RnoINT0037287 @ rn6
Intron Retention
Gene
ENSRNOG00000018109 | Clic4
Description
chloride intracellular channel 4 [Source:RGD Symbol;Acc:61857]
Coordinates
chr5:153574707-153579838:-
Coord C1 exon
chr5:153579713-153579838
Coord A exon
chr5:153574814-153579712
Coord C2 exon
chr5:153574707-153574813
Length
4899 bp
Sequences
Splice sites
5' ss Seq
CAAGTGAGT
5' ss Score
9.1
3' ss Seq
GTTTTACGTTTTCTATTTAGGTA
3' ss Score
10.73
Exon sequences
Seq C1 exon
GAAGCCTGCAGATCTGCAGAACTTGGCTCCTGGGACCCACCCACCATTTATAACCTTCAACAGCGAAGTCAAAACGGATGTAAATAAGATTGAGGAATTTCTTGAAGAAGTCTTGTGCCCACCCAA
Seq A exon
GTGAGTATCCGAATGTATGGCCATGCTGCATGCTTTGAAGGTTTGGCTTGGCCCCGCGACATGTCCTGAGGGTCTTTAACTTCTCACAGCATTGATTGGAGTAGCCAGGACACGCTTGTAAGACTAATACCTAATCAGTACAGAATGGGCTTTCTGCCTAGACTTTCTAAGCAAGGCTAATCCAGCTAATCCGGCTACTGGTGAGCAAGATAGGCTTGCAGTTGGGAAGTCTAGATGGGCAGAGGCCACCAAAGCTGCCGTGTGCTCTTGGGCAGTTTGAAGGGAGCTTTCTGAAGCAGTCACCTGGGATTCCTTAAGTCATTCCAAACGTTCACGTCCCACATGCACTGTGATGTTAATTAAAACTGCAGATAGAAAGTTTGTATTCAACTTTCAGTTTTAAAGCATTATTAGTTTTCTTTTAGGCTTTTCCATCTTAATTAACCTTAAAATATATTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGCTTCTTTTTTTTGGAGCTGGGGACCGAACCCAGGGCCTTGCGCGTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCAAATATATATCTTTTATTAAGGAAGTATTTATTTGTGTGTTTTATATATTTGAGTGTTTTGTCATTATTGACAGATGTGAGCCAACATGTGGGTGCCGGGAACTGAACTCAGCACCCCTGGAAGAGCAGCCAGTGCTCTTAACTGTGAGCTGTCTCGTAACTCCAAATATGTTTTTCTTTTTTCTGACCCTCCTTTCTTGCCAGTTGCTTTTACTTTTCCTCTTCATGTCCAGATGAATTTCCCAGAGATGGGATGACTGGGTCAGACGGTTCCAGAAGAAGCTGCTCAGCATCCTCCTCATCTCTCCACCAGCCCTCCATCACCACTCCTCATCTCTCTCTCTACCAGCCCTCCGCCACCCACTCATCAATCAGAGACAGCAGAACAGCATGGGTCAGGAACTGGGGCTTAGCCCCTGCTCTCAAAAAAAGCACAGCAGTAGCCGGGCAGTGGTGGTGCTGGCCTTTAATCTCAGCACTCAGGAGGCAGAGGCAAAGCTTATCTCTCCAAGTTCAAGACCAGCCTGGTCTAACTAGTGTATTTTAGGCCAGCCAGGGAGACCGTGTCTCATAAAACAAAATGAAAGCACAGACAGACACAAGTGGAGAGACAGAAGTAGCTGGAGGAAATGTTTGTTTAAAGAAGAGACACCACTGAAACTAAGTTTTACTATTTATTTTTAAGCCATCTGGTGAACTGCGGGAGGAGCTAGGAGCCATCCTGCTGTCTGTAATTAGCCCATTACACAATGGGCTATGTGTGATGTGAAGAGAACTGCCCCTGGGTTAGCAATTCTGTGGTAAACCCGAAATTGCATTCTCTTAATCCTGCTCTACAGTGCTTAAAAGCCAACCAGCAACCTCGTCCTTCCTTCTTTCACAGTGTAAGGGTTTCAAGTTTCTCTTGTCACTGCTTCCCAGTACTCCTGGTGTCCTCTGTTTTCTGAAAAGTGTAGAACAACACACAAAACTATCCTGGTTCTGTTCCCACCCGTCCCCACCCGTGCATCTTATCTGGATACAATAAATGGAGCCAAGGCCTCTGCCCTGCAGGCAGGCTTTATGCTCCCAACCTAGAGCATGGGTCTGGCACTGGCACCAGCTCAGGATTGTTGCATCACAGAAGCCTCTAGAGATACTCATGACGCGCCTTTCACAACTGTTACATATTTGTTTTAAAATCAGTGTGTGGATATAGTGGTGTGTCCACTTTGGCCAAACAGGCGTTTTCTTGTGTTCTCTTCTACTCTTCAGAGTAGATATTAGGAAAAATAGAGCTAAAAGCAAAGCATGCTGGGTTCTTGATGCCCTGTGCTTTAAATTGGACCTGGAAACAAACATTTTCACTCTCTTTTCTTCTTACTATTTATTTATATGTTTATGGAGACAGGGCCTCCCTATGTTGCCTTGGCTGGCCATGCTGGCCCTGAACTCAGACCCACCTGCCTCTGCAACTAAAGGAATGCCCCTCCATACCTGTAATCACACACACACACACACACACACACACACACACTTCACCTCCATTTTCTGTGGACAGGTTTATAAAGCTGCTGTAACTGGAGATGGTTTTTCCTTTCAGTTTAAACACACATATCTTTCTGTTTCAGTGTTCATACTGTGCTGAGTTCTTTCCGGGGGTATTTTCTTTCTTCTTTATGTGCAGACTGAGGCGTTTGAGTAAAGTTTTATGTACATAGTGTTGCTACTTTTTTTTGTTGTCGTTCTTCTTCCTCTCTCCTAGTCCTTAAAAAAACAAGGTAGGCCAACATGTGCAGAGGCTGGGGTTGGAGCTGTGAGCCCTGTGAGGCCACCCCTGCAGGGCCTGACACACGGGCATAGTGCAGTCTGGACACACCTTTTCTGTGAGAAACTACAAGGTGTAAGGGCCTTGTCTTGTTTGTGGGGTGAAGGTGGGGTGGGGTGAGGTAGGGAGAGTACTTATTGTTGTCATTGTTACTATTACTTTATTAATTTAGTTAGTCTTTTTTTTTAAATAAACTACTTATCCCACAGCTTTAAAACTTGATGCTTTTAAAGTTTCATTTACTGTGTCTGTGCTTGAATTTACTGTGTCTGTGTCTGTGTGTGCAGGAGCCTGTGGAGGTCAGAAGGTGTTTGGTCCCCTGGCACTGGACACACAGTGTGGCTTTGAGCCTGCACACATGGCTGCTAGGAACTGAAACCCTGTCTTCTGTGTAAGAGCAGCAAGTGCTTTTAATTACTAGCTGTCTATCTTACTTACCATGACCAAGGCAGCTCTTCTAAGGACAGCATTTAACTGGGGCTGGCCTACAGGGTCAGAGGTTCAGTCCATTATCATCAAGGTGGGAGCATGGCAGTGTCCAGGCAGGCATGGTGCAGGAGGAGCTGAGACTTCTACATCTTCATCTGAAGGCTGCTGGTAGAATACAGACTTCCAGGAAGCTAGGATGAGGGTCTTAAAGCCCACACCCACAGTGACACACGTTCTCCAACAGGGCCACACCTCTAAATAGTGCCAACTATTTAGAGGGCAAACTATCACACTGTCTCTCCGCCCCCAGAACTGAGCTTTGTTGCTAGAGGTGAAAGGATAAATAGAAGGGACAGGCATCGGTGTGTAACCCACAGTGTGCGCTGTATGGGGTTTATTTTGTGACTTCAAACTCATGACCCTCCAGCCTCACAAGTACAGAGATCACATGTGCACTGTCATCCATGGTGGAGGAATTTTGCACAATGGACTTGAGGAAGGCACAGGTGGGCTGAAGAGGTGCCATGTCCCCTGCATGGCTCTGTTTGATGCTCAGTGAGGGAAAATCCAGGGACGCCAGCCTTGGAATTAGCTGTCCGCCCAGGTGGTGCAGGTTGAGTGCTACAGTGAGGAAGAGCGTTCAGCACATGCATGATTAAGGTGAACTCACTCCATTGGTCATTAAGACACCTGGTGTAATTGATGTTGATGGGAGAAGTTGCTAGTGTTAAAACCTGAGAAATTAGAGACTAGGTGGACCGGTTTAAAGGAAAACCTGCTTGAGTTTTTTTAGAAGATAAGCCCTTTTCTGAAATCACAATAGCAAGCCCAGGAAATATAAACTAGTGTGATTCCAGCACTTAGGGCAGGAGGGCTGAGTTTGAAATCAGCCTGGAATCAATCAATCAATCTCTCTCTGTCTCTGTCTCTCCCCCCCCCCCCCGCCCCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTACTGTGTTGTGTCATAATACAGTTTAAGACCTGCAAATTTTGTTTCACCTTCATTTTAATTTAAGGGAAACAGACCAGGCAGCATCTTCCGGAATAAGTTGAAACAAAGTAGTTTAGTGTGAAATTTTACCTCACAGTTCATTTTCCAGAGCCTTCCAGATGATTAACATTCTGTGCCAGGGCTCAGGGTCTGAATGTCTCTAGCTGAGACTCTGAGGTGAGGCAAGCCCTGCTGAAGGCAGGAGGAGCAGCCCAGCCTTTCCCAAAGACTGTCCACTCGGGGAAGAAACACTGCGTATGTGTGGCCGAGACTTAGAGATACAGTGCGCACGAGTGCACACACCTCTTCCAAGCTGCTGTGCGCTGTCTCTCTTAAGCTGAAAACTTGGTCACAACACAAAAGAGGATTCAGTATGGTGTCTGAGATCCCATTTATCTACCGCACAGCACTGTGTCCTGAATATACTCCAGCCTGTTTAGCACAGAGGGAGTGGGAAAGCCGGGCGCTGGTTGGCAGTGAACGGCCCACCTCCTCCTGGTTTTGTCCTCAGCCGGCTGTGGATGATCACGATGCTTGACCAGCCTGGGCTCCTCTGCTGGCTGGCTCCCTCACTCTGCCGCACAGGCTCGGGCAGTGCCTGCATACTAAGCAGCCAGCTGTGAGAGCCCTGGCCTCTGGTGCTGAGACTAGAGCAAGCGAGGAAGCCTTGCTTTTGTGTCTCTGAGACCCTTTTAAAGTTGTCTTCTGATAGCCTCCTCATGCTCATGGCTGCCGTGTTGGACGTGAAGATGGAGTGCATTCCGTCCCTTGACAAGTCACCATTTCTGTAGCATTCTAGTCATTAAGTGGAGGTGGGAGTGGATGCCCTTGGATTGCCAAGAATATTAATATGTGAATAAAAACACCAGGCAGAGCTTTGTTTCCTAAGGGGGAAAACATTTGAAAAGTGCCATAGAAAACAGATGGTGGTGTTTCTTAGATCAGTAACTGTTCAAAGATGTCTGTAGCCAGCACAGTGGTCTGCTGGTGACAGGACTTGAGCTGATGTCATCTGGAAGGATCCGTAATCCAGTTTTACGTTTTCTATTTAG
Seq C2 exon
GTACTTAAAGCTCTCACCAAAACACCCAGAGTCAAACACTGCTGGGATGGACATCTTTGCCAAGTTCTCTGCGTACATCAAGAACTCAAGACCAGAGGCTAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018109:ENSRNOT00000024464:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.047 A=NA C2=0.054
Domain overlap (PFAM):
C1:
PF134171=GST_N_3=FE(57.5=100)
A:
NA
C2:
PF134171=GST_N_3=PD(0.1=0.0),PF134101=GST_C_2=PU(17.5=48.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
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]