RnoINT0000328 @ rn6
Intron Retention
Gene
ENSRNOG00000059824 | AABR07001929.1
Description
NA
Coordinates
chr1:62359993-62362553:-
Coord C1 exon
chr1:62361920-62362553
Coord A exon
chr1:62360074-62361919
Coord C2 exon
chr1:62359993-62360073
Length
1846 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGA
5' ss Score
7.41
3' ss Seq
CATCTCCTTCCCATATGCAGGTC
3' ss Score
9.9
Exon sequences
Seq C1 exon
CGGGGAGGGAGGGAGTAAAAGATATGAGAGTTCCTTCATTTGCTCTTTAGTTCCTCCATTCCTTCCTTCAGCCCAGGGTGCTGGTATTCCGAGGTGGGAAGGGATCAGAACCCAGGTTGAAGGGCAGATACCGAGTGCATCATCCTATTTGATCCAATTCTGGTCTATCCTGGGATCTAGTATAGGGGAGGCTGGGCAGAGCAAAGCGCAAGTTCAGTTCAGCTTGGCAGCCAGAGCTGTGTGGCAGGATGCGCAATACTGAGAGGGAGGAGCTGTTACTAATGGGTGGACACCCCTGCCTGATCAGATGGCTTTAGGGGGTTAAAAAAATAAAGCCAACAGGGAAGTATTGGAAGCTAATTAAGTATAAAAAGCCTTTAGTAAGGTGATTAGAAGGAATCTCATAACCGGAAGTGGACTATGTTGGGCGGGTACAGGAGGAGCCTCTCTAAGAAAGCAAGCTTGAGTGACAGGAAATTCCACCTTTCCCTGAAGGACTCGGGGAGCTGCAGGGTCTGGAAGTGGGGGTGGAAGACCCCGGCTTTTATTGGGTTACTTGAAAATTCCATTAAGCCTCAGTTGCCTTCCGGGCTCATTCTCAAAGGGTCAGCAGCGCAGCAGGGGAACCTCCCAG
Seq A exon
GTCAGAGGAGCTTGGGGACTTGGGAAATGGGCAGGAGCCGAGCAGCAGTGTATTTTGCACAGCCGCTCTTAAAGATGCTGCTCTTACAATTCTGTTGCGGATATCTTAGCAGTATCAGGAAGTTTGAGATCCTACAAACTGGGTATTATCCTGATGTTTTCACTTATTTTATGGTTGCCAGAATATTTCCCTAAAATAATCTCGTAGAGCATTTGCAGTATCTGTAGTTTGCATGCTTAGTTCTCTTTGCTTCGGCAGTTACAAAGCTCGAATTCAAATTCATCTATGCTTTTTTAACTCCCCGGTTCCATCACACTGGTCCGGAGAATAGGCCTCCTCAGAGAGTTTTGCAGATATTAGTCATATCAAGCATCAGTTCATATTTAATTGAGTCAAAAATATGTTATAAAGCACCATAGTTGTATACCTGTAAACTTTAAATTTTGTGGTGCAAAGCTTTACTCATTTATTTTCCATCTTAGCTGTATGCACTCTTTGACGTAAATATAGCAGTCAGAAATGTGTCTTTACAATTTGAGTTACAACTGTTATTAAGCCTTAGGTCTGAATGAAAACTGAGGACATGACTGCTCTAAGGTGTGGTTGAGGAGAAGATTTATTGTAGGTTATGTTAACTTGAGTTTTGCCTGAGAAAAATCCATACCACCTTTTGGGCAATCATCATTAAATATTAAATACTGATCAAGCTTTGGACTTGGGTCTCATGTTACAGGGATTTCTAAGGACAAACCTATATACATTTCCCTAAGAGTTTGTTATTTTTCCGAGAACTACAACTCCTAGCATTTTAGGAAGTTTTTTGTTTCTTGGGCAGGTAGTGCTTATGTGTTAACTTTGGGCTTTACAGAATGAGAGAAAAAAACAGCCAGAGGTATCTGGAAGGATCCAGACTTAAACTGGCTGTGAGTTGGGGGGTGGGAGTGGGGGGTAGTTAGTGGAGAGGAGGCTCACAAGAGAGGAACCAGGTACTAAAACAACACCTAACCAAAGATATCCACTGTGATATATTAATAAGCACCTCCATTAGCCATTTTTCCTAAGTTTCTTTGATATCTCACAAGGCCAGACCAGTATGCATGCTGTGGGAGGGCAATGTCAGGCCCCCCTATTTTTATCGATAGGAAACTCACTATAGAGTAAATAAAAATAGAAAGCACATTTTGAATAATTATGATTGCTCACTTATATGAGAAAGATGTCTCCTTAGTTCAAGAAAACCAGTGGAAGGGGAAGCCCTGGGTCCTGCTAAGACTGAACCCCCAGTGAACTAGACTGGTGGCTGGAGGGTGGCAATGGGGGGAGGGTTGGGAGGGGAACACCCATAAGGAAGGGGAGGGGGGAGGGGGATGTTTGCCCGGATACCAGGAAAGGGAATAACACTCGAAATGTATATAAGAAATACTCAAGTTAATAAAAAAAAAAAAGAAAACCACATGTGGGCAAACTGTTAGTTATTTCATGGTTTGTTGACATTGAATTCTGCGACTGTGGGTTTCTTGCCTAGACCCTGTAGTCTGGGCTGTTTTCCAGAGACTTCCCTTTGGAAAAGTACATCGGTCTGGATTCTGTGGGTCAGCATAGTTATCTTACAGTCTTCCTTGCTCCTCCTCAGAGTTACTGGGAAAACAACTCTGCATGTGTGTGAACTCTGTATGCTTAAGTTTCACATTTCATAGGGGAAGGTGAAATCATCAGACAAAAAGATTTTTGCCATGCTATTTTGTATTTGCTTCATGTTTATCTTTTTGGTAGATGTAAGCTTCTTTCATTTTTGTTCCATAAAAAGTTCCCAATACTTTCTGAAGCATCTCCTTCCCATATGCAG
Seq C2 exon
GTCTCCCACTGCCCAGACAGATCTACTCACCTGTGAATCAACTAAGAACCCCGGATGGTGAAGAAAGAGTAAAGACTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059824:ENSRNOT00000089634:1
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
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
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:
GATCAGATGGCTTTAGGGGGT
R:
TAGATCTGTCTGGGCAGTGGG
Band lengths:
358-2204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]