RnoINT0004979 @ rn6
Intron Retention
Gene
ENSRNOG00000048929 | AABR07044389.1
Description
NA
Coordinates
chr20:4510034-4510524:-
Coord C1 exon
chr20:4510429-4510524
Coord A exon
chr20:4510174-4510428
Coord C2 exon
chr20:4510034-4510173
Length
255 bp
Sequences
Splice sites
5' ss Seq
AGGGTATGT
5' ss Score
8.34
3' ss Seq
GACATCAACCCTGGTTCTAGGTC
3' ss Score
6.36
Exon sequences
Seq C1 exon
AAGGAGCTTCAAGATCGGGGAGAGATCCAAGTCATCCAGCTAGGCTTTGACTTGGATGCCCACGGAATTGTCTTCACTGAAGACTACAGGACCAGG
Seq A exon
GTATGTGAGAGAGGGTGGGGCATGAGTGTGGTGGTCTCAGGAGGGAAGTTGGGCATAGAAATAACTGACGACAGAAACGTTATCCCTAGCCCGCGTCCTCATAGAGAGCACAGAGCTCTGGTAATGAGTGAGGTGTGGGGGGTATGGGGGAGGGAAGAGGGAAGTAGAAGGACCCAGGGAGAGGGGAGGCAGAGATAAGAGAGCCGCAGTGGGGGATGGGCTCATGCTGGCCACCGACATCAACCCTGGTTCTAG
Seq C2 exon
GTCCTCAAGGCCTGCGATGGCCGACCATGCGCTGGGGCGGTGCAGAAGTTCCTGGCCTCGGTGCTCCCAGCCTGTGGGGACCTTAGTTTCCAGCAGGACCAGATGACACAGACTTACGGCTTCAGGGACTCGGAGATCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000048929:ENSRNOT00000072446:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
NonCoding
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
AAGGAGCTTCAAGATCGGGGA
R:
GTGATCTCCGAGTCCCTGAAG
Band lengths:
236-491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]