RnoINT0022654 @ rn6
Intron Retention
Gene
ENSRNOG00000006523 | Atl2
Description
atlastin GTPase 2 [Source:RGD Symbol;Acc:1305125]
Coordinates
chr6:2602958-2604696:+
Coord C1 exon
chr6:2602958-2603085
Coord A exon
chr6:2603086-2604639
Coord C2 exon
chr6:2604640-2604696
Length
1554 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
CGAATCTTCTGTCTTTTTAGGCA
3' ss Score
9.38
Exon sequences
Seq C1 exon
ATATTGATGAAGACTTTAAACGGGAGCTTCGGAATCTGGTTCCATTGCTGCTTGCTCCTGAGAATCTCGTTGAGAAAGAGATAAGTGGATCTAAAGTCACTTGTAGAGATCTTGTAGAGTATTTTAAG
Seq A exon
GTAGGTGAACTCTAAGCTAAATGACTCCGTCTCAAAAAGATATGTCGTTAAGCTTTTAACACATCTTTACAGACAAGAAATTTACTGTCTAGAAAAAAATGTATATTTTTCTGCCTTGAATTCATTATATCAGCATTAAGGATACAGAACGGTCTGGAGAGACCGTTATTAAAAGTACTTGCATAATCATGGGGACCCAAGTTCACATCCTAGGTACCACATAACAAGCTGGGTGACTCACACAGTTGTGACTTGTGTGAGAGGGAGGAGACAGTAGGGCATGGATGGGGCTTGTTGCTTCCCAGATCACTGCAGAAATGTGAGGCCAAAGTTTAGAGAAAGACCATGAATAAAGGGAATGTTGGAGCATGAGAAGAGAGCACGTGACTCCTCTGGTCTCTCCATGGTATGTAGGGTGCACCCAGACACTCGTGCACGTAAACACTCACAGATGGCCGTGGCTGCATGTGGGACATACACACACATAAGGAAACAGATAAATCTTTTTAAGAAGATGACAGCACACAGTCTTCTACTCGGTGACACTATTTGTTCTCAGAATATTCTTCCTTTTCTACATCTCTGTTGTGGAGAGAAGAGCCATTCATTACATTGTAACACAGTTTTGCCATTGTGAGTGATGCCTGGAATAGCTCTATAGCACAAGTCCTCACAGAGTCTTCCCCTAGAGGTCTGAGAACTAATAACAGTGGCGAGAAGTGTCTGATCTGAGTCTAGTGAGTTAGCTCTGGAGACTTTTTCTGCTCCTTTTCAGCTTTTCCTATTGGGACAAGTTGCCGACAGAGTTAGTTGTATTACTAGCTAGAGACGGGTGGGTGGAGAGCACAGCTAGGGAGGCTGACGGGCTCTGCTCTCCTGGTAGGTACTTAGGTACTTAGCACTTTCTTTCATGAGTTGTTGTTTAATTATGAATGAAATTTGAGTGTGTAGAAAGTCAAGGGAAAATCTCCTGTTTGGACGCCATGAACTTGTCCTCCTCTTCCTTTTTCCTCCTTCCTCCTTGTGTTTGAGGATTTCATTTTGTATGTTGATTAAACCCACACTCTGTTCCCACGCTGCCCCTCATCCCCTTGCCCCTCGCCGCTGGTTCTTGAAACTTCATGTACATTTTTAAGACCCAGCATTATGCTTTGACTACAAATTAGGATTTCTTTTGAGTTAAAATATTTAAGAGTCAAATGATGTTTTAACATGTTTTCTAACATACACATCTGAGACACTGAAAGCAGGAGAGAGTTAAAGATGTCTTTTTATAACATAGGTGATACTTTAGATATAAACATCCAAATGTTAAAAATATTTTAGATAAGTTGGAATTATATTTTAAAATTTTCTGCAGAGGATTTTATTTGGCAACATACCGATGTGTTAATATTCAGGACAGGATTGACTTTGTTGTACTTAGAGTGTGTGAGTTTTAAGGTCTAGAACTTCATTTTTGTGGTGTGAACTCATGTTTAATAATAACTTCTTTGGGGGATGTTGTATCCGATTGTATTGTACAGCAATACAGCGAATCTTCTGTCTTTTTAG
Seq C2 exon
GCATACATTAAAATATATCAAGGAGAGGAACTACCACATCCAAAATCTATGCTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000006523:ENSRNOT00000008988:9
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=0.158
Domain overlap (PFAM):
C1:
PF0226314=GBP=PD(9.6=60.5),PF028419=GBP_C=PU(10.7=32.6)
A:
NA
C2:
PF028419=GBP_C=FE(13.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTGATGAAGACTTTAAACGGGAGCT
R:
CTGAAGCATAGATTTTGGATGTGGT
Band lengths:
182-1736
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]