RnoINT0083361 @ rn6
Intron Retention
Gene
ENSRNOG00000025953 | LOC681006
Description
hypothetical protein LOC681006 [Source:RGD Symbol;Acc:1584737]
Coordinates
chr1:279939394-279940943:-
Coord C1 exon
chr1:279940725-279940943
Coord A exon
chr1:279939581-279940724
Coord C2 exon
chr1:279939394-279939580
Length
1144 bp
Sequences
Splice sites
5' ss Seq
TGGGTACGG
5' ss Score
6.54
3' ss Seq
CCCTTGCTGTCTCCTTACAGAAT
3' ss Score
12.36
Exon sequences
Seq C1 exon
GCTTCATACCATGGCTTAGTTGCCAGGAGAGCCCCGTCGAGGACCGCATGAATTCCTGTGTGAAAGCCTTCCAGGAGAGAACGCAGAGGTACAAGGAGGAGCAGCAGACCCTAAACTGCTCTGTGGCCAACACCCGGCCCCTGAAGCCCATCTGTTCTGAGGACACGGTCCTGTGGGTGCTGCACGAGTATGCCAAGAAGTACCACCCCCTGACTCTGG
Seq A exon
GTACGGCCTCCCCGAAACAGAAAATCAGCCTCTCTTATAGCTGGACCTGCGAGAGATCTCAGCAGGCCACTGTGCAGCTAGAAAGAGCACCTAATGAGCACAGCTTCTGTGGAGGGGAAGGGAACCCATGTGGAGGTGACGAGGACCATTAGGAGTGGAAGGGACCCGTGTGGAGGGGAAGGGAATTATTCAGTCTGTGGAGTCCTCACTGCACAAGCCTGAGGACTTGTTTGATTCCTCCCAGAGCCCATGTACATAAACCACGTATGGTGGCATATGACTGTTGACATTGCATAGGTAGGTCTCAAGGGCTTGCTGACCAACTAGCATAGCCAAATTGATCTCCAGAGGCACTGAGATATCCAGCTTCAAAAATAAGGCGAGACTGTCTAAAGAAGACATTCAGTGTGGACCTTTGGCCTCTATACATATGGGAATACAAACAGGGGCGCGCGCACGCACGCGCGCACGCGCACACACACACACACACACACACACACACACACACACACACACACACACCACAGAGGCACACAGCCCAGTTGTTAAAACTAAGTTGTTTAGGGACTTATCCAGAACATTCAATAATTTATATGTGCAGAGACGATGGGCTAGGTATTCCCTATGGTGCTGTCCAGCTTTGATCTGGTGTCTCTGACCACCCTGCCAATCAGTGTCACCATCAGGACCTAATGACAGCTTCTGGTGCTGATTCTGATGTGCTTTCATGCACCTGGAGACTCTGCTGGATTTAGAATCTGAGAGCTGGTGTGCCTTGGACCTATTCTAACTACTTCCTGGCAGTGTCTCAGAACTTGTCACAGAAGTAACACGTGGAGCTAACAGTAGTGTCTGCTTCCAAGGCTGCTGATGAGAGAAGGAAAGGAGATATTAGGAGAGAAGCTGGCACACAGTGGGGCTCTAGGTTTGGCTGAGACACAATTGGGCCTTAGGTGTGGCTGGCACACAGTGGGGCCCTAGGTTTGACTGGCACACAGTGGGGCCCTAGATGGGGCTGGCACACAGTGGGGCCCTAGGTGGGGCCTAGAAGTTCCTGGGATAACTGTTCCTATGACAGGGAGCTTGGGAGTTATTCCCACTGTGCTTCTCTGAAACTCTCAGGACCCTTGCTGTCTCCTTACAG
Seq C2 exon
AATGCAAAAACCAGAAGAAACCACTAAGGGAGCCCCCTATCCCTGGCTGGGCAGGCTACCTGCCCAGAGCCAAGGTCACTGAATTTGGCTGTGCCACAAGGTATACCCTCATGGCCAGAAAGTGCTACGAGGACTTCCTGGGTTTGGTGGAGCAGGCCAAGAGGGCTCAACTGAAGCCTTATGAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025953:ENSRNOT00000039453:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.016
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion 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:
GGACCGCATGAATTCCTGTGT
R:
GCTTCAGTTGAGCCCTCTTGG
Band lengths:
356-1500
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]