RnoINT0006936 @ rn6
Intron Retention
Gene
ENSRNOG00000061757 | AABR07062154.2
Description
NA
Coordinates
chr4:162811597-162812736:-
Coord C1 exon
chr4:162812630-162812736
Coord A exon
chr4:162811733-162812629
Coord C2 exon
chr4:162811597-162811732
Length
897 bp
Sequences
Splice sites
5' ss Seq
CTTGTATGT
5' ss Score
3.95
3' ss Seq
TCGTTTGTTCTTTGCTTTAGGGT
3' ss Score
11.3
Exon sequences
Seq C1 exon
ATTTTTCTGAAGAGATACAAGGGACCTTCTGACCACTGGATCGGCCTGCATAGAGCGTCAACAAAGCACCCTTGGATATGGGCAGATGACACTGAGTATAGCAACTT
Seq A exon
GTATGTTTTCAGAACACTTTCTCTTACTCTGTATTCATTTGTTTTGAAATGTGTGAGTTGTATCTGTAAGAGATGAATGACTGTGTTGTGTGAAGCCAACTGTAGTGGGAAGAAAGAAAGTATGAACCATCAAAGTGCAGGTCTGGTTCAGAGCCAGAGTGGGTGCTTAAAGTCAGAGCCAATTCCAGCAAACACCACAAACTTAAATCCTTCGGATATGTTCCCTTTTAATGGTCATCATTTCCAAGGCATTTACTTAATTCAATTTCTCTCAAAACCTTTAAGATGGTGATGATGTCTGAGGGAGATATTGTCTGCTCCATCACCAACTAAAAACTTTTCTTTGCTGGTGTCAAAACTTTAGGTGGGCAATGGGGGCTCTAAAGCACAGGAAGCCAGTGCAGAACTGCATGAGTATGACTTGATGGTCCCCTGTACCTGTTCACAGAAGCAGAGACTCCAGGGATACTGGGAACCTCTCTAAAGTCTTCTCATCAAAAATCATGAGACAGCTCTTCTGTGAGCATAGCTAGACATTTTGAGTGGAGTCATTTCACTGGAATGGTAAAACACAGACACATTCAAAGTCATTATGAAAGACCTTTTGAAAATTTTCTAAGAATTGGGTTTTCTCCACTTGTATAACTTATGTAAAATACTTCAAAATAGAACTGAAAATCACCCTCAGTGATGTCACCTATGGCAGCAGTTTGTTTGAACATGGCAGCAAATGCCAGTCAGTTCCCTTGTACACATTACATGATTCAACATTGAGGAGTAAGGAAGGTGTGGTTCAAGTCAAACCCTGAGGATGTAAATCAATCTCAGTACAACTAGCACTGTGATTTGAACGCACTGTTGGTTTGTGCAGTAATTATCGTTTGTTCTTTGCTTTAG
Seq C2 exon
GGTTCTCATCCGAGGAGGAGGACAATGTGGCTTCCTGAGTGACAATGGGATCAGCAGTGGCAGGGACTATACACATAGGAAGTGGATTTGTAACAAGTCCAGCAGCTACACCTCACAGTACCCACTATTTGTAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000061757:ENSRNOT00000088670:4
Average complexity
IR
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:
PF0005916=Lectin_C=FE(36.5=100)
A:
NA
C2:
PF0005916=Lectin_C=PD(33.3=69.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTTCTGAAGAGATACAAGGGACCT
R:
ACAAATAGTGGGTACTGTGAGGTG
Band lengths:
238-1135
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]