RnoINT0037289 @ rn6
Intron Retention
Gene
ENSRNOG00000018109 | Clic4
Description
chloride intracellular channel 4 [Source:RGD Symbol;Acc:61857]
Coordinates
chr5:153568745-153570195:-
Coord C1 exon
chr5:153570014-153570195
Coord A exon
chr5:153569102-153570013
Coord C2 exon
chr5:153568745-153569101
Length
912 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
CGATCTATATTTCATTTCAGGTG
3' ss Score
9.24
Exon sequences
Seq C1 exon
CACTGGAGAGGGGGCTCTTGAAAACGCTGCAGAAGCTGGATGAGTACCTGAATTCTCCCCTCCCTGACGAAATCGATGAGAACAGCATGGAGGACATCAAATCGTCCACACGCAGGTTTCTGGACGGCGACGAGATGACATTAGCAGACTGCAACCTGCTGCCCAAGCTTCACATTGTCAAG
Seq A exon
GTAGGCCTGCTCACCGGGAGGACGGTGCCGCTGGGAGCACCACTCCCTCACCAGAGCCATCTCTACCCCAGCCAGATCAGCACAGTAGATGTATCCTAGAGCTAACTAAGTAGAAAATCATGTTTAAAAGTCAGCGGATCAGGAACATGTAACCCTAGTGCTCACAATCGGGTATGGGCAGGAAGACCAGGATTCCCTCTCAAGGCCAAAGTGAGTTACAGGAAGCTGTTCCAGGGAGAAAATTTTGAGATTTGAGCAAGAATTTTGTTTTCTTTTTCTGTGGCTAAATTAAAACTAAAGGGATGTAATAGGTAACTGTGAACCGGACTGACATTGTCCAATTCTGTGTGGTGGCCATGACCTAGCGTTTCCATTCAAGGCCACAATGTTAATTCTGTCAGACACCAAATTCAATGCAATACCAATGACCGTTTGTTGCACAGTAAAGATCTACGACGAGAAAAGATGGTTTCAGAAGCTGGCGGACAGCCTCAGCATTTGGGAGGCAGAGGCAGATGAGGCTCTGTTGAAAAACAAACTAAAAAAGGAAGAAGAAAAAACAAACTCAATAGTCTGTGTTGAGACAAATATTTATCCAGTGATGCTTAGCCATCTCCAGGTCGAAGGCTTTCTTAGCTACTGTTGAGTTTCCGAGTGCCCGGAGCAGTGTCCCAGTCTGCTCTCTGAGTGTGAGCATGGTCACCTTGGTAACCTGGGAGGCCAGACGTGGGTGCCTTTCTGTCCTCAGAGTTGCAGGCACTTGTGAGCTGCCCAACATGGGTGCTGGGAATGGAACTCCTGCCTTAGAACGTGCTGATAAAGGTTTTTAGAATTAATAGTCTCTCTAGTCAGACATTCCTTGTGTGGGGACTTCGAAGATAGATGTAACTCTCGATCTATATTTCATTTCAG
Seq C2 exon
GTGGTGGCCAAAAAATACCGCAACTTTGACATTCCCAAAGGCATGACGGGCATCTGGAGATACCTGACAAACGCCTACAGTAGGGATGAGTTCACCAACACCTGTCCCAGCGACAAGGAGGTGGAAATCGCGTACAGTGACGTCGCCAAGAGACTTACCAAGTAGACAGCACTTTTGAAAGCAATGCCTTCAGAGTCCCCCAAGACTATGCTTTCCTAACAGACGGCTCCTGCCTCCTCTAAGCAGACGTGTATTTTGCATGAACACACAGTTACTCGAGACTAGGATTAAGGGTAGACAAAGTAGGTCTCTCCAGCGCACACTCCTAAGCAGTATTATTCTAAACTCTTCTACCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018109:ENSRNOT00000024464:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.197 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(58.3=100)
A:
NA
C2:
PF134101=GST_C_2=PD(22.3=41.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCTGAATTCTCCCCTCCCTG
R:
AGTCTTGGGGGACTCTGAAGG
Band lengths:
344-1256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]