:620140]
Coordinates
chr4:84449072-84451026:+
Coord C1 exon
chr4:84449072-84449209
Coord A exon
chr4:84449210-84450920
Coord C2 exon
chr4:84450921-84451026
Length
1711 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TGATTGTACATTCTCTATAGAAA
3' ss Score
6.8
Exon sequences
Seq C1 exon
ATGGTGAAAAGGCGGATATCTCTGCTAACATCTACCCAGACATAAACATCATCACCGGAGCCCTGAAACTGTACTTCAGAGACTTACCCATCCCCATCATCACATATGACACCTATTCCAAGTTTATAGAGGCAGCAA
Seq A exon
GTAAGTACAGAGAACTATAGGCCTCGGGGAAATTAAAGCTCAGAACTCTTCCAAGATTTCCATGATTGTTGACTTTGTCAAGTGGGGGGACACAGAAGTCCAGCAAATAGAAGCCCAGCTAGCACTCACCAGGTGCCCCAAATTCATACTCACCCAACTCTAGAGGCAGAAACTGAGAGCCAGGCAGCTCTGTTCCTCATCCTTTCTCCCTATTTCCGGGACACTAACACAGGCAGACCAATTCTGATATTTGCTGAAAGTACATTTCTATAATTAAAAAAGAGAAAAAAATCAGCATTCTCTAAAGGACTTGTACACTATTTCTACCCATTGTGCAGACTAAAACCAACCCAGGTTTTGCCTGTTTATGCTGTTCTAGGTTAGTAGAAATAGTCAGGTGTAGAGCTTCATTATCCTCACACTCAAGGAGGTGCAGTCAGGGAGATCTGGAGATCAAGGCCAGCCTGGGTTATATAGTCAGACCTTGTGTTAAAAATATAGACTTGTATTAAAATGATAAATAGCCAAGAGCATACAATATTTACTGTGTCAAATACTATGCTAGGGCCACTTATTGATATCTTCTAGTTAATTTTCTTAACCCATCCCATGAAGTAAAGATGATCTTAGAGGGAGGGCAGCTAGCATGGAGAACTGTCCTGACGTGTCCATGAGGGAGCCATCAGTATTTATCTTCCATCAGCCAACAATTGACCTCAGCCTTATCCATTGCTGACCAGTTGAACCCACTGCTCCCAGGAGAGGAGGAGTAAAGGGTATGTCAAGAGAAGGGACCACACTTTGCCTGGAACCAGGTAGTGGTGATGCAGGAAGAGCTCAGATGCTGAGACACATGGGAAAGAAGCTAAGCCTTCTCTAAGGAACTTCTTTTGGCTTTGTGGAACAGCGTGTATCTTTGAAGGCATCAGTACATTTGTATAAGTTACCTAACAGGGGAAAGCAAGGGCCTGTTCAGATCCATGCACAATGTATTTTCTAGATGAGCTGTGGTCCTCCCCGCTAGAAAGACCATTCGTTCCTGGGTTCTGGTGGTCCTAGGTAAAGAAGGTTCTAGCAGCTGAATACAACTGTCCCAGGAGGGATGTTGGGAGGGCTTTCCTTGAGCGCCTGCCAATATCTGTCAATGGCCCAAAGTCCACACACTCTTCCTGCCATTGTTAATGTACCTAGTATCTGCTTCTTAACAAGGGTTGTGTATGAGGTTAACCCTTGCAACACCTTTGTAGAAATGCCTTTAGTTATGGCATTGTTGGTTGGCCCCTCTGCCAACTGAAAAACAAAACAAAACGGTATTTGATATGGAGGCCTGGGAAGGAAAGAGTCATTAGACAACTTCAAGGACACACTAACACATGAGACACTGGAATGTAGAGCATTGATAGGTTCAACAGATCAAGACCTCAGGAGAGCAACACAAACTGTGCCTATACCACCAGGGTTAAGAGTTCTATAGGAACCATGTTTCTCTAGAGTACAACAGCCACCTGCTTCACCAATGTTCATTTAACTGAGTTCCCAACCTCAGCTCCTTCTGGAAGGAGATGAGATAGAAGGAAACTGAGGGAAAGAGTATTTGAGACTATATGAGTTTGTAAGATGCCCCATTTCGAACAAAAACAAAGAAATCGGACTTCTTAACACCCATCTGGACTGTTGGCGTCCAGTGTTGTTGATTGTACATTCTCTATAG
Seq C2 exon
AAATCTCCAATGCAGATGAGAGGCTTGAAGCTGTCCATGAGGTCCTGATGCTGCTGCCTCCTGCCCACTATGAGACCCTGCGCTACCTGATGATCCATCTCAAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009411:ENSRNOT00000012655:7
Average complexity
IR
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=FE(29.7=100)
A:
NA
C2:
PF0062022=RhoGAP=FE(22.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGAAAAGGCGGATATCTCTG
R:
GAGATGGATCATCAGGTAGCGC
Band lengths:
238-1949
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]