RnoINT0037279 @ rn6
Intron Retention
Gene
ENSRNOG00000000728 | Clic2
Description
chloride intracellular channel 2 [Source:RGD Symbol;Acc:1306580]
Coordinates
chr20:309512-310380:+
Coord C1 exon
chr20:309512-309693
Coord A exon
chr20:309694-309961
Coord C2 exon
chr20:309962-310380
Length
268 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TTTTTTTTCTGAAATCCGAGGTT
3' ss Score
2.1
Exon sequences
Seq C1 exon
ATTTTGAAAAATCTCTGCTTAGAGAATTTAAACGTTTGGATGACTACTTAAATACCCCACTTCTGGATGAAATTGATCCTGACAGCACCGAGGAACGTACACTTTCCAGAAGACTGTTCTTGGATGGGGATCAACTAACACTGGCTGACTGTAGTTTGTTGCCCAAACTGAACATTATTAAA
Seq A exon
GTAAGTTTGAGTATGAGTGGCTGCATAGTATGAGGCGTTTGTGAGTTGGAAGTTATAACACAGTTATAACTTCTAGTAAGAGAAAATATGGCTTTGTCTACACTTGTAGACAAAACATTAAAATAGTAAATCCAATATTATTTATGCTTATTTTGTTCTCTGTTTTGCAGTACTTGGCCTTTGAGGTGTGTTTCTATATATTAGATTCATAACATAGCTGATGTACTTTTCTATCGACTTTTCTCATTTTTTTTTTCTGAAATCCGAG
Seq C2 exon
GTTGCTGCGAAGAAGTACCGTGACTTTGACATTCCAGCAGAATTCTCAGGAGTCTGGCGCTATCTCCACAATGCCTACGCCCGTGAAGAATTTGCCCACACATGTCCTGAAGACAAAGAAATTGAAAATACCTATGCAAGTGTGGCTAAACAGTAGAGACATCTCTTTCAGAAGCAAAAGCTCTCTTTGTTACCTAATTTCACTTTGTGCCTTATTAGAAAGATTATTGGAAATAATAACATAGAAAATACTATTTCCTCTAGTCAATCTAGTAATATAAAAAATAGAAAAAAAATAGAAAAGTTTTCCATTAGCCATAAACAATTCAACCGCTTTGTATCTTGCAGATGGCTGTATTTTCATTTCAATTATTCCTGCAACAAACACTGAATCTTAAAAACATGGAAAGCATCAATATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000000728:ENSRNOT00000000955:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.033 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF134101=GST_C_2=FE(42.0=100)
A:
NA
C2:
PF134101=GST_C_2=PD(16.1=44.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCACCGAGGAACGTACACTTT
R:
AGGTAACAAAGAGAGCTTTTGC
Band lengths:
293-561
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]